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Mammalian Phenotype (MP): abnormal immune system morphology
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Phenotype Ontology
Like Gene Ontology (GO), phenotypy ontology classifies and organizes gene-mutant/null phenotypic information from the very general at the top to more specific terms in the directed acyclic graph (DAG) by viewing an individual term as a node and its relations to parental terms (allowing for multiple parents) as directed edges. To navigate this hierarchy, we display all parental phenotypic terms to the current phenotypic term of interest ordered by their shortest distances to the current term. Also, only direct children phenotypic terms of the current phenotypic term are listed. Phenotype ontologies we have incorporated are as follows:
- Disease Ontology (DO) Ontology (DO) DO semantically integrates disease and medical vocabularies through extensive cross mapping of DO terms to MeSH, ICD, NCI thesaurus, SNOMED and OMIM.
- Human Phenotype (HP) Ontology (HP) HP captures phenotypic abnormalities that are described in OMIM, along with the corresponding disease-causing genes. It includes three complementary biological concepts: Mode_of_Inheritance (MI), ONset_and_clinical_course (ON), and Phenotypic_Abnormality (PA).
- Mouse Phenotype (MP) Ontology (MP) MP describes phenotypes of the mouse after a specific gene is genetically disrupted. Using it, Mouse Genome Informatics (MGI) provides high-coverate gene-level phenotypes for the mouse.
- Worm Phenotype (WP) Ontology (WP) WP classifies and organizes phenotype descriptions for C. elegans and other nematodes. Using it, WormBase provides primary resource for phenotype annotations for C. elegans.
- Yeast Phenotype (YP) Ontology (YP) Based on YP which is the major contributor to the Ascomycete phenotype ontology, Saccharomyces Genome Database (SGD) provides single mutant phenotypes for every gene in the yeast genome.
- Fly Phenotype (FP) Ontology (FP) FP refers to FlyBase controlled vocabulary. Specifically, a structured controlled vocabulary is used for the annotation of alleles (for their mutagen etc) in FlyBase.
- Fly Anatomy (FA) Ontology (FA) FA is a structured controlled vocabulary of the anatomy of Drosophila melanogaster, used for the description of phenotypes and where a gene is expressed.
- Zebrafish Anatomy (ZA) Ontology (ZA) ZA displays anatomical terms of the zebrafish using standard anatomical nomenclature, together with affected genes.
- Xenopus Anatomy (XA) Ontology (XA) XA represents the lineage of tissues and the timing of development for frogs (Xenopus laevis and Xenopus tropicalis). It is used to annotate Xenopus gene expression patterns and mutant and morphant phenotypes.
- Arabidopsis Plant Ontology (AP) Ontology (AP) As a major contributor to Plant Ontology which describes plant anatomical and morphological structures (AN) and growth and developmental stages (DE), the Arabidopsis Information Resource (TAIR) provides arabidopsis plant ontology annotations for the model higher plant Arabidopsis thaliana.
- Enzyme Commission (EC) Ontology (EC) Each enzyme is allocated a four-digit EC number, the first three digits of which define the reaction catalysed and the fourth of which is a unique identifier (serial number). Each enzyme is also assigned a systematic name that uniquely defines the reaction catalysed.
- DrugBank ATC (DB) Ontology (DB) In the Anatomical Therapeutic Chemical (ATC) classification system, drugs are classified in groups at five different levels according to the organ or system (1st level, anatomical main group) on which they act and their therapeutic (2nd level, therapeutic subgroup), pharmacological (3rd level, pharmacological subgroup) and chemical properties (4th level, chemical subgroup; 5th level, chemical substance). Only drugs in DrugBank are considered.
- UniProtKB KeyWords (KW) Ontology (KW) Keywords in UniProtKB are controlled vocabulary, providing a summary of the entry content and are used to index UniProtKB/Swiss-Prot entries based on 10 categories (the category "Technical term" being excluded here). Each keyword is attributed manually to UniProtKB/Swiss-Prot entries and automatically to UniProtKB/TrEMBL entries (according to specific annotation rules).
- UniProtKB UniPathway (UP) Ontology (UP) UP is a fully manually curated resource for the representation and annotation of metabolic pathways, being used as controlled vocabulary for pathway annotation in UniProtKB.
Structural Domain Phenotype Ontology and its Annotations
Structural Classification of Proteins (SCOP) classifies evolutionary-related domains into Superfamily level and Family level. Using the phenotype ontologies above, we have generated the domain-centric phenotype annotations, and further identified those phenotype terms which are the most informative to annotate SCOP domains. Promisingly, domain-centric phenotypic annotations can serve as an alternative starting point to explore genotype-phenotype relationships. We provide several relevant files for the download, including the annotation and the corresponding ontology for each phenotype ontology.
- Structural Domain Disease Ontology (DO) Ontology (SDDO) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2DO.txt, and the corresponding ontology:SDDO.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Human Phenotype (HP) Ontology (SDHP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2HP.txt, and the corresponding ontology:SDHP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Mouse Phenotype (MP) Ontology (SDMP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2MP.txt, and the corresponding ontology:SDMP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Worm Phenotype (WP) Ontology (SDWP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2WP.txt, and the corresponding ontology:SDWP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Yeast Phenotype (YP) Ontology (SDYP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2YP.txt, and the corresponding ontology:SDYP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Fly Phenotype (FP) Ontology (SDFP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2FP.txt, and the corresponding ontology:SDFP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Fly Anatomy (FA) Ontology (SDFA) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2FA.txt, and the corresponding ontology:SDFA.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Zebrafish Anatomy (ZA) Ontology (SDZA) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2ZA.txt, and the corresponding ontology:SDZA.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Xenopus Anatomy (XA) Ontology (SDXA) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2XA.txt, and the corresponding ontology:SDXA.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Arabidopsis Plant Ontology (AP) Ontology (SDAP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2AP.txt, and the corresponding ontology:SDAP.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain Enzyme Commission (EC) Ontology (SDEC) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2EC.txt, and the corresponding ontology:SDEC.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain DrugBank ATC (DB) Ontology (SDDB) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2DB.txt, and the corresponding ontology:SDDB.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain UniProtKB KeyWords (KW) Ontology (SDKW) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2KW.txt, and the corresponding ontology:SDKW.txt) and mysql tables (Domain2PO.sql.gz).
- Structural Domain UniProtKB UniPathway (UP) Ontology (SDUP) and its Annotations: For details, please visit Document: PO annotation for SCOP domains, wherein Data Availability contains parsable flat files (the annotation:Domain2UP.txt, and the corresponding ontology:SDUP.txt) and mysql tables (Domain2PO.sql.gz).
Supra-domain Phenotype Ontology and its Annotations
Although domain-centric annotations hold great promise in describing phenotypic nature of independent domains, most domains themselves may not just work alone. In multi-domain proteins, they may be combined together to form distinct domain architectures. The recombination of the existing domains is considered as one of major driving forces for phenotypic diversificaation. As an extension, we have also generated supra-domain phenotype ontology and its annotations. Compared to domain-centric phenotype ontology and annotations (SCOP domains at the Superfamily level and Family level), this version focuses on supra-domains and individual SCOP domains ONLY at the Superfamily level. Besides, in terms of individual superfamilies, their annotations from the domain-centric version may be different from those from supra-domains version. Depending on your focus, the former should be used for the consideration of both the Superfamily level and Family level, otherwise the latter should be used if you are interested in domain combinations. Also, we provide several relevant files for the download, including the annotation and the corresponding ontology for each phenotype ontology.
