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Worm Phenotype (WP): organ system development variant
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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: WP Hierarchy (worm phenotype from Wormbase Release WS226)
Jump to [ Top · Phenotype Hierarchy · Superfamily · Family · Supra-domain ]
Superfamily(show details)
Superfamily domains annotated to this WP term (Not in SDWP)
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 WP term (SDWP level: Moderately Informative)
Highlighted in gray are those with FDR_all>0.001
SCOP term | FDR (all) | Annotation (direct or inherited) |
Pyk2-associated protein beta ARF-GAP domain | 0 | DIRECT |
POU-specific domain | 0 | DIRECT |
Laminin-type module | 0 | DIRECT |
C-terminal domain of alpha and beta subunits of F1 ATP synthase | 0 | DIRECT |
14-3-3 protein | 0 | DIRECT |
Frizzled cysteine-rich domain | 0 | DIRECT |
Integrin domains | 0 | DIRECT |
N-terminal domain of alpha and beta subunits of F1 ATP synthase | 0 | DIRECT |
Mo25 protein | 0 | DIRECT |
Canonical RBD | 0.000000002527 | DIRECT |
Homeodomain | 0.00000003749 | DIRECT |
Bromodomain | 0.000000182 | DIRECT |
Sm motif of small nuclear ribonucleoproteins, SNRNP | 0.000004401 | DIRECT |
Pleckstrin-homology domain (PH domain) | 0.000004733 | DIRECT |
Fibronectin type III | 0.000005464 | DIRECT |
Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor | 0.00003752 | DIRECT |
I set domains | 0.00007889 | DIRECT |
Tubulin, C-terminal domain | 0.0001487 | DIRECT |
Band 7/SPFH domain | 0.0001525 | DIRECT |
Erythroid transcription factor GATA-1 | 0.0001525 | DIRECT |
Sema domain | 0.0002252 | DIRECT |
Sec7 domain | 0.0002252 | DIRECT |
HLH, helix-loop-helix DNA-binding domain | 0.0002291 | DIRECT |
PDZ domain | 0.0003716 | DIRECT |
Pumilio repeat | 0.0004229 | DIRECT |
ets domain | 0.0004229 | DIRECT |
WD40-repeat | 0.0004944 | DIRECT |
Tubulin, GTPase domain | 0.0005361 | DIRECT |
Intermediate filament protein, coiled coil region | 0.0009712 | DIRECT |
Proteasome subunits | 0.001022 | INHERITED FROM: somatic gonad development variant || oocyte septum formation variant || reproductive system development variant |
DNA replication initiator (cdc21/cdc54) N-terminal domain | 0.001104 | INHERITED FROM: somatic gonad development variant || gonad development variant || reproductive system development variant || male somatic gonad development variant || male gonad development variant |
Cullin repeat | 0.001104 | INHERITED FROM: reproductive system development variant |
SCF ubiquitin ligase complex WHB domain | 0.001104 | INHERITED FROM: reproductive system development variant |
Plexin repeat | 0.001104 | INHERITED FROM: reproductive system development variant || vulva uterus connection defective || anchor cell invasion variant |
Cdc48 domain 2-like | 0.00133 | INHERITED FROM: gonad development variant || reproductive system development variant |
DEATH domain, DD | 0.00133 | INHERITED FROM: epithelial system development variant |
Cell cycle transcription factor e2f-dp | 0.00133 | INHERITED FROM: vulva development variant || vulval cell induction variant || vulva cell fate specification variant || reproductive system development variant || vulval cell induction increased || multivulva |
Cdc48 N-terminal domain-like | 0.00133 | INHERITED FROM: gonad development variant || reproductive system development variant |
PHD domain | 0.001346 | INHERITED FROM: vulval cell induction variant || reproductive system development variant || vulval cell induction increased || multivulva |
Cyclin | 0.001607 | INHERITED FROM: male gonad development variant |
HMG-box | 0.001607 | INHERITED FROM: exploded through vulva || male gonad development variant |
Myosin rod fragments | 0.001785 | INHERITED FROM: striated muscle development variant || body wall muscle development variant || muscle system development variant |
Protein kinases, catalytic subunit | 0.002733 | INHERITED FROM: posterior reversed vulval lineage || excretory secretory system development variant || no Intestine || excess pharyngeal cells || extra excretory cells |
