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Mammalian Phenotype (MP): abnormal mononuclear cell morphology
(show info)
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)
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) |
| 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 |
| Interleukin 17F, IL-17F | 0 | DIRECT |
| DNA polymerase beta-like, second domain | 0 | DIRECT |
| TNF receptor-like | 0.000000008195 | DIRECT |
| C1 set domains (antibody constant domain-like) | 0.0000002303 | DIRECT |
| Rel/Dorsal transcription factors, DNA-binding domain | 0.0000529 | DIRECT |
| NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain | 0.0004088 | DIRECT |
| MHC antigen-recognition domain | 0.0004192 | DIRECT |
| DEATH domain, DD | 0.0006132 | DIRECT |
| Phoshoinositide 3-kinase (PI3K), catalytic domain | 0.001214 | INHERITED FROM: abnormal CD8-positive, alpha-beta T cell number || abnormal T cell morphology || abnormal lymphocyte morphology || abnormal T cell number || abnormal CD4-positive, alpha beta T cell morphology || abnormal CD4-positive, alpha beta T cell number || abnormal lymphocyte cell number || abnormal CD8-positive, alpha beta T cell morphology || decreased lymphocyte cell number |
| DNA polymerase beta, N-terminal domain-like | 0.002275 | INHERITED FROM: abnormal B cell differentiation || abnormal lymphopoiesis || abnormal lymphocyte cell number || abnormal immunoglobulin V(D)J recombination || abnormal B cell morphology || decreased lymphocyte cell number |
| Pointed domain | 0.002502 | INHERITED FROM: abnormal mature B cell morphology || abnormal B cell differentiation || abnormal lymphocyte cell number || decreased thymocyte number || decreased lymphocyte cell number |
| E2F dimerization segment | 0.008289 | INHERITED FROM: decreased double-positive T cell number || abnormal T cell number || abnormal T cell differentiation || abnormal lymphopoiesis || abnormal alpha-beta T cell morphology |
| beta-glycanases | 0.008465 | INHERITED FROM: abnormal mononuclear phagocyte morphology || abnormal macrophage morphology |
| Triple coiled coil domain of C-type lectins | 0.008465 | INHERITED FROM: abnormal mononuclear phagocyte morphology || abnormal monocyte cell number || abnormal monocyte morphology || abnormal macrophage morphology |
| Cytochrome p450 reductase N-terminal domain-like | 0.008465 | INHERITED FROM: abnormal mononuclear phagocyte morphology || abnormal osteoclast morphology || increased osteoclast cell number || increased macrophage cell number || abnormal macrophage morphology || abnormal macrophage cell number || abnormal osteoclast cell number |
| Bcl-2 inhibitors of programmed cell death | 0.01338 | INHERITED FROM: abnormal immature B cell morphology || abnormal mature B cell number || abnormal immature B cell number || increased pre-B cell number || decreased mature B cell number || abnormal T cell number || abnormal T cell differentiation || abnormal lymphopoiesis || abnormal pre-B cell morphology |
| Interferon regulatory factor | 0.01338 | INHERITED FROM: abnormal mature B cell number || decreased T cell number || decreased mature B cell number || abnormal T cell number || increased lymphocyte cell number |
| C2 set domains | 0.01338 | INHERITED FROM: abnormal monocyte morphology |
| Phoshoinositide 3-kinase (PI3K) helical domain | 0.0189 | INHERITED FROM: abnormal CD8-positive, alpha-beta T cell number || abnormal effector T cell morphology || abnormal CD4-positive, alpha beta T cell morphology || abnormal CD4-positive, alpha beta T cell number || abnormal alpha-beta T cell number || abnormal CD8-positive, alpha beta T cell morphology |
| SH2 domain | 0.02066 | INHERITED FROM: abnormal immature B cell number || abnormal B-1 B cell number || abnormal lymphopoiesis || decreased single-positive T cell number || decreased thymocyte number || abnormal pre-B cell morphology || arrested B cell differentiation || increased lymphocyte cell number || decreased immature B cell number |