- Supra-domain Domain Disease Ontology (DO) Ontology (SPDO) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2DO.txt, and the corresponding ontology:SPDO.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Human Phenotype (HP) Ontology (SPHO) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2HP.txt, and the corresponding ontology:SPHO.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Mouse Phenotype (MP) Ontology (SPMP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2MP.txt, and the corresponding ontology:SPMP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Worm Phenotype (WP) Ontology (SPWP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2WP.txt, and the corresponding ontology:SPWP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Yeast Phenotype (YP) Ontology (SPYP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2YP.txt, and the corresponding ontology:SPYP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Fly Phenotype (FP) Ontology (SPFP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2FP.txt, and the corresponding ontology:SPFP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Fly Anatomy (FA) Ontology (SPFA) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2FA.txt, and the corresponding ontology:SPFA.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Zebrafish Anatomy (ZA) Ontology (SPZA) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2ZA.txt, and the corresponding ontology:SPZA.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Xenopus Anatomy (XA) Ontology (SPXA) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2XA.txt, and the corresponding ontology:SPXA.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Arabidopsis Plant Ontology (AP) Ontology (SPAP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2AP.txt, and the corresponding ontology:SPAP.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain Enzyme Commission (EC) Ontology (SPEC) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2EC.txt, and the corresponding ontology:SPEC.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain DrugBank ATC (DB) Ontology (SPDB) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2DB.txt, and the corresponding ontology:SPDB.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain UniProtKB KeyWords (KW) Ontology (SPKW) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2KW.txt, and the corresponding ontology:SPKW.txt) and mysql tables (SP2PO.sql.gz).
- Supra-domain Domain UniProtKB UniPathway (UP) Ontology (SPUP) and its Annotations: For details, please visit Document: PO annotation for Supra-domains, wherein Data Availability contains parsable flat files (the annotation:SP2UP.txt, and the corresponding ontology:SPUP.txt) and mysql tables (SP2PO.sql.gz).
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Root: MP Hierarchy (mammalian/mouse phenotype from MGI_4.41)
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Superfamily(show details)
Superfamily domains annotated to this MP term (Not in SDMP)
Highlighted in gray are those with FDR_all>0.001
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Family(show details)
Family domains annotated to this MP term (Not in SDMP)
Highlighted in gray are those with FDR_all>0.001
SCOP term | FDR (all) | Annotation (direct or inherited) |
5' to 3' exonuclease catalytic domain | 0 | DIRECT |
Nitric oxide (NO) synthase oxygenase domain | 0 | DIRECT |
Proteasome subunits | 0 | DIRECT |
STAT DNA-binding domain | 0 | DIRECT |
RUNT domain | 0 | DIRECT |
DNA polymerase beta-like | 0 | DIRECT |
BAFF receptor-like | 0 | DIRECT |
Transcription factor STAT-4 N-domain | 0 | DIRECT |
C5 cytosine-specific DNA methylase, DCM | 0 | DIRECT |
STAT | 0 | DIRECT |
Pyrin domain, PYD | 0 | DIRECT |
Interleukin 17F, IL-17F | 0 | DIRECT |
DNA polymerase beta-like, second domain | 0 | DIRECT |
5' to 3' exonuclease, C-terminal subdomain | 0 | DIRECT |
Phoshoinositide 3-kinase (PI3K), catalytic domain | 0.00002817 | DIRECT |
Rel/Dorsal transcription factors, DNA-binding domain | 0.00003796 | DIRECT |
SH2 domain | 0.0004257 | DIRECT |
NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain | 0.0009134 | DIRECT |
DNA polymerase I | 0.003107 | INHERITED FROM: abnormal B cell differentiation |
Notch domain | 0.008756 | INHERITED FROM: enlarged spleen || increased spleen red pulp amount || abnormal spleen red pulp morphology |
Phoshoinositide 3-kinase (PI3K) helical domain | 0.01166 | INHERITED FROM: abnormal neutrophil cell number || abnormal CD4-positive, alpha beta T cell number || increased neutrophil cell number || abnormal CD8-positive, alpha-beta T cell number || abnormal CD8-positive, alpha beta T cell morphology || abnormal CD4-positive, alpha beta T cell morphology || abnormal alpha-beta T cell number || increased granulocyte number || abnormal effector T cell morphology |
Tissue inhibitor of metalloproteinases, TIMP | 0.02367 | INHERITED FROM: abnormal neutrophil morphology || abnormal neutrophil cell number || abnormal granulocyte number || increased neutrophil cell number || abnormal granulocyte morphology || abnormal phagocyte morphology || increased granulocyte number |
beta-glycanases | 0.02367 | INHERITED FROM: abnormal macrophage morphology || abnormal phagocyte morphology || abnormal mononuclear phagocyte morphology |
Triple coiled coil domain of C-type lectins | 0.02367 | INHERITED FROM: abnormal macrophage morphology || abnormal phagocyte morphology || abnormal monocyte morphology || abnormal monocyte cell number || abnormal mononuclear phagocyte morphology |
Cytochrome p450 reductase N-terminal domain-like | 0.02367 | INHERITED FROM: abnormal macrophage cell number || abnormal macrophage morphology || abnormal osteoclast cell number || increased macrophage cell number || abnormal phagocyte morphology || increased osteoclast cell number || abnormal mononuclear phagocyte morphology || abnormal osteoclast morphology |
TNF receptor-like | 0.03252 | INHERITED FROM: increased CD4-positive, alpha beta T cell number || abnormal spleen white pulp morphology || abnormal mononuclear cell morphology || enlarged spleen || enlarged lymph nodes || abnormal Peyer's patch morphology || abnormal lymphocyte cell number || abnormal thymus epithelium morphology || abnormal lymph node germinal center morphology || abnormal spleen secondary B follicle morphology || abnormal immune system cell morphology || abnormal lymph node B cell domain morphology || abnormal leukocyte morphology || abnormal thymus medulla morphology || abnormal spleen germinal center morphology || abnormal phagocyte morphology || increased leukocyte cell number || absent lymph node germinal center || abnormal spleen B cell follicle morphology || abnormal negative T cell selection || abnormal lymph node secondary follicle morphology || enlarged thymus |
Nuclear receptor ligand-binding domain | 0.03994 | INHERITED FROM: abnormal macrophage cell number || persistent cervical thymus || abnormal phagocyte morphology |
Nuclear receptor | 0.03994 | INHERITED FROM: abnormal macrophage cell number || persistent cervical thymus || abnormal phagocyte morphology |
ets domain | 0.0414 | INHERITED FROM: decreased thymocyte number || decreased pro-B cell number |
C1 set domains (antibody constant domain-like) | 0.0599 | INHERITED FROM: abnormal mononuclear cell morphology || abnormal leukocyte cell number || absent CD8-positive, alpha-beta T cells |