G proteins | 0.003088 | INHERITED FROM: extra excretory cells |
Clathrin adaptor core protein | 0.0032 | INHERITED FROM: somatic gonad development variant || oocyte septum formation variant || gonad development variant |
Clathrin coat assembly domain | 0.0032 | INHERITED FROM: intestinal development variant || gut granule development variant || gut granule biogenesis reduced || intestinal cell development variant |
Cullin homology domain | 0.0032 | INHERITED FROM: reproductive system development variant |
Paired domain | 0.003732 | INHERITED FROM: coelomic system development variant || coelomocyte development variant || fewer coelomocytes |
Histone lysine methyltransferases | 0.004923 | INHERITED FROM: vulval cell induction variant || vulval cell induction increased || multivulva |
Transforming growth factor (TGF)-beta | 0.005433 | INHERITED FROM: reproductive system development variant || vulva uterus connection defective || anchor cell invasion variant |
DEP domain | 0.005433 | INHERITED FROM: epithelial system development variant || excess seam cells || fewer seam cells || epithelial development variant |
F1F0 ATP synthase subunit C | 0.005433 | INHERITED FROM: somatic gonad development variant || oocyte septum formation variant || gonad development variant || reproductive system development variant |
Calponin-homology domain, CH-domain | 0.006487 | INHERITED FROM: exploded through vulva |
Laminin G-like module | 0.006865 | INHERITED FROM: muscle system development variant |
Histone deacetylase, HDAC | 0.007103 | INHERITED FROM: vulva development variant |
Group II chaperonin (CCT, TRIC), ATPase domain | 0.007103 | INHERITED FROM: somatic gonad development variant || gonad development variant || male somatic gonad development variant || male gonad development variant |
CCCH zinc finger | 0.01161 | INHERITED FROM: intestinal development variant || excess hypodermal cells || no Intestine || excess pharyngeal cells |
Group II chaperonin (CCT, TRIC), apical domain | 0.0134 | INHERITED FROM: somatic gonad development variant || male somatic gonad development variant || male gonad development variant |
SMAD MH1 domain | 0.0135 | INHERITED FROM: male tail sensory ray development variant || male nervous system development variant || rays fused || nervous system development variant |
RecA protein-like (ATPase-domain) | 0.0135 | INHERITED FROM: somatic gonad development variant || oocyte septum formation variant || gonad development variant |
N-acetyl transferase, NAT | 0.02029 | INHERITED FROM: somatic gonad development variant || distal tip cell development variant || gonad development variant || reproductive system development variant || extra distal tip cells |
SMAD domain | 0.04457 | INHERITED FROM: male tail sensory ray development variant || male nervous system development variant || rays fused || nervous system development variant |
Myb/SANT domain | 0.04457 | INHERITED FROM: exploded through vulva |
Armadillo repeat | 0.05081 | INHERITED FROM: excess seam cells || gonad migration variant || fewer seam cells || epithelial development variant |
Nucleosome core histones | 0.06343 | INHERITED FROM: alimentary system development variant || pharyngeal development variant |
Lamin A/C globular tail domain | 0.06783 | INHERITED FROM: muscle system development variant || muscle attachment variant |
TBP-associated factors, TAFs | 0.1653 | INHERITED FROM: vulval cell induction variant || vulva cell fate specification variant |
Cadherin | 0.1653 | INHERITED FROM: vulva uterus connection defective || anchor cell invasion variant |
Chromo domain | 0.2053 | INHERITED FROM: vulval cell induction variant || vulval cell induction increased || multivulva |
Ankyrin repeat | 0.2288 | INHERITED FROM: excretory secretory system development variant |
ABC transporter transmembrane region | 0.3909 | INHERITED FROM: intestinal development variant || gut granule development variant || gut granule biogenesis reduced || intestinal cell development variant |
