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Mammalian Phenotype (MP): integument phenotype
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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)
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) |
| Lamin A/C globular tail domain | 0 | DIRECT |
| PAS domain of steroid receptor coactivator 1A, NCo-A1 | 0 | DIRECT |
| p53 DNA-binding domain-like | 0 | DIRECT |
| RUNT domain | 0 | DIRECT |
| p53 tetramerization domain | 0 | DIRECT |
| Retinoblastoma tumor suppressor domains | 0 | DIRECT |
| Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 0 | DIRECT |
| Phenylalanine metabolism regulatory domain | 0 | DIRECT |
| Intermediate filament protein, coiled coil region | 0.00000637 | DIRECT |
| Integrin beta tail domain | 0.0002478 | DIRECT |
| EGF-type module | 0.000463 | DIRECT |
| Growth factor receptor domain | 0.0005409 | DIRECT |
| Protein kinases, catalytic subunit | 0.00083 | DIRECT |
| Plakin repeat | 0.000909 | DIRECT |
| E2F dimerization segment | 0.000909 | DIRECT |
| Integrin beta EGF-like domains | 0.001184 | INHERITED FROM: abnormal epidermal layer morphology || alopecia |
| VWC domain | 0.002171 | INHERITED FROM: abnormal cutaneous collagen fibril morphology || decreased skin tensile strength || abnormal skin development |
| Notch domain | 0.003251 | INHERITED FROM: thick epidermis || absent sebaceous gland || scaly skin || abnormal hair follicle morphology || abnormal sebaceous gland morphology || abnormal skin morphology |
| Interleukin-1 (IL-1) | 0.003251 | INHERITED FROM: skin inflammation || abnormal skin physiology |
| Nuclear receptor coactivator interlocking domain | 0.003251 | INHERITED FROM: abnormal mammary gland morphology || abnormal mammary gland development |
| STAT DNA-binding domain | 0.003794 | INHERITED FROM: abnormal mammary gland epithelium physiology || abnormal skin adnexa morphology || abnormal mammary gland morphology || abnormal skin adnexa physiology |
| Transcription factor STAT-4 N-domain | 0.003794 | INHERITED FROM: abnormal mammary gland epithelium physiology || abnormal skin adnexa morphology || abnormal mammary gland morphology || abnormal skin adnexa physiology |
| L domain | 0.003794 | INHERITED FROM: abnormal skin adnexa morphology || abnormal mammary gland morphology || abnormal mammary gland physiology || abnormal lactation |
| STAT | 0.003794 | INHERITED FROM: abnormal mammary gland epithelium physiology || abnormal skin adnexa morphology || abnormal mammary gland morphology || abnormal skin adnexa physiology |
| Nuclear receptor | 0.007034 | INHERITED FROM: abnormal mammary gland development || dermal cysts || abnormal mammary gland lobule morphology || shiny skin || abnormal mammary gland alveolus morphology |
| Phoshoinositide 3-kinase (PI3K), catalytic domain | 0.01029 | INHERITED FROM: thick skin |
| Nuclear receptor ligand-binding domain | 0.01133 | INHERITED FROM: abnormal mammary gland development || dermal cysts || abnormal mammary gland lobule morphology || shiny skin || abnormal mammary gland alveolus morphology |
| Animal lipoxigenases | 0.01143 | INHERITED FROM: impaired skin barrier function || abnormal skin physiology |
| Lipoxigenase N-terminal domain | 0.01143 | INHERITED FROM: impaired skin barrier function || abnormal skin physiology |
| Fibroblast growth factors (FGF) | 0.01317 | INHERITED FROM: long hair |
| DNA repair protein MutS, domain III | 0.03245 | INHERITED FROM: increased skin tumor incidence |