NADPH-cytochrome p450 reductase-like | 0.06525 | INHERITED FROM: abnormal macrophage cell number || abnormal macrophage morphology || abnormal osteoclast cell number || increased macrophage cell number || increased osteoclast cell number || abnormal osteoclast morphology |
NADPH-cytochrome p450 reductase FAD-binding domain-like | 0.06525 | INHERITED FROM: abnormal macrophage cell number || abnormal macrophage morphology || abnormal osteoclast cell number || increased macrophage cell number || increased osteoclast cell number || abnormal osteoclast morphology |
Nuclear receptor coactivator interlocking domain | 0.06525 | INHERITED FROM: enlarged spleen || increased T cell number |
CCCH zinc finger | 0.06796 | INHERITED FROM: enlarged spleen || increased mature B cell number || enlarged lymph nodes || abnormal lymph node size || abnormal thymus development || abnormal lymph node morphology |
DEATH domain, DD | 0.0891 | INHERITED FROM: abnormal mononuclear cell morphology || abnormal thymus morphology || increased transitional stage B cell number || enlarged lymph nodes || abnormal Peyer's patch morphology || abnormal lymphocyte cell number || abnormal spleen secondary B follicle morphology || abnormal thymus medulla morphology || abnormal spleen germinal center morphology || abnormal Peyer's patch size || abnormal B-1 B cell number || abnormal thymus cortex morphology |
Ran binding protein zinc finger-like | 0.1328 | INHERITED FROM: abnormal B cell number || abnormal B cell morphology || abnormal B-1a B cell morphology || abnormal mature B cell morphology || decreased B-1a cell number || abnormal B-1 B cell number || decreased B cell number |
Interleukin 8-like chemokines | 0.1375 | INHERITED FROM: abnormal immune system cell morphology |
Linker histone H1/H5 | 0.1499 | INHERITED FROM: small thymus || abnormal thymus size |
Long-chain cytokines | 0.1667 | INHERITED FROM: abnormal osteoclast differentiation |
Short-chain cytokines | 0.1884 | INHERITED FROM: increased granulocyte number |
Interferons/interleukin-10 (IL-10) | 0.209 | INHERITED FROM: abnormal phagocyte morphology |
Pointed domain | 0.2615 | INHERITED FROM: decreased lymphocyte cell number || decreased thymocyte number || abnormal lymphocyte cell number || abnormal mature B cell morphology || decreased leukocyte cell number || abnormal B cell differentiation |
C2 set domains | 0.2615 | INHERITED FROM: abnormal monocyte morphology |
PLC-like (P variant) | 0.2789 | INHERITED FROM: decreased B-2 B cell number || abnormal B-1 B cell number || abnormal leukopoiesis |
Interleukin-1 (IL-1) | 0.3282 | INHERITED FROM: abnormal neutrophil morphology || abnormal neutrophil cell number || increased neutrophil cell number || abnormal granulocyte morphology || increased granulocyte number |
Inhibitor of apoptosis (IAP) repeat | 0.3282 | INHERITED FROM: abnormal lymph node size || abnormal lymph node morphology |
Platelet-derived growth factor-like | 0.3282 | INHERITED FROM: abnormal lymphatic vessel morphology |
E2F dimerization segment | 0.3282 | INHERITED FROM: abnormal alpha-beta T cell morphology || abnormal lymphopoiesis || abnormal T cell number || decreased double-positive T cell number || abnormal thymus size || abnormal T cell differentiation || abnormal leukopoiesis |
DNA polymerase beta, N-terminal domain-like | 0.3282 | INHERITED FROM: decreased lymphocyte cell number || abnormal immunoglobulin V(D)J recombination || abnormal B cell morphology || abnormal lymphocyte cell number || decreased leukocyte cell number || abnormal lymphopoiesis || abnormal B cell differentiation || abnormal leukopoiesis |
Cell cycle transcription factor e2f-dp | 0.3282 | INHERITED FROM: decreased double-positive T cell number || abnormal T cell differentiation |
Higher-molecular-weight phosphotyrosine protein phosphatases | 0.3467 | INHERITED FROM: increased mature B cell number || abnormal follicular B cell morphology || abnormal B-2 B cell morphology || abnormal immature B cell number |
Pleckstrin-homology domain (PH domain) | 0.3512 | INHERITED FROM: decreased transitional stage B cell number || abnormal B-1 B cell number |
MHC antigen-recognition domain | 0.3608 | INHERITED FROM: abnormal mononuclear cell morphology || absent CD8-positive, alpha-beta T cells || abnormal T cell morphology || abnormal T cell number |
Integrin domains | 0.3608 | INHERITED FROM: decreased T cell number || abnormal eosinophil cell number || abnormal Peyer's patch size || decreased CD4-positive, alpha beta T cell number |
Myb/SANT domain | 0.3771 | INHERITED FROM: arrested B cell differentiation |
Ankyrin repeat | 0.3786 | INHERITED FROM: abnormal Peyer's patch T cell area morphology |
WWE domain | 0.4113 | INHERITED FROM: abnormal spleen white pulp morphology || abnormal spleen marginal zone morphology || decreased mature B cell number || abnormal marginal zone B cell morphology || decreased marginal zone B cell number || abnormal mature B cell number |
Tetraspanin | 0.4113 | INHERITED FROM: abnormal macrophage morphology |
Bcl-2 inhibitors of programmed cell death | 0.4441 | INHERITED FROM: enlarged spleen || enlarged lymph nodes || decreased mature B cell number || increased pre-B cell number || abnormal immune system organ morphology || abnormal immature B cell morphology || abnormal pre-B cell morphology || abnormal lymphopoiesis || abnormal T cell number || abnormal T cell differentiation || abnormal leukopoiesis || abnormal immature B cell number || abnormal mature B cell number |
DBL homology domain (DH-domain) | 0.488 | INHERITED FROM: increased transitional stage T1 B cell number || increased transitional stage B cell number || decreased transitional stage B cell number || abnormal transitional stage T1 B cell morphology || decreased transitional stage T2 B cell number || abnormal transitional stage T2 B cell morphology || abnormal transitional stage B cell morphology |
V set domains (antibody variable domain-like) | 0.5728 | INHERITED FROM: abnormal T-helper 17 cell number || abnormal T-helper 17 cell morphology || abnormal B-1 B cell number |
TNF-like | 0.5909 | INHERITED FROM: absent axillary lymph nodes || abnormal Peyer's patch morphology || small thymus medulla || absent brachial lymph nodes || abnormal thymus epithelium morphology || abnormal lymph node B cell domain morphology || absent popliteal lymph nodes || small Peyer's patches || lymph node hypoplasia || absent cervical lymph nodes || absent inguinal lymph nodes || absent lymph nodes || abnormal spleen germinal center morphology || abnormal mesenteric lymph node morphology || abnormal lymph node morphology |
Protein kinase cysteine-rich domain (cys2, phorbol-binding domain) | 0.5909 | INHERITED FROM: decreased thymocyte number || abnormal positive T cell selection |
Hypoxia-inducible factor Hif2a, C-terminal domain | 0.6018 | INHERITED FROM: abnormal spleen weight |
FHA domain | 0.6382 | INHERITED FROM: abnormal class switch recombination |
MATH domain | 0.65 | INHERITED FROM: abnormal immature B cell morphology || abnormal immature B cell number |
Interferon regulatory factor | 0.7198 | INHERITED FROM: decreased dendritic cell number || enlarged lymph nodes || decreased mature B cell number || decreased T cell number || increased lymphocyte cell number || decreased plasmacytoid dendritic cell number || abnormal T cell number || abnormal plasmacytoid dendritic cell morphology || abnormal plasmacytoid dendritic cell number || abnormal mature B cell number |