ABC transporter ATPase domain-like | 0.6421 | INHERITED FROM: gut granule development variant || gut granule biogenesis reduced || intestinal cell development variant |
SCOP term | FDR (all) | Annotation (direct or inherited) |
Pyk2-associated protein beta ARF-GAP domain | 0 | Direct |
POU-specific domain | 0 | Direct |
Laminin-type module | 0 | Direct |
C-terminal domain of alpha and beta subunits of F1 ATP synthase | 0 | Direct |
14-3-3 protein | 0 | Direct |
Frizzled cysteine-rich domain | 0 | Direct |
Integrin domains | 0 | Direct |
N-terminal domain of alpha and beta subunits of F1 ATP synthase | 0 | Direct |
Mo25 protein | 0 | Direct |
Canonical RBD | 0.000000002527 | Direct |
Homeodomain | 0.00000003749 | Direct |
Bromodomain | 0.000000182 | Direct |
Sm motif of small nuclear ribonucleoproteins, SNRNP | 0.000004401 | Direct |
Pleckstrin-homology domain (PH domain) | 0.000004733 | Direct |
Fibronectin type III | 0.000005464 | Direct |
Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor | 0.00003752 | Direct |
I set domains | 0.00007889 | Direct |
Tubulin, C-terminal domain | 0.0001487 | Direct |
Band 7/SPFH domain | 0.0001525 | Direct |
Erythroid transcription factor GATA-1 | 0.0001525 | Direct |
Sema domain | 0.0002252 | Direct |
Sec7 domain | 0.0002252 | Direct |
HLH, helix-loop-helix DNA-binding domain | 0.0002291 | Direct |
PDZ domain | 0.0003716 | Direct |
Pumilio repeat | 0.0004229 | Direct |
ets domain | 0.0004229 | Direct |
WD40-repeat | 0.0004944 | Direct |
Tubulin, GTPase domain | 0.0005361 | Direct |
Intermediate filament protein, coiled coil region | 0.0009712 | Direct |
Proteasome subunits | 0.001022 | Inherited |
DNA replication initiator (cdc21/cdc54) N-terminal domain | 0.001104 | Inherited |
Cullin repeat | 0.001104 | Inherited |
SCF ubiquitin ligase complex WHB domain | 0.001104 | Inherited |
Plexin repeat | 0.001104 | Inherited |
Cdc48 domain 2-like | 0.00133 | Inherited |
DEATH domain, DD | 0.00133 | Inherited |
Cell cycle transcription factor e2f-dp | 0.00133 | Inherited |
Cdc48 N-terminal domain-like | 0.00133 | Inherited |
PHD domain | 0.001346 | Inherited |
Cyclin | 0.001607 | Inherited |
HMG-box | 0.001607 | Inherited |
Myosin rod fragments | 0.001785 | Inherited |
Protein kinases, catalytic subunit | 0.002733 | Inherited |
G proteins | 0.003088 | Inherited |
Clathrin adaptor core protein | 0.0032 | Inherited |
Clathrin coat assembly domain | 0.0032 | Inherited |
Cullin homology domain | 0.0032 | Inherited |
Paired domain | 0.003732 | Inherited |
Histone lysine methyltransferases | 0.004923 | Inherited |
Transforming growth factor (TGF)-beta | 0.005433 | Inherited |
DEP domain | 0.005433 | Inherited |
F1F0 ATP synthase subunit C | 0.005433 | Inherited |
Calponin-homology domain, CH-domain | 0.006487 | Inherited |
Laminin G-like module | 0.006865 | Inherited |
Histone deacetylase, HDAC | 0.007103 | Inherited |
Group II chaperonin (CCT, TRIC), ATPase domain | 0.007103 | Inherited |
CCCH zinc finger | 0.01161 | Inherited |
Group II chaperonin (CCT, TRIC), apical domain | 0.0134 | Inherited |
SMAD MH1 domain | 0.0135 | Inherited |
RecA protein-like (ATPase-domain) | 0.0135 | Inherited |
N-acetyl transferase, NAT | 0.02029 | Inherited |
SMAD domain | 0.04457 | Inherited |
Myb/SANT domain | 0.04457 | Inherited |
Armadillo repeat | 0.05081 | Inherited |
Nucleosome core histones | 0.06343 | Inherited |
Lamin A/C globular tail domain | 0.06783 | Inherited |
TBP-associated factors, TAFs | 0.1653 | Inherited |
Cadherin | 0.1653 | Inherited |
Chromo domain | 0.2053 | Inherited |
Ankyrin repeat | 0.2288 | Inherited |
ABC transporter transmembrane region | 0.3909 | Inherited |
ABC transporter ATPase domain-like | 0.6421 | 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)
Supra-domains annotated to this WP term (Not in SPWP)
Highlighted in gray are those with FDR>0.001
(show details)
Supra-domains annotated to this WP term (Not in SPWP)