| NADPH-cytochrome p450 reductase-like | 0.02527 | INHERITED FROM: abnormal osteoclast morphology || increased osteoclast cell number || increased macrophage cell number || abnormal macrophage morphology || abnormal macrophage cell number || abnormal osteoclast cell number |
| NADPH-cytochrome p450 reductase FAD-binding domain-like | 0.02527 | INHERITED FROM: abnormal osteoclast morphology || increased osteoclast cell number || increased macrophage cell number || abnormal macrophage morphology || abnormal macrophage cell number || abnormal osteoclast cell number |
| Nuclear receptor coactivator interlocking domain | 0.02527 | INHERITED FROM: increased T cell number |
| Tetraspanin | 0.02527 | INHERITED FROM: abnormal macrophage morphology |
| Pleckstrin-homology domain (PH domain) | 0.02721 | INHERITED FROM: abnormal B-1 B cell number || decreased transitional stage B cell number |
| Myb/SANT domain | 0.03416 | INHERITED FROM: arrested B cell differentiation |
| Long-chain cytokines | 0.03629 | INHERITED FROM: abnormal osteoclast differentiation |
| WWE domain | 0.05088 | INHERITED FROM: abnormal marginal zone B cell morphology || abnormal mature B cell number || decreased mature B cell number || decreased marginal zone B cell number |
| DNA polymerase I | 0.05088 | INHERITED FROM: abnormal B cell differentiation |
| Cell cycle transcription factor e2f-dp | 0.05551 | INHERITED FROM: decreased double-positive T cell number || abnormal T cell differentiation |
| Interferon regulatory factor 3 (IRF3), transactivation domain | 0.08371 | INHERITED FROM: absent lymphocyte || decreased mature B cell number || abnormal B cell differentiation || absent B cells || increased B cell number |
| MATH domain | 0.1116 | INHERITED FROM: abnormal immature B cell morphology || abnormal immature B cell number |
| SH3-domain | 0.1429 | INHERITED FROM: decreased single-positive T cell number || abnormal CD8-positive, alpha-beta T cell differentiation |
| Nuclear receptor ligand-binding domain | 0.1635 | INHERITED FROM: abnormal macrophage cell number |
| Nuclear receptor | 0.1635 | INHERITED FROM: abnormal macrophage cell number |
| PLC-like (P variant) | 0.2908 | INHERITED FROM: decreased B-2 B cell number || abnormal B-1 B cell number |
| Protein kinase cysteine-rich domain (cys2, phorbol-binding domain) | 0.2908 | INHERITED FROM: abnormal positive T cell selection || decreased thymocyte number |
| Caspase recruitment domain, CARD | 0.3039 | INHERITED FROM: abnormal follicular B cell morphology |
| ets domain | 0.3205 | INHERITED FROM: decreased pro-B cell number || decreased thymocyte number |
| FHA domain | 0.3326 | INHERITED FROM: abnormal class switch recombination |
| Higher-molecular-weight phosphotyrosine protein phosphatases | 0.3877 | INHERITED FROM: abnormal immature B cell number || abnormal B-2 B cell morphology || abnormal follicular B cell morphology || increased mature B cell number |
| V set domains (antibody variable domain-like) | 0.4231 | INHERITED FROM: abnormal T-helper 17 cell number || abnormal T-helper 17 cell morphology || abnormal B-1 B cell number |
| Calponin-homology domain, CH-domain | 0.4438 | INHERITED FROM: abnormal transitional stage T2 B cell morphology || decreased transitional stage T2 B cell number || abnormal transitional stage T1 B cell morphology || increased transitional stage B cell number || increased transitional stage T1 B cell number |
| Ran binding protein zinc finger-like | 0.4701 | INHERITED FROM: decreased B-1a cell number || decreased B cell number || abnormal B-1 B cell number || abnormal mature B cell morphology || abnormal B-1a B cell morphology || abnormal B cell morphology || abnormal B cell number |