Complement control module/SCR domain | 0.7314 | INHERITED FROM: lymph node hypoplasia || abnormal cervical lymph node morphology |
SH3-domain | 0.7536 | INHERITED FROM: abnormal CD8-positive, alpha-beta T cell differentiation || decreased single-positive T cell number |
Interferon regulatory factor 3 (IRF3), transactivation domain | 0.8592 | INHERITED FROM: abnormal spleen white pulp morphology || decreased dendritic cell number || abnormal dendritic cell morphology || decreased mature B cell number || absent lymphocyte || increased B cell number || decreased plasmacytoid dendritic cell number || absent B cells || abnormal B cell differentiation || abnormal plasmacytoid dendritic cell morphology || abnormal plasmacytoid dendritic cell number || abnormal dendritic cell number |
C-type lectin domain | 0.8711 | INHERITED FROM: abnormal cervical lymph node morphology |
Fibrinogen C-terminal domain-like | 0.9362 | INHERITED FROM: abnormal lymphatic vessel morphology |
Calponin-homology domain, CH-domain | 0.988 | INHERITED FROM: increased transitional stage T1 B cell number || increased transitional stage B cell number || abnormal transitional stage T1 B cell morphology || decreased transitional stage T2 B cell number || abnormal transitional stage T2 B cell morphology |
Caspase recruitment domain, CARD | 0.9975 | INHERITED FROM: abnormal follicular B cell morphology |
Homeodomain | 1 | INHERITED FROM: abnormal spleen mesenchyme morphology || athymia || ectopic thymus || abnormal spleen development |
Toll/Interleukin receptor TIR domain | 1 | INHERITED FROM: increased mature B cell number || decreased mature B cell number || abnormal B-1 B cell number |
SCOP term | FDR (all) | Annotation (direct or inherited) |
5' to 3' exonuclease catalytic domain | 0 | Direct |
Nitric oxide (NO) synthase oxygenase domain | 0 | Direct |
Proteasome subunits | 0 | Direct |
STAT DNA-binding domain | 0 | Direct |
RUNT domain | 0 | Direct |
DNA polymerase beta-like | 0 | Direct |
BAFF receptor-like | 0 | Direct |
Transcription factor STAT-4 N-domain | 0 | Direct |
C5 cytosine-specific DNA methylase, DCM | 0 | Direct |
STAT | 0 | Direct |
Pyrin domain, PYD | 0 | Direct |
Interleukin 17F, IL-17F | 0 | Direct |
DNA polymerase beta-like, second domain | 0 | Direct |
5' to 3' exonuclease, C-terminal subdomain | 0 | Direct |
Phoshoinositide 3-kinase (PI3K), catalytic domain | 0.00002817 | Direct |
Rel/Dorsal transcription factors, DNA-binding domain | 0.00003796 | Direct |
SH2 domain | 0.0004257 | Direct |
NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain | 0.0009134 | Direct |
DNA polymerase I | 0.003107 | Inherited |
Notch domain | 0.008756 | Inherited |
Phoshoinositide 3-kinase (PI3K) helical domain | 0.01166 | Inherited |
Tissue inhibitor of metalloproteinases, TIMP | 0.02367 | Inherited |
beta-glycanases | 0.02367 | Inherited |
Triple coiled coil domain of C-type lectins | 0.02367 | Inherited |
Cytochrome p450 reductase N-terminal domain-like | 0.02367 | Inherited |
TNF receptor-like | 0.03252 | Inherited |
Nuclear receptor ligand-binding domain | 0.03994 | Inherited |
Nuclear receptor | 0.03994 | Inherited |
ets domain | 0.0414 | Inherited |
C1 set domains (antibody constant domain-like) | 0.0599 | Inherited |
NADPH-cytochrome p450 reductase-like | 0.06525 | Inherited |
NADPH-cytochrome p450 reductase FAD-binding domain-like | 0.06525 | Inherited |
Nuclear receptor coactivator interlocking domain | 0.06525 | Inherited |
CCCH zinc finger | 0.06796 | Inherited |
DEATH domain, DD | 0.0891 | Inherited |
Ran binding protein zinc finger-like | 0.1328 | Inherited |
Interleukin 8-like chemokines | 0.1375 | Inherited |
Linker histone H1/H5 | 0.1499 | Inherited |
Long-chain cytokines | 0.1667 | Inherited |
Short-chain cytokines | 0.1884 | Inherited |
Interferons/interleukin-10 (IL-10) | 0.209 | Inherited |
Pointed domain | 0.2615 | Inherited |
C2 set domains | 0.2615 | Inherited |
PLC-like (P variant) | 0.2789 | Inherited |
Interleukin-1 (IL-1) | 0.3282 | Inherited |
Inhibitor of apoptosis (IAP) repeat | 0.3282 | Inherited |
Platelet-derived growth factor-like | 0.3282 | Inherited |
E2F dimerization segment | 0.3282 | Inherited |
DNA polymerase beta, N-terminal domain-like | 0.3282 | Inherited |
Cell cycle transcription factor e2f-dp | 0.3282 | Inherited |
Higher-molecular-weight phosphotyrosine protein phosphatases | 0.3467 | Inherited |
Pleckstrin-homology domain (PH domain) | 0.3512 | Inherited |
MHC antigen-recognition domain | 0.3608 | Inherited |
Integrin domains | 0.3608 | Inherited |
Myb/SANT domain | 0.3771 | Inherited |
Ankyrin repeat | 0.3786 | Inherited |
WWE domain | 0.4113 | Inherited |
Tetraspanin | 0.4113 | Inherited |
Bcl-2 inhibitors of programmed cell death | 0.4441 | Inherited |
DBL homology domain (DH-domain) | 0.488 | Inherited |
V set domains (antibody variable domain-like) | 0.5728 | Inherited |
TNF-like | 0.5909 | Inherited |
Protein kinase cysteine-rich domain (cys2, phorbol-binding domain) | 0.5909 | Inherited |
Hypoxia-inducible factor Hif2a, C-terminal domain | 0.6018 | Inherited |
FHA domain | 0.6382 | Inherited |
MATH domain | 0.65 | Inherited |
Interferon regulatory factor | 0.7198 | Inherited |
Complement control module/SCR domain | 0.7314 | Inherited |
SH3-domain | 0.7536 | Inherited |
Interferon regulatory factor 3 (IRF3), transactivation domain | 0.8592 | Inherited |
C-type lectin domain | 0.8711 | Inherited |
Fibrinogen C-terminal domain-like | 0.9362 | Inherited |
Calponin-homology domain, CH-domain | 0.988 | Inherited |
Caspase recruitment domain, CARD | 0.9975 | Inherited |
Homeodomain | 1 | Inherited |
Toll/Interleukin receptor TIR domain | 1 | Inherited |
Plot distribution on phylogenetic tree for Superfamily and/or Family domains annotated by this phenotype term
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A presence/absence matrix is generated using protein domain
architecture data for all genomes in SUPERFAMILY. The PAUP
software is used to produce a single, large tree topology using
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Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Supra-domain (including individual superfamily)
(show details)
Supra-domains annotated to this MP term (Not in SPMP)
Highlighted in gray are those with FDR>0.001
Supra-domain (Single) |
FDR (all) |
Annotation (direct or inherited) |
Nitric oxide (NO) synthase oxygenase domain | 0 | DIRECT |
5' to 3' exonuclease, C-terminal subdomain | 0 | DIRECT |
SPOC domain-like | 0 | DIRECT |
PsbU/PolX domain-like | 0 | DIRECT |
STAT | 0 | DIRECT |
Transcription factor STAT-4 N-domain | 0 | DIRECT |
SH2 domain | 0.0004635 | DIRECT |
p53-like transcription factors | 0.002137 | INHERITED FROM: abnormal granulocyte morphology || abnormal thymus morphology || small Peyer's patches || abnormal leukocyte morphology || decreased dendritic cell number || decreased Peyer's patch number || abnormal dendritic cell morphology || abnormal T cell morphology || increased leukocyte cell number || abnormal mononuclear cell morphology || abnormal T cell differentiation || decreased T cell number || abnormal myeloid leukocyte morphology || abnormal granulocyte number || abnormal inguinal lymph node morphology || abnormal lymphocyte morphology || abnormal lymphopoiesis || abnormal leukopoiesis || abnormal dendritic cell number || abnormal thymus medulla morphology |