Highlighted in gray are those with FDR>0.001
Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
46785,144074 46785 - "Winged helix" DNA-binding domain 144074 - E2F-DP heterodimerization region | 0 | DIRECT |
52540,47917 52540 - P-loop containing nucleoside triphosphate hydrolases 47917 - C-terminal domain of alpha and beta subunits of F1 ATP synthase | 0 | DIRECT |
54585,52540 54585 - Cdc48 domain 2-like 52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | DIRECT |
50692,54585 50692 - ADC-like 54585 - Cdc48 domain 2-like | 0 | DIRECT |
57863,48403 57863 - ArfGap/RecO-like zinc finger 48403 - Ankyrin repeat | 0 | DIRECT |
48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin | 0.0000000003625 | DIRECT |
57196,57196 57196 - EGF/Laminin 57196 - EGF/Laminin | 0.00000003587 | DIRECT |
48726,49265 48726 - Immunoglobulin 49265 - Fibronectin type III | 0.00003437 | DIRECT |
54928,54928 54928 - RNA-binding domain, RBD 54928 - RNA-binding domain, RBD | 0.00005495 | DIRECT |
48371,48371 48371 - ARM repeat 48371 - ARM repeat | 0.000148 | DIRECT |
52490,55307 52490 - Tubulin nucleotide-binding domain-like 55307 - Tubulin C-terminal domain-like | 0.000148 | DIRECT |
49265,49265 49265 - Fibronectin type III 49265 - Fibronectin type III | 0.000291 | DIRECT |
47954,47954 47954 - Cyclin-like 47954 - Cyclin-like | 0.000327 | DIRECT |
74788,75632 74788 - Cullin repeat-like 75632 - Cullin homology domain | 0.0005213 | DIRECT |
75632,46785 75632 - Cullin homology domain 46785 - "Winged helix" DNA-binding domain | 0.0005213 | DIRECT |
81333,81333 81333 - F1F0 ATP synthase subunit C 81333 - F1F0 ATP synthase subunit C | 0.0007299 | DIRECT |
49265,48726 49265 - Fibronectin type III 48726 - Immunoglobulin | 0.0007299 | DIRECT |
101912,103575 101912 - Sema domain 103575 - Plexin repeat | 0.0007299 | DIRECT |
55550,50044 55550 - SH2 domain 50044 - SH3-domain | 0.0007299 | DIRECT |
64356,49447 64356 - SNARE-like 49447 - Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor | 0.0007299 | DIRECT |
48592,54849 48592 - GroEL equatorial domain-like 54849 - GroEL-intermediate domain like | 0.0007461 | DIRECT |
54849,52029 54849 - GroEL-intermediate domain like 52029 - GroEL apical domain-like | 0.0007461 | DIRECT |
48452,48452 48452 - TPR-like 48452 - TPR-like | 0.0008467 | DIRECT |
82895,82895 82895 - TSP-1 type 1 repeat 82895 - TSP-1 type 1 repeat | 0.001593 | INHERITED FROM: gonad development variant |
57903,57903 57903 - FYVE/PHD zinc finger 57903 - FYVE/PHD zinc finger | 0.003044 | INHERITED FROM: reproductive system development variant |
52113,52113 52113 - BRCT domain 52113 - BRCT domain | 0.007702 | INHERITED FROM: epithelial system development variant || exploded through vulva |
48065,50729 48065 - DBL homology domain (DH-domain) 50729 - PH domain-like | 0.008306 | INHERITED FROM: vulva cell fate specification variant || vulval cell induction variant |
64593,74853 64593 - Intermediate filament protein, coiled coil region 74853 - Lamin A/C globular tail domain | 0.01527 | INHERITED FROM: muscle attachment variant || muscle system development variant |
54160,54160 54160 - Chromo domain-like 54160 - Chromo domain-like | 0.01527 | INHERITED FROM: vulval cell induction increased || vulva cell fate specification variant || vulva development variant || multivulva || vulval cell induction variant |
90229,90229 90229 - CCCH zinc finger 90229 - CCCH zinc finger | 0.0337 | INHERITED FROM: excess pharyngeal cells || intestinal development variant || no Intestine || excess hypodermal cells |
52540,90123 52540 - P-loop containing nucleoside triphosphate hydrolases 90123 - ABC transporter transmembrane region | 0.04084 | INHERITED FROM: alimentary system development variant || intestinal development variant || gut granule biogenesis reduced || intestinal cell development variant || gut granule development variant |
49313,49313 49313 - Cadherin-like 49313 - Cadherin-like | 0.08078 | INHERITED FROM: anchor cell invasion variant || vulva uterus connection defective |