| DBL homology domain (DH-domain) | 0.615 | INHERITED FROM: abnormal transitional stage T2 B cell morphology || decreased transitional stage T2 B cell number || abnormal transitional stage T1 B cell morphology || abnormal transitional stage B cell morphology || decreased transitional stage B cell number || increased transitional stage B cell number || increased transitional stage T1 B cell number |
| Integrin domains | 0.615 | INHERITED FROM: decreased CD4-positive, alpha beta T cell number || decreased T cell number |
| CCCH zinc finger | 0.6269 | INHERITED FROM: increased mature B cell number |
| Toll/Interleukin receptor TIR domain | 0.7298 | INHERITED FROM: decreased mature B cell number || abnormal B-1 B cell number || increased mature B cell number |
| SCOP term | FDR (all) | Annotation (direct or inherited) |
| 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 |
| Interleukin 17F, IL-17F | 0 | Direct |
| DNA polymerase beta-like, second domain | 0 | Direct |
| TNF receptor-like | 0.000000008195 | Direct |
| C1 set domains (antibody constant domain-like) | 0.0000002303 | Direct |
| Rel/Dorsal transcription factors, DNA-binding domain | 0.0000529 | Direct |
| NF-kappa-B/REL/DORSAL transcription factors, C-terminal domain | 0.0004088 | Direct |
| MHC antigen-recognition domain | 0.0004192 | Direct |
| DEATH domain, DD | 0.0006132 | Direct |
| Phoshoinositide 3-kinase (PI3K), catalytic domain | 0.001214 | Inherited |
| DNA polymerase beta, N-terminal domain-like | 0.002275 | Inherited |
| Pointed domain | 0.002502 | Inherited |
| E2F dimerization segment | 0.008289 | Inherited |
| beta-glycanases | 0.008465 | Inherited |
| Triple coiled coil domain of C-type lectins | 0.008465 | Inherited |
| Cytochrome p450 reductase N-terminal domain-like | 0.008465 | Inherited |
| Bcl-2 inhibitors of programmed cell death | 0.01338 | Inherited |
| Interferon regulatory factor | 0.01338 | Inherited |
| C2 set domains | 0.01338 | Inherited |
| Phoshoinositide 3-kinase (PI3K) helical domain | 0.0189 | Inherited |
| SH2 domain | 0.02066 | Inherited |
| NADPH-cytochrome p450 reductase-like | 0.02527 | Inherited |
| NADPH-cytochrome p450 reductase FAD-binding domain-like | 0.02527 | Inherited |
| Nuclear receptor coactivator interlocking domain | 0.02527 | Inherited |
| Tetraspanin | 0.02527 | Inherited |
| Pleckstrin-homology domain (PH domain) | 0.02721 | Inherited |
| Myb/SANT domain | 0.03416 | Inherited |
| Long-chain cytokines | 0.03629 | Inherited |
| WWE domain | 0.05088 | Inherited |
| DNA polymerase I | 0.05088 | Inherited |
| Cell cycle transcription factor e2f-dp | 0.05551 | Inherited |
| Interferon regulatory factor 3 (IRF3), transactivation domain | 0.08371 | Inherited |
| MATH domain | 0.1116 | Inherited |
| SH3-domain | 0.1429 | Inherited |
| Nuclear receptor ligand-binding domain | 0.1635 | Inherited |
| Nuclear receptor | 0.1635 | Inherited |
| PLC-like (P variant) | 0.2908 | Inherited |
| Protein kinase cysteine-rich domain (cys2, phorbol-binding domain) | 0.2908 | Inherited |
| Caspase recruitment domain, CARD | 0.3039 | Inherited |
| ets domain | 0.3205 | Inherited |
| FHA domain | 0.3326 | Inherited |
| Higher-molecular-weight phosphotyrosine protein phosphatases | 0.3877 | Inherited |
| V set domains (antibody variable domain-like) | 0.4231 | Inherited |
| Calponin-homology domain, CH-domain | 0.4438 | Inherited |
| Ran binding protein zinc finger-like | 0.4701 | Inherited |
| DBL homology domain (DH-domain) | 0.615 | Inherited |
| Integrin domains | 0.615 | Inherited |
| CCCH zinc finger | 0.6269 | Inherited |
| Toll/Interleukin receptor TIR domain | 0.7298 | Inherited |
Plot distribution on phylogenetic tree for Superfamily and/or Family domains annotated by this phenotype term
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Trees by TreeVector
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
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.