L30e-like | 0.004 | INHERITED FROM: abnormal leukocyte cell number || increased leukocyte cell number |
Notch domain | 0.007774 | INHERITED FROM: increased spleen red pulp amount || abnormal spleen red pulp morphology || enlarged spleen |
Flavoproteins | 0.01027 | INHERITED FROM: increased leukocyte cell number || abnormal osteoclast cell number || abnormal osteoclast morphology || abnormal myeloid leukocyte morphology || increased osteoclast cell number |
TNF receptor-like | 0.01583 | INHERITED FROM: abnormal phagocyte morphology || abnormal lymph node germinal center morphology || abnormal leukocyte morphology || abnormal lymph node B cell domain morphology || absent lymph node germinal center || enlarged lymph nodes || abnormal spleen secondary B follicle morphology || abnormal plasma cell number || abnormal mononuclear cell morphology || abnormal immune system cell morphology || abnormal spleen germinal center morphology || abnormal negative T cell selection || abnormal spleen white pulp morphology || enlarged thymus || abnormal Peyer's patch morphology || enlarged spleen || abnormal spleen B cell follicle morphology || abnormal gut-associated lymphoid tissue morphology || increased CD4-positive, alpha beta T cell number || abnormal thymus epithelium morphology || abnormal lymphocyte cell number || abnormal thymus medulla morphology |
Triple coiled coil domain of C-type lectins | 0.02159 | INHERITED FROM: abnormal phagocyte morphology || abnormal mononuclear phagocyte morphology || abnormal macrophage morphology || abnormal monocyte cell number || abnormal monocyte morphology |
NAD kinase/diacylglycerol kinase-like | 0.03881 | INHERITED FROM: increased leukocyte cell number |
Nuclear receptor ligand-binding domain | 0.04066 | INHERITED FROM: persistent cervical thymus || abnormal phagocyte morphology || abnormal macrophage cell number || abnormal macrophage morphology |
Nuclear receptor coactivator interlocking domain | 0.0604 | INHERITED FROM: enlarged spleen || increased T cell number |
CCCH zinc finger | 0.06146 | INHERITED FROM: abnormal lymph node morphology || enlarged lymph nodes || abnormal lymph node size || increased mature B cell number || enlarged spleen || abnormal thymus development |
BRCT domain | 0.06634 | INHERITED FROM: abnormal immunoglobulin V(D)J recombination || abnormal lymphocyte morphology |
4-helical cytokines | 0.08795 | INHERITED FROM: abnormal mesenteric lymph node morphology || enlarged mesenteric lymph nodes |
Ran binding protein zinc finger-like | 0.1324 | INHERITED FROM: abnormal B cell number || abnormal B-1a B cell morphology || decreased B cell number || abnormal B cell morphology || abnormal mature B cell morphology || decreased B-1a cell number || abnormal B-1 B cell number |
Interleukin 8-like chemokines | 0.1388 | INHERITED FROM: abnormal immune system cell morphology |
N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 0.1658 | INHERITED FROM: abnormal CD8-positive, alpha-beta T cell number || decreased T cell number || decreased CD8-positive, alpha-beta T cell number |
TIMP-like | 0.1658 | INHERITED FROM: abnormal neutrophil cell number |
beta-beta-alpha zinc fingers | 0.1755 | INHERITED FROM: decreased DN2 thymocyte number |
Glucocorticoid receptor-like (DNA-binding domain) | 0.2445 | INHERITED FROM: persistent cervical thymus || abnormal osteoclast morphology |
DEATH domain | 0.2504 | INHERITED FROM: abnormal phagocyte morphology || abnormal granulocyte morphology || enlarged lymph nodes || decreased activated T cell number || abnormal spleen germinal center morphology || abnormal Peyer's patch size || abnormal gut-associated lymphoid tissue morphology || abnormal B-1 B cell number |
(Trans)glycosidases | 0.2595 | INHERITED FROM: abnormal phagocyte morphology |
E set domains | 0.3144 | INHERITED FROM: abnormal mesenteric lymph node morphology || abnormal thymus medulla morphology |
Riboflavin synthase domain-like | 0.3265 | INHERITED FROM: increased macrophage cell number || abnormal osteoclast cell number || increased osteoclast cell number |
E2F-DP heterodimerization region | 0.3265 | INHERITED FROM: abnormal T cell differentiation || decreased double-positive T cell number || abnormal lymphopoiesis || abnormal alpha-beta T cell morphology || abnormal leukopoiesis |
Ferredoxin reductase-like, C-terminal NADP-linked domain | 0.3265 | INHERITED FROM: increased macrophage cell number || abnormal osteoclast cell number || increased osteoclast cell number |
DNA polymerase beta, N-terminal domain-like | 0.3265 | INHERITED FROM: abnormal B cell morphology || decreased leukocyte cell number || decreased lymphocyte cell number || abnormal immunoglobulin V(D)J recombination || abnormal B cell differentiation || abnormal lymphocyte morphology || abnormal lymphocyte cell number || abnormal lymphopoiesis || abnormal leukopoiesis |
Integrin domains | 0.3623 | INHERITED FROM: decreased CD4-positive, alpha beta T cell number || abnormal eosinophil cell number || abnormal Peyer's patch size || decreased T cell number || abnormal T cell number |
SET domain | 0.3623 | INHERITED FROM: abnormal B cell differentiation |
MHC antigen-recognition domain | 0.3623 | INHERITED FROM: abnormal T cell morphology || abnormal mononuclear cell morphology || abnormal T cell number || absent CD8-positive, alpha-beta T cells |
DNA/RNA polymerases | 0.3773 | INHERITED FROM: abnormal somatic hypermutation frequency || abnormal B cell differentiation |
Ankyrin repeat | 0.3867 | INHERITED FROM: abnormal Peyer's patch T cell area morphology |
Protein kinase-like (PK-like) | 0.404 | INHERITED FROM: abnormal lymphangiogenesis || decreased thymocyte number |
WWE domain | 0.4089 | INHERITED FROM: abnormal spleen marginal zone morphology || decreased marginal zone B cell number || abnormal mature B cell number || abnormal spleen white pulp morphology || abnormal marginal zone B cell morphology || decreased mature B cell number |
Bcl-2 inhibitors of programmed cell death | 0.4433 | INHERITED FROM: abnormal immature B cell morphology || abnormal mature B cell number || enlarged lymph nodes || abnormal immune system organ morphology || abnormal T cell differentiation || abnormal immature B cell number || enlarged spleen || abnormal T cell number || increased pre-B cell number || abnormal pre-B cell morphology || decreased mature B cell number || abnormal lymphopoiesis || abnormal leukopoiesis |
Terpenoid cyclases/Protein prenyltransferases | 0.4433 | INHERITED FROM: abnormal neutrophil cell number || abnormal neutrophil morphology |
DBL homology domain (DH-domain) | 0.4562 | INHERITED FROM: decreased transitional stage T2 B cell number || abnormal transitional stage T1 B cell morphology || abnormal transitional stage T2 B cell morphology || increased transitional stage T1 B cell number || abnormal transitional stage B cell morphology || decreased transitional stage B cell number || increased transitional stage B cell number |
Immunoglobulin | 0.5229 | INHERITED FROM: abnormal B-1 B cell number |
Integrin alpha N-terminal domain | 0.5685 | INHERITED FROM: decreased T cell number |