90123,52540 90123 - ABC transporter transmembrane region 52540 - P-loop containing nucleoside triphosphate hydrolases | 0.3324 | INHERITED FROM: intestinal development variant || gut granule biogenesis reduced || intestinal cell development variant || gut granule development variant |
Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
46785,144074 46785 - "Winged helix" DNA-binding domain 144074 - E2F-DP heterodimerization region | 0 | Direct |
52540,47917 52540 - P-loop containing nucleoside triphosphate hydrolases 47917 - C-terminal domain of alpha and beta subunits of F1 ATP synthase | 0 | Direct |
54585,52540 54585 - Cdc48 domain 2-like 52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | Direct |
50692,54585 50692 - ADC-like 54585 - Cdc48 domain 2-like | 0 | Direct |
57863,48403 57863 - ArfGap/RecO-like zinc finger 48403 - Ankyrin repeat | 0 | Direct |
48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin | 0.0000000003625 | Direct |
57196,57196 57196 - EGF/Laminin 57196 - EGF/Laminin | 0.00000003587 | Direct |
48726,49265 48726 - Immunoglobulin 49265 - Fibronectin type III | 0.00003437 | Direct |
54928,54928 54928 - RNA-binding domain, RBD 54928 - RNA-binding domain, RBD | 0.00005495 | Direct |
48371,48371 48371 - ARM repeat 48371 - ARM repeat | 0.000148 | Direct |
52490,55307 52490 - Tubulin nucleotide-binding domain-like 55307 - Tubulin C-terminal domain-like | 0.000148 | Direct |
49265,49265 49265 - Fibronectin type III 49265 - Fibronectin type III | 0.000291 | Direct |
47954,47954 47954 - Cyclin-like 47954 - Cyclin-like | 0.000327 | Direct |
74788,75632 74788 - Cullin repeat-like 75632 - Cullin homology domain | 0.0005213 | Direct |
75632,46785 75632 - Cullin homology domain 46785 - "Winged helix" DNA-binding domain | 0.0005213 | Direct |
81333,81333 81333 - F1F0 ATP synthase subunit C 81333 - F1F0 ATP synthase subunit C | 0.0007299 | Direct |
49265,48726 49265 - Fibronectin type III 48726 - Immunoglobulin | 0.0007299 | Direct |
101912,103575 101912 - Sema domain 103575 - Plexin repeat | 0.0007299 | Direct |
55550,50044 55550 - SH2 domain 50044 - SH3-domain | 0.0007299 | Direct |
64356,49447 64356 - SNARE-like 49447 - Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor | 0.0007299 | Direct |
48592,54849 48592 - GroEL equatorial domain-like 54849 - GroEL-intermediate domain like | 0.0007461 | Direct |
54849,52029 54849 - GroEL-intermediate domain like 52029 - GroEL apical domain-like | 0.0007461 | Direct |
48452,48452 48452 - TPR-like 48452 - TPR-like | 0.0008467 | Direct |
82895,82895 82895 - TSP-1 type 1 repeat 82895 - TSP-1 type 1 repeat | 0.001593 | Inherited |
57903,57903 57903 - FYVE/PHD zinc finger 57903 - FYVE/PHD zinc finger | 0.003044 | Inherited |
52113,52113 52113 - BRCT domain 52113 - BRCT domain | 0.007702 | Inherited |
48065,50729 48065 - DBL homology domain (DH-domain) 50729 - PH domain-like | 0.008306 | Inherited |
64593,74853 64593 - Intermediate filament protein, coiled coil region 74853 - Lamin A/C globular tail domain | 0.01527 | Inherited |
54160,54160 54160 - Chromo domain-like 54160 - Chromo domain-like | 0.01527 | Inherited |
90229,90229 90229 - CCCH zinc finger 90229 - CCCH zinc finger | 0.0337 | Inherited |
52540,90123 52540 - P-loop containing nucleoside triphosphate hydrolases 90123 - ABC transporter transmembrane region | 0.04084 | Inherited |
49313,49313 49313 - Cadherin-like 49313 - Cadherin-like | 0.08078 | Inherited |
90123,52540 90123 - ABC transporter transmembrane region 52540 - P-loop containing nucleoside triphosphate hydrolases | 0.3324 | Inherited |
(show details)
Supra-domains annotated to this WP term (Not in SPWP)
Highlighted in gray are those with FDR>0.001
Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
50692,54585,52540 50692 - ADC-like 54585 - Cdc48 domain 2-like 52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | DIRECT |
54585,52540,52540 54585 - Cdc48 domain 2-like 52540 - P-loop containing nucleoside triphosphate hydrolases 52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | DIRECT |