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Supra-domain (including individual superfamily)
(show details)
(show details)
Supra-domains annotated to this MP term (SPMP level: Moderately Informative)
Highlighted in gray are those with FDR>0.001
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
48092,47655
48092 - Transcription factor STAT-4 N-domain
47655 - STAT | 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 |
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 |
57586,57586
57586 - TNF receptor-like
57586 - TNF receptor-like | 0.00000005293 | DIRECT |
55550,56112
55550 - SH2 domain
56112 - Protein kinase-like (PK-like) | 0.00000007451 | DIRECT |
54452,48726
54452 - MHC antigen-recognition domain
48726 - Immunoglobulin | 0.00002983 | DIRECT |
49417,81296
49417 - p53-like transcription factors
81296 - E set domains | 0.00004137 | DIRECT |
47986,47986
47986 - DEATH domain
47986 - DEATH domain | 0.0005013 | DIRECT |
50729,55550
50729 - PH domain-like
55550 - SH2 domain | 0.0005013 | DIRECT |
50729,56112
50729 - PH domain-like
56112 - Protein kinase-like (PK-like) | 0.0006084 | DIRECT |
55550,50044
55550 - SH2 domain
50044 - SH3-domain | 0.001813 | INHERITED FROM: decreased follicular B cell number || decreased double-negative T cell number || abnormal mature B cell number || decreased immature B cell number || abnormal transitional stage T2 B cell morphology || abnormal immature B cell number || abnormal CD4-positive, alpha beta T cell number || abnormal immature B cell morphology || decreased transitional stage B cell number || abnormal B-1 B cell number || decreased single-positive T cell number || increased transitional stage B cell number || abnormal transitional stage B cell morphology || abnormal lymphocyte morphology || decreased mature B cell number || abnormal effector T cell morphology || abnormal alpha-beta T cell morphology || abnormal lymphocyte cell number || increased immature B cell number || abnormal follicular B cell morphology || arrested B cell differentiation || abnormal double-negative T cell morphology || increased lymphocyte cell number |
49562,57889
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
57889 - Cysteine-rich domain | 0.007536 | INHERITED FROM: abnormal lymphopoiesis |
57944,56436
57944 - Triple coiled coil domain of C-type lectins
56436 - C-type lectin-like | 0.007536 | INHERITED FROM: abnormal monocyte cell number || abnormal mononuclear phagocyte morphology || abnormal macrophage morphology || abnormal monocyte morphology |
46785,144074
46785 - "Winged helix" DNA-binding domain
144074 - E2F-DP heterodimerization region | 0.01679 | INHERITED FROM: decreased double-positive T cell number || abnormal T cell differentiation || abnormal alpha-beta T cell morphology || abnormal lymphopoiesis |
49562,48371
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
48371 - ARM repeat | 0.01679 | INHERITED FROM: abnormal CD4-positive, alpha beta T cell morphology || abnormal alpha-beta T cell number || abnormal CD4-positive, alpha beta T cell number || abnormal CD8-positive, alpha-beta T cell number || abnormal CD8-positive, alpha beta T cell morphology || abnormal effector T cell morphology || abnormal alpha-beta T cell morphology |
48371,56112
48371 - ARM repeat
56112 - Protein kinase-like (PK-like) | 0.05043 | INHERITED FROM: abnormal CD4-positive, alpha beta T cell morphology || abnormal CD4-positive, alpha beta T cell number || abnormal CD8-positive, alpha-beta T cell number || abnormal CD8-positive, alpha beta T cell morphology |
57850,49599
57850 - RING/U-box
49599 - TRAF domain-like | 0.1137 | INHERITED FROM: abnormal immature B cell number || abnormal immature B cell morphology |
57667,57667
57667 - beta-beta-alpha zinc fingers
57667 - beta-beta-alpha zinc fingers | 0.1195 | INHERITED FROM: decreased DN2 thymocyte number |
50044,55550
50044 - SH3-domain
55550 - SH2 domain | 0.1406 | INHERITED FROM: decreased immature B cell number || abnormal immature B cell number || abnormal immature B cell morphology || decreased single-positive T cell number || abnormal mature gamma-delta T cell morphology |
57716,48508
57716 - Glucocorticoid receptor-like (DNA-binding domain)
48508 - Nuclear receptor ligand-binding domain | 0.209 | INHERITED FROM: abnormal macrophage morphology || abnormal macrophage cell number |
69318,69179
69318 - Integrin alpha N-terminal domain
69179 - Integrin domains | 0.458 | INHERITED FROM: decreased T cell number |
69179,69179
69179 - Integrin domains
69179 - Integrin domains | 0.458 | INHERITED FROM: decreased T cell number |
48065,50729
48065 - DBL homology domain (DH-domain)
50729 - PH domain-like | 0.6027 | INHERITED FROM: abnormal transitional stage T2 B cell morphology || decreased transitional stage T2 B cell number || decreased transitional stage B cell number || abnormal transitional stage T1 B cell morphology || increased transitional stage B cell number || abnormal transitional stage B cell morphology || increased transitional stage T1 B cell number |