TNF-like | 0.5946 | INHERITED FROM: abnormal mesenteric lymph node morphology || absent axillary lymph nodes || small Peyer's patches || abnormal lymph node morphology || small thymus medulla || abnormal lymph node B cell domain morphology || absent lymph nodes || absent inguinal lymph nodes || abnormal spleen germinal center morphology || abnormal osteoclast morphology || absent brachial lymph nodes || lymph node hypoplasia || abnormal Peyer's patch morphology || abnormal thymus epithelium morphology || absent cervical lymph nodes || absent popliteal lymph nodes || abnormal thymus medulla morphology |
Nucleotidyltransferase | 0.6013 | INHERITED FROM: abnormal immunoglobulin V(D)J recombination |
Inhibitor of apoptosis (IAP) repeat | 0.6013 | INHERITED FROM: abnormal lymph node size |
vWA-like | 0.7313 | INHERITED FROM: small lymph nodes |
Complement control module/SCR domain | 0.7342 | INHERITED FROM: abnormal cervical lymph node morphology || lymph node hypoplasia |
Cystine-knot cytokines | 0.7489 | INHERITED FROM: abnormal lymphatic vessel morphology |
Cysteine-rich domain | 0.7489 | INHERITED FROM: abnormal positive T cell selection || decreased thymocyte number |
SH3-domain | 0.7637 | INHERITED FROM: abnormal CD8-positive, alpha-beta T cell differentiation || arrested B cell differentiation || decreased single-positive T cell number |
SMAD/FHA domain | 0.7789 | INHERITED FROM: abnormal class switch recombination || abnormal plasmacytoid dendritic cell morphology || abnormal plasmacytoid dendritic cell number || decreased plasmacytoid dendritic cell number |
Acyl-CoA N-acyltransferases (Nat) | 0.8875 | INHERITED FROM: decreased double-negative T cell number |
Fibrinogen C-terminal domain-like | 0.9328 | INHERITED FROM: abnormal lymphatic vessel morphology |
Homeodomain-like | 0.953 | INHERITED FROM: abnormal spleen mesenchyme morphology || ectopic thymus || athymia |
C-type lectin-like | 0.957 | INHERITED FROM: decreased mast cell number || abnormal cervical lymph node morphology |
Calponin-homology domain, CH-domain | 0.9824 | INHERITED FROM: decreased transitional stage T2 B cell number || abnormal transitional stage T1 B cell morphology || abnormal transitional stage T2 B cell morphology || increased transitional stage T1 B cell number || increased transitional stage B cell number |
Caspase-like | 0.9863 | INHERITED FROM: abnormal spleen marginal zone morphology |
Toll/Interleukin receptor TIR domain | 0.9929 | INHERITED FROM: increased mature B cell number || decreased mature B cell number || abnormal B-1 B cell number |
(show details)
Supra-domains annotated to this MP term (Not in SPMP)
Highlighted in gray are those with FDR>0.001
Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
54236,57889 54236 - Ubiquitin-like 57889 - Cysteine-rich domain | 0 | DIRECT |
48092,47655 48092 - Transcription factor STAT-4 N-domain 47655 - STAT | 0 | DIRECT |
88723,47807 88723 - PIN domain-like 47807 - 5' to 3' exonuclease, C-terminal subdomain | 0 | DIRECT |
47802,81585 47802 - DNA polymerase beta, N-terminal domain-like 81585 - PsbU/PolX domain-like | 0 | DIRECT |
81585,81301 81585 - PsbU/PolX domain-like 81301 - Nucleotidyltransferase | 0 | DIRECT |
49417,55550 49417 - p53-like transcription factors 55550 - SH2 domain | 0 | DIRECT |
49562,51045 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 51045 - WW domain | 0 | DIRECT |
47655,49417 47655 - STAT 49417 - p53-like transcription factors | 0 | DIRECT |
55550,55550 55550 - SH2 domain 55550 - SH2 domain | 0 | DIRECT |
47576,48065 47576 - Calponin-homology domain, CH-domain 48065 - DBL homology domain (DH-domain) | 0 | DIRECT |
49417,81296 49417 - p53-like transcription factors 81296 - E set domains | 0.00002977 | DIRECT |
47986,47986 47986 - DEATH domain 47986 - DEATH domain | 0.0027 | INHERITED FROM: abnormal phagocyte morphology || abnormal leukocyte cell number || abnormal CD4-positive, alpha beta T cell number || abnormal leukocyte morphology || increased leukocyte cell number || abnormal mononuclear cell morphology || abnormal macrophage morphology || abnormal myeloid leukocyte morphology || abnormal lymphocyte morphology || abnormal lymphocyte cell number |
50729,55550 50729 - PH domain-like 55550 - SH2 domain | 0.0027 | INHERITED FROM: abnormal B cell number || abnormal leukocyte morphology || increased neutrophil cell number || abnormal spleen size || increased lymphocyte cell number || abnormal mononuclear cell morphology || abnormal neutrophil cell number || decreased B cell number || abnormal mature B cell morphology || enlarged spleen || abnormal monocyte morphology || abnormal lymphocyte morphology || abnormal neutrophil morphology || abnormal lymph organ size || abnormal leukopoiesis |
50044,55550 50044 - SH3-domain 55550 - SH2 domain | 0.005919 | INHERITED FROM: abnormal immature B cell morphology || decreased immature B cell number || abnormal spleen secondary B follicle morphology || abnormal immune system cell morphology || small thymus || abnormal spleen white pulp morphology || abnormal mature gamma-delta T cell morphology || abnormal immature B cell number || thymus hypoplasia || decreased single-positive T cell number |
57716,48508 57716 - Glucocorticoid receptor-like (DNA-binding domain) 48508 - Nuclear receptor ligand-binding domain | 0.0076 | INHERITED FROM: persistent cervical thymus || abnormal phagocyte morphology || abnormal leukocyte morphology || enlarged lymph nodes || abnormal macrophage cell number || abnormal macrophage morphology || abnormal myeloid leukocyte morphology |
55550,56112 55550 - SH2 domain 56112 - Protein kinase-like (PK-like) | 0.009689 | INHERITED FROM: abnormal spleen secondary B follicle morphology || abnormal mononuclear cell morphology || abnormal immune system cell morphology || small thymus || abnormal spleen white pulp morphology || abnormal mature gamma-delta T cell morphology || spleen hypoplasia || lymph node hypoplasia || decreased leukocyte cell number || abnormal pre-B cell morphology || abnormal thymus cortex morphology || abnormal leukopoiesis |
49562,48371 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 48371 - ARM repeat | 0.01027 | INHERITED FROM: abnormal CD4-positive, alpha beta T cell number || abnormal alpha-beta T cell number || increased granulocyte number || increased neutrophil cell number || abnormal neutrophil cell number || abnormal effector T cell morphology || abnormal CD8-positive, alpha beta T cell morphology || abnormal CD8-positive, alpha-beta T cell number || abnormal CD4-positive, alpha beta T cell morphology || abnormal neutrophil morphology || abnormal alpha-beta T cell morphology |
48371,56112 48371 - ARM repeat 56112 - Protein kinase-like (PK-like) | 0.01064 | INHERITED FROM: abnormal CD4-positive, alpha beta T cell number || increased neutrophil cell number || abnormal CD8-positive, alpha beta T cell morphology || abnormal CD8-positive, alpha-beta T cell number || abnormal CD4-positive, alpha beta T cell morphology |
57196,90193 57196 - EGF/Laminin 90193 - Notch domain | 0.02159 | INHERITED FROM: abnormal spleen size || increased spleen red pulp amount || abnormal spleen red pulp morphology || enlarged spleen |
57944,56436 57944 - Triple coiled coil domain of C-type lectins 56436 - C-type lectin-like | 0.02159 | INHERITED FROM: abnormal phagocyte morphology || abnormal mononuclear phagocyte morphology || abnormal macrophage morphology || abnormal monocyte cell number || abnormal monocyte morphology |