48726,48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin 48726 - Immunoglobulin | 0.00007148 | DIRECT |
57196,57196,57196 57196 - EGF/Laminin 57196 - EGF/Laminin 57196 - EGF/Laminin | 0.00007509 | DIRECT |
48726,48726,49265 48726 - Immunoglobulin 48726 - Immunoglobulin 49265 - Fibronectin type III | 0.0001488 | DIRECT |
74788,75632,46785 74788 - Cullin repeat-like 75632 - Cullin homology domain 46785 - "Winged helix" DNA-binding domain | 0.0005213 | DIRECT |
48452,48452,48452 48452 - TPR-like 48452 - TPR-like 48452 - TPR-like | 0.0007299 | DIRECT |
81296,81296,81296 81296 - E set domains 81296 - E set domains 81296 - E set domains | 0.0007299 | DIRECT |
48592,54849,52029 48592 - GroEL equatorial domain-like 54849 - GroEL-intermediate domain like 52029 - GroEL apical domain-like | 0.0007461 | DIRECT |
82895,82895,82895 82895 - TSP-1 type 1 repeat 82895 - TSP-1 type 1 repeat 82895 - TSP-1 type 1 repeat | 0.001593 | INHERITED FROM: gonad development variant |
90123,52540,90123 90123 - ABC transporter transmembrane region 52540 - P-loop containing nucleoside triphosphate hydrolases 90123 - ABC transporter transmembrane region | 0.04084 | INHERITED FROM: alimentary system development variant || intestinal development variant || gut granule biogenesis reduced || intestinal cell development variant || gut granule development variant |
52540,90123,52540 52540 - P-loop containing nucleoside triphosphate hydrolases 90123 - ABC transporter transmembrane region 52540 - P-loop containing nucleoside triphosphate hydrolases | 0.04084 | INHERITED FROM: alimentary system development variant || intestinal development variant || gut granule biogenesis reduced || intestinal cell development variant || gut granule development variant |
49313,49313,49313 49313 - Cadherin-like 49313 - Cadherin-like 49313 - Cadherin-like | 0.08078 | INHERITED FROM: anchor cell invasion variant || vulva uterus connection defective |
Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
50692,54585,52540 50692 - ADC-like 54585 - Cdc48 domain 2-like 52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | Direct |
54585,52540,52540 54585 - Cdc48 domain 2-like 52540 - P-loop containing nucleoside triphosphate hydrolases 52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | Direct |
48726,48726,48726 48726 - Immunoglobulin 48726 - Immunoglobulin 48726 - Immunoglobulin | 0.00007148 | Direct |
57196,57196,57196 57196 - EGF/Laminin 57196 - EGF/Laminin 57196 - EGF/Laminin | 0.00007509 | Direct |
48726,48726,49265 48726 - Immunoglobulin 48726 - Immunoglobulin 49265 - Fibronectin type III | 0.0001488 | Direct |
74788,75632,46785 74788 - Cullin repeat-like 75632 - Cullin homology domain 46785 - "Winged helix" DNA-binding domain | 0.0005213 | Direct |
48452,48452,48452 48452 - TPR-like 48452 - TPR-like 48452 - TPR-like | 0.0007299 | Direct |
81296,81296,81296 81296 - E set domains 81296 - E set domains 81296 - E set domains | 0.0007299 | Direct |
48592,54849,52029 48592 - GroEL equatorial domain-like 54849 - GroEL-intermediate domain like 52029 - GroEL apical domain-like | 0.0007461 | Direct |
82895,82895,82895 82895 - TSP-1 type 1 repeat 82895 - TSP-1 type 1 repeat 82895 - TSP-1 type 1 repeat | 0.001593 | Inherited |
90123,52540,90123 90123 - ABC transporter transmembrane region 52540 - P-loop containing nucleoside triphosphate hydrolases 90123 - ABC transporter transmembrane region | 0.04084 | Inherited |
52540,90123,52540 52540 - P-loop containing nucleoside triphosphate hydrolases 90123 - ABC transporter transmembrane region 52540 - P-loop containing nucleoside triphosphate hydrolases | 0.04084 | Inherited |
49313,49313,49313 49313 - Cadherin-like 49313 - Cadherin-like 49313 - Cadherin-like | 0.08078 | Inherited |
Plot distribution on phylogenetic tree for Supra-domains (Single/Individual) annotated by this phenotype term
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A presence/absence matrix is generated using protein domains and supradomains
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