53300,69318
53300 - vWA-like
69318 - Integrin alpha N-terminal domain | 0.68 | INHERITED FROM: increased CD8-positive, alpha-beta T cell number || increased alpha-beta T cell number || decreased CD4-positive, alpha beta T cell number |
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
48092,47655
48092 - Transcription factor STAT-4 N-domain
47655 - STAT | 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 |
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 |
57586,57586
57586 - TNF receptor-like
57586 - TNF receptor-like | 0.00000005293 | Direct |
55550,56112
55550 - SH2 domain
56112 - Protein kinase-like (PK-like) | 0.00000007451 | Direct |
54452,48726
54452 - MHC antigen-recognition domain
48726 - Immunoglobulin | 0.00002983 | Direct |
49417,81296
49417 - p53-like transcription factors
81296 - E set domains | 0.00004137 | Direct |
47986,47986
47986 - DEATH domain
47986 - DEATH domain | 0.0005013 | Direct |
50729,55550
50729 - PH domain-like
55550 - SH2 domain | 0.0005013 | Direct |
50729,56112
50729 - PH domain-like
56112 - Protein kinase-like (PK-like) | 0.0006084 | Direct |
55550,50044
55550 - SH2 domain
50044 - SH3-domain | 0.001813 | Inherited |
49562,57889
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
57889 - Cysteine-rich domain | 0.007536 | Inherited |
57944,56436
57944 - Triple coiled coil domain of C-type lectins
56436 - C-type lectin-like | 0.007536 | Inherited |
46785,144074
46785 - "Winged helix" DNA-binding domain
144074 - E2F-DP heterodimerization region | 0.01679 | Inherited |
49562,48371
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
48371 - ARM repeat | 0.01679 | Inherited |
48371,56112
48371 - ARM repeat
56112 - Protein kinase-like (PK-like) | 0.05043 | Inherited |
57850,49599
57850 - RING/U-box
49599 - TRAF domain-like | 0.1137 | Inherited |
57667,57667
57667 - beta-beta-alpha zinc fingers
57667 - beta-beta-alpha zinc fingers | 0.1195 | Inherited |
50044,55550
50044 - SH3-domain
55550 - SH2 domain | 0.1406 | Inherited |
57716,48508
57716 - Glucocorticoid receptor-like (DNA-binding domain)
48508 - Nuclear receptor ligand-binding domain | 0.209 | Inherited |
69318,69179
69318 - Integrin alpha N-terminal domain
69179 - Integrin domains | 0.458 | Inherited |
69179,69179
69179 - Integrin domains
69179 - Integrin domains | 0.458 | Inherited |
48065,50729
48065 - DBL homology domain (DH-domain)
50729 - PH domain-like | 0.6027 | Inherited |
53300,69318
53300 - vWA-like
69318 - Integrin alpha N-terminal domain | 0.68 | Inherited |
(show details)
Supra-domains annotated to this MP term (SPMP level: Moderately Informative)
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) | 0.000006408 | DIRECT |
57196,57196,57184
57196 - EGF/Laminin
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.001002 | INHERITED FROM: abnormal T cell morphology |
49562,57889,57889
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
57889 - Cysteine-rich domain
57889 - Cysteine-rich domain | 0.007536 | INHERITED FROM: abnormal lymphopoiesis |
49562,48371,56112
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
48371 - ARM repeat
56112 - Protein kinase-like (PK-like) | 0.01679 | INHERITED FROM: abnormal CD4-positive, alpha beta T cell morphology || abnormal alpha-beta T cell number || abnormal CD4-positive, alpha beta T cell number || abnormal CD8-positive, alpha-beta T cell number || abnormal CD8-positive, alpha beta T cell morphology || abnormal effector T cell morphology || abnormal alpha-beta T cell morphology |
69318,69179,69179
69318 - Integrin alpha N-terminal domain
69179 - Integrin domains
69179 - Integrin domains | 0.458 | INHERITED FROM: decreased T cell number |
53300,69318,69179
53300 - vWA-like
69318 - Integrin alpha N-terminal domain
69179 - Integrin domains | 0.68 | INHERITED FROM: increased CD8-positive, alpha-beta T cell number || increased alpha-beta T cell number || decreased CD4-positive, alpha beta T cell number |
| 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) | 0.000006408 | Direct |
57196,57196,57184
57196 - EGF/Laminin
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.001002 | Inherited |
49562,57889,57889
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
57889 - Cysteine-rich domain
57889 - Cysteine-rich domain | 0.007536 | Inherited |
49562,48371,56112
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
48371 - ARM repeat
56112 - Protein kinase-like (PK-like) | 0.01679 | Inherited |
69318,69179,69179
69318 - Integrin alpha N-terminal domain
69179 - Integrin domains
69179 - Integrin domains | 0.458 | Inherited |
53300,69318,69179
53300 - vWA-like
69318 - Integrin alpha N-terminal domain
69179 - Integrin domains | 0.68 | 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
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