90229,90229 90229 - CCCH zinc finger 90229 - CCCH zinc finger | 0.02551 | INHERITED FROM: abnormal lymph node morphology || enlarged lymph nodes || abnormal lymph node size || small thymus || abnormal thymus size |
57586,57586 57586 - TNF receptor-like 57586 - TNF receptor-like | 0.06634 | INHERITED FROM: abnormal phagocyte morphology || abnormal leukocyte morphology || abnormal spleen secondary B follicle morphology || increased leukocyte cell number || abnormal mononuclear cell morphology || abnormal immune system cell morphology || abnormal spleen germinal center morphology || abnormal neutrophil cell number || abnormal spleen white pulp morphology || abnormal Peyer's patch morphology || enlarged spleen || abnormal spleen B cell follicle morphology || abnormal thymus epithelium morphology || abnormal lymphocyte cell number || abnormal thymus medulla morphology |
54452,48726 54452 - MHC antigen-recognition domain 48726 - Immunoglobulin | 0.1311 | INHERITED FROM: abnormal leukocyte cell number || abnormal T cell morphology || abnormal mononuclear cell morphology || abnormal T cell number || absent CD8-positive, alpha-beta T cells |
55550,50044 55550 - SH2 domain 50044 - SH3-domain | 0.1658 | INHERITED FROM: abnormal immature B cell morphology || abnormal spleen marginal zone morphology || abnormal CD4-positive, alpha beta T cell number || abnormal mature B cell number || decreased immature B cell number || increased lymphocyte cell number || increased leukocyte cell number || arrested B cell differentiation || abnormal effector T cell morphology || abnormal immature B cell number || decreased double-negative T cell number || abnormal transitional stage T2 B cell morphology || decreased follicular B cell number || abnormal double-negative T cell morphology || increased immature B cell number || abnormal follicular B cell morphology || abnormal transitional stage B cell morphology || abnormal lymphocyte morphology || decreased mature B cell number || abnormal lymphocyte cell number || abnormal alpha-beta T cell morphology || decreased single-positive T cell number || abnormal B-1 B cell number || decreased transitional stage B cell number || increased transitional stage B cell number |
57667,57667 57667 - beta-beta-alpha zinc fingers 57667 - beta-beta-alpha zinc fingers | 0.1888 | INHERITED FROM: decreased DN2 thymocyte number |
50729,56112 50729 - PH domain-like 56112 - Protein kinase-like (PK-like) | 0.208 | INHERITED FROM: abnormal thymus morphology || abnormal leukocyte cell number || abnormal T cell morphology || abnormal mononuclear cell morphology || abnormal immune system organ morphology || abnormal T cell differentiation || small thymus || decreased T cell number || abnormal T cell number || decreased leukocyte cell number || abnormal double-positive T cell morphology || decreased lymphocyte cell number || abnormal lymphocyte morphology || abnormal lymphocyte cell number || abnormal lymphopoiesis || abnormal alpha-beta T cell morphology || abnormal leukopoiesis |
46785,144074 46785 - "Winged helix" DNA-binding domain 144074 - E2F-DP heterodimerization region | 0.3265 | INHERITED FROM: abnormal T cell differentiation || decreased double-positive T cell number || abnormal lymphopoiesis || abnormal alpha-beta T cell morphology || abnormal leukopoiesis |
53300,69318 53300 - vWA-like 69318 - Integrin alpha N-terminal domain | 0.3265 | INHERITED FROM: increased CD8-positive, alpha-beta T cell number || decreased CD4-positive, alpha beta T cell number || increased alpha-beta T cell number |
48065,50729 48065 - DBL homology domain (DH-domain) 50729 - PH domain-like | 0.3913 | INHERITED FROM: decreased transitional stage T2 B cell number || abnormal transitional stage T1 B cell morphology || abnormal transitional stage T2 B cell morphology || increased transitional stage T1 B cell number || abnormal transitional stage B cell morphology || decreased transitional stage B cell number || increased transitional stage B cell number |
57850,49599 57850 - RING/U-box 49599 - TRAF domain-like | 0.4089 | INHERITED FROM: abnormal immature B cell morphology || abnormal immature B cell number |
49562,57889 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 57889 - Cysteine-rich domain | 0.4089 | INHERITED FROM: abnormal lymphopoiesis || abnormal leukopoiesis |
69318,69179 69318 - Integrin alpha N-terminal domain 69179 - Integrin domains | 0.4543 | INHERITED FROM: decreased T cell number |
69179,69179 69179 - Integrin domains 69179 - Integrin domains | 0.4543 | INHERITED FROM: decreased T cell number |
48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin | 0.5896 | INHERITED FROM: absent mast cells |
57535,57535 57535 - Complement control module/SCR domain 57535 - Complement control module/SCR domain | 0.6265 | INHERITED FROM: abnormal cervical lymph node morphology |
Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
54236,57889 54236 - Ubiquitin-like 57889 - Cysteine-rich domain | 0 | Direct |
48092,47655 48092 - Transcription factor STAT-4 N-domain 47655 - STAT | 0 | Direct |
88723,47807 88723 - PIN domain-like 47807 - 5' to 3' exonuclease, C-terminal subdomain | 0 | Direct |
47802,81585 47802 - DNA polymerase beta, N-terminal domain-like 81585 - PsbU/PolX domain-like | 0 | Direct |
81585,81301 81585 - PsbU/PolX domain-like 81301 - Nucleotidyltransferase | 0 | Direct |
49417,55550 49417 - p53-like transcription factors 55550 - SH2 domain | 0 | Direct |
49562,51045 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 51045 - WW domain | 0 | Direct |
47655,49417 47655 - STAT 49417 - p53-like transcription factors | 0 | Direct |
55550,55550 55550 - SH2 domain 55550 - SH2 domain | 0 | Direct |
47576,48065 47576 - Calponin-homology domain, CH-domain 48065 - DBL homology domain (DH-domain) | 0 | Direct |
49417,81296 49417 - p53-like transcription factors 81296 - E set domains | 0.00002977 | Direct |
47986,47986 47986 - DEATH domain 47986 - DEATH domain | 0.0027 | Inherited |
50729,55550 50729 - PH domain-like 55550 - SH2 domain | 0.0027 | Inherited |
50044,55550 50044 - SH3-domain 55550 - SH2 domain | 0.005919 | Inherited |
57716,48508 57716 - Glucocorticoid receptor-like (DNA-binding domain) 48508 - Nuclear receptor ligand-binding domain | 0.0076 | Inherited |
55550,56112 55550 - SH2 domain 56112 - Protein kinase-like (PK-like) | 0.009689 | Inherited |
49562,48371 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 48371 - ARM repeat | 0.01027 | Inherited |
48371,56112 48371 - ARM repeat 56112 - Protein kinase-like (PK-like) | 0.01064 | Inherited |
57196,90193 57196 - EGF/Laminin 90193 - Notch domain | 0.02159 | Inherited |
57944,56436 57944 - Triple coiled coil domain of C-type lectins 56436 - C-type lectin-like | 0.02159 | Inherited |
90229,90229 90229 - CCCH zinc finger 90229 - CCCH zinc finger | 0.02551 | Inherited |
57586,57586 57586 - TNF receptor-like 57586 - TNF receptor-like | 0.06634 | Inherited |
54452,48726 54452 - MHC antigen-recognition domain 48726 - Immunoglobulin | 0.1311 | Inherited |
55550,50044 55550 - SH2 domain 50044 - SH3-domain | 0.1658 | Inherited |
57667,57667 57667 - beta-beta-alpha zinc fingers 57667 - beta-beta-alpha zinc fingers | 0.1888 | Inherited |
50729,56112 50729 - PH domain-like 56112 - Protein kinase-like (PK-like) | 0.208 | Inherited |
46785,144074 46785 - "Winged helix" DNA-binding domain 144074 - E2F-DP heterodimerization region | 0.3265 | Inherited |
53300,69318 53300 - vWA-like 69318 - Integrin alpha N-terminal domain | 0.3265 | Inherited |
48065,50729 48065 - DBL homology domain (DH-domain) 50729 - PH domain-like | 0.3913 | Inherited |
57850,49599 57850 - RING/U-box 49599 - TRAF domain-like | 0.4089 | Inherited |
49562,57889 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 57889 - Cysteine-rich domain | 0.4089 | Inherited |
69318,69179 69318 - Integrin alpha N-terminal domain 69179 - Integrin domains | 0.4543 | Inherited |
69179,69179 69179 - Integrin domains 69179 - Integrin domains | 0.4543 | Inherited |
48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin | 0.5896 | Inherited |
57535,57535 57535 - Complement control module/SCR domain 57535 - Complement control module/SCR domain | 0.6265 | Inherited |
(show details)
Supra-domains annotated to this MP term (Not in SPMP)
Highlighted in gray are those with FDR>0.001
Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
50729,50044,55550 50729 - PH domain-like 50044 - SH3-domain 55550 - SH2 domain | 0 | DIRECT |
47802,81585,81301 47802 - DNA polymerase beta, N-terminal domain-like 81585 - PsbU/PolX domain-like 81301 - Nucleotidyltransferase | 0 | DIRECT |
48092,47655,49417 48092 - Transcription factor STAT-4 N-domain 47655 - STAT 49417 - p53-like transcription factors | 0 | DIRECT |
47655,49417,55550 47655 - STAT 49417 - p53-like transcription factors 55550 - SH2 domain | 0 | DIRECT |
55550,56112,56112 55550 - SH2 domain 56112 - Protein kinase-like (PK-like) 56112 - Protein kinase-like (PK-like) | 0 | DIRECT |
50729,55550,56112 50729 - PH domain-like 55550 - SH2 domain 56112 - Protein kinase-like (PK-like) | 0 | DIRECT |
50044,55550,50044 50044 - SH3-domain 55550 - SH2 domain 50044 - SH3-domain | 0 | DIRECT |
47576,48065,50729 47576 - Calponin-homology domain, CH-domain 48065 - DBL homology domain (DH-domain) 50729 - PH domain-like | 0 | DIRECT |
50044,55550,56112 50044 - SH3-domain 55550 - SH2 domain 56112 - Protein kinase-like (PK-like) | 0.00004636 | DIRECT |
57196,57196,57184 57196 - EGF/Laminin 57196 - EGF/Laminin 57184 - Growth factor receptor domain | 0.008982 | INHERITED FROM: abnormal T cell morphology || increased spleen red pulp amount || decreased leukocyte cell number |
49562,48371,56112 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 48371 - ARM repeat 56112 - Protein kinase-like (PK-like) | 0.01027 | INHERITED FROM: abnormal CD4-positive, alpha beta T cell number || abnormal alpha-beta T cell number || increased granulocyte number || increased neutrophil cell number || abnormal neutrophil cell number || abnormal effector T cell morphology || abnormal CD8-positive, alpha beta T cell morphology || abnormal CD8-positive, alpha-beta T cell number || abnormal CD4-positive, alpha beta T cell morphology || abnormal neutrophil morphology || abnormal alpha-beta T cell morphology |
57184,57196,57196 57184 - Growth factor receptor domain 57196 - EGF/Laminin 57196 - EGF/Laminin | 0.03218 | INHERITED FROM: increased spleen red pulp amount || enlarged spleen |
53300,69318,69179 53300 - vWA-like 69318 - Integrin alpha N-terminal domain 69179 - Integrin domains | 0.3265 | INHERITED FROM: increased CD8-positive, alpha-beta T cell number || decreased CD4-positive, alpha beta T cell number || increased alpha-beta T cell number |
57586,57586,57586 57586 - TNF receptor-like 57586 - TNF receptor-like 57586 - TNF receptor-like | 0.3265 | INHERITED FROM: abnormal lymph node morphology || abnormal professional antigen presenting cell morphology || abnormal spleen secondary B follicle morphology || abnormal spleen germinal center morphology || abnormal spleen white pulp morphology || enlarged spleen || abnormal spleen B cell follicle morphology |
49562,57889,57889 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 57889 - Cysteine-rich domain 57889 - Cysteine-rich domain | 0.4089 | INHERITED FROM: abnormal lymphopoiesis || abnormal leukopoiesis |
48726,48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin 48726 - Immunoglobulin | 0.4166 | INHERITED FROM: absent mast cells |
69318,69179,69179 69318 - Integrin alpha N-terminal domain 69179 - Integrin domains 69179 - Integrin domains | 0.4543 | INHERITED FROM: decreased T cell number |
57196,57196,57196 57196 - EGF/Laminin 57196 - EGF/Laminin 57196 - EGF/Laminin | 0.5117 | INHERITED FROM: increased spleen red pulp amount |
Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
50729,50044,55550 50729 - PH domain-like 50044 - SH3-domain 55550 - SH2 domain | 0 | Direct |
47802,81585,81301 47802 - DNA polymerase beta, N-terminal domain-like 81585 - PsbU/PolX domain-like 81301 - Nucleotidyltransferase | 0 | Direct |
48092,47655,49417 48092 - Transcription factor STAT-4 N-domain 47655 - STAT 49417 - p53-like transcription factors | 0 | Direct |
47655,49417,55550 47655 - STAT 49417 - p53-like transcription factors 55550 - SH2 domain | 0 | Direct |
55550,56112,56112 55550 - SH2 domain 56112 - Protein kinase-like (PK-like) 56112 - Protein kinase-like (PK-like) | 0 | Direct |
50729,55550,56112 50729 - PH domain-like 55550 - SH2 domain 56112 - Protein kinase-like (PK-like) | 0 | Direct |
50044,55550,50044 50044 - SH3-domain 55550 - SH2 domain 50044 - SH3-domain | 0 | Direct |
47576,48065,50729 47576 - Calponin-homology domain, CH-domain 48065 - DBL homology domain (DH-domain) 50729 - PH domain-like | 0 | Direct |
50044,55550,56112 50044 - SH3-domain 55550 - SH2 domain 56112 - Protein kinase-like (PK-like) | 0.00004636 | Direct |
57196,57196,57184 57196 - EGF/Laminin 57196 - EGF/Laminin 57184 - Growth factor receptor domain | 0.008982 | Inherited |
49562,48371,56112 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 48371 - ARM repeat 56112 - Protein kinase-like (PK-like) | 0.01027 | Inherited |
57184,57196,57196 57184 - Growth factor receptor domain 57196 - EGF/Laminin 57196 - EGF/Laminin | 0.03218 | Inherited |
53300,69318,69179 53300 - vWA-like 69318 - Integrin alpha N-terminal domain 69179 - Integrin domains | 0.3265 | Inherited |
57586,57586,57586 57586 - TNF receptor-like 57586 - TNF receptor-like 57586 - TNF receptor-like | 0.3265 | Inherited |
49562,57889,57889 49562 - C2 domain (Calcium/lipid-binding domain, CaLB) 57889 - Cysteine-rich domain 57889 - Cysteine-rich domain | 0.4089 | Inherited |
48726,48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin 48726 - Immunoglobulin | 0.4166 | Inherited |
69318,69179,69179 69318 - Integrin alpha N-terminal domain 69179 - Integrin domains 69179 - Integrin domains | 0.4543 | Inherited |
57196,57196,57196 57196 - EGF/Laminin 57196 - EGF/Laminin 57196 - EGF/Laminin | 0.5117 | Inherited |
Plot distribution on phylogenetic tree for Supra-domains (Single/Individual) annotated by this phenotype term
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Trees by TreeVector
A presence/absence matrix is generated using protein domains and supradomains
for all genomes in SUPERFAMILY. The RAxML
software is used to produce a single, large tree topology using
heuristic parsimony methods. Genome combinations, or specific clades, can be displayed as
if individual trees had been produced. However, this data is extracted from the single
large tree. This produces a higher quality topology than if the trees had been produced
on their own, and allows the trees to be displayed instantly.
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