| Short-chain cytokines | 0.03607 | INHERITED FROM: abnormal mammary gland development |
| Papain-like | 0.03607 | INHERITED FROM: thick epidermis |
| TNF receptor-like | 0.03689 | INHERITED FROM: skin lesions |
| HLH, helix-loop-helix DNA-binding domain | 0.04068 | INHERITED FROM: absent coat pigmentation |
| SMAD MH1 domain | 0.04618 | INHERITED FROM: abnormal keratinocyte physiology |
| CalX-beta domain | 0.04618 | INHERITED FROM: blistering || bleb || abnormal skin appearance |
| SMAD domain | 0.04618 | INHERITED FROM: abnormal keratinocyte physiology |
| Rhodopsin-like | 0.04691 | INHERITED FROM: abnormal pain threshold || abnormal touch/ nociception |
| Ankyrin repeat | 0.04699 | INHERITED FROM: scaly skin |
| Long-chain cytokines | 0.0522 | INHERITED FROM: abnormal mammary gland morphology || abnormal mammary gland development || abnormal mammary gland duct morphology |
| Laminin-type module | 0.06788 | INHERITED FROM: blistering |
| Transducin (alpha subunit), insertion domain | 0.07177 | INHERITED FROM: abnormal pain threshold |
| Phosphate binding protein-like | 0.08724 | INHERITED FROM: abnormal pain threshold || abnormal touch/ nociception |
| Cadherin | 0.09336 | INHERITED FROM: acantholysis || abnormal epidermis stratum spinosum morphology |
| Leucine zipper domain | 0.104 | INHERITED FROM: thick epidermis || parakeratosis |
| Integrin A (or I) domain | 0.104 | INHERITED FROM: dermal-epidermal separation || abnormal epidermal-dermal junction morphology |
| Phoshoinositide 3-kinase (PI3K) helical domain | 0.1042 | INHERITED FROM: skin lesions |
| L-arabinose binding protein-like | 0.1086 | INHERITED FROM: abnormal pain threshold |
| Homeodomain | 0.1232 | INHERITED FROM: mammary gland hypoplasia |
| Hypoxia-inducible factor Hif2a, C-terminal domain | 0.131 | INHERITED FROM: abnormal skin adnexa physiology |
| Integrin domains | 0.1432 | INHERITED FROM: abnormal epidermal layer morphology || decreased keratinocyte proliferation || blistering || alopecia || abnormal keratinocyte proliferation |
| PAZ domain | 0.1498 | INHERITED FROM: thick epidermis || epidermal cyst || abnormal hair follicle development || abnormal hair follicle morphology || hair follicle degeneration || abnormal skin condition |
| Frizzled cysteine-rich domain | 0.1789 | INHERITED FROM: diluted coat color |
| Paired domain | 0.2007 | INHERITED FROM: white spotting |
| RING finger domain, C3HC4 | 0.201 | INHERITED FROM: dermatitis || skin inflammation |
| Enabled/VASP homology 1 domain (EVH1 domain) | 0.2537 | INHERITED FROM: abnormal nociception after inflammation |
| Fibronectin type III | 0.2636 | INHERITED FROM: increased subcutaneous adipose tissue amount |
| Ngr ectodomain-like | 0.2723 | INHERITED FROM: abnormal skin tensile strength || decreased skin tensile strength || loose skin |
| Nicotinic receptor ligand binding domain-like | 0.3404 | INHERITED FROM: decreased chemically-elicited antinociception |
| Neurotransmitter-gated ion-channel transmembrane pore | 0.3404 | INHERITED FROM: decreased chemically-elicited antinociception |
| FHA domain | 0.4041 | INHERITED FROM: increased mammary adenocarcinoma incidence |
| Protein kinase cysteine-rich domain (cys2, phorbol-binding domain) | 0.443 | INHERITED FROM: increased skin papilloma incidence |
| C-type lectin domain | 0.9571 | INHERITED FROM: skin hemorrhage |
| SCOP term | FDR (all) | Annotation (direct or inherited) |
| Lamin A/C globular tail domain | 0 | Direct |
| PAS domain of steroid receptor coactivator 1A, NCo-A1 | 0 | Direct |
| p53 DNA-binding domain-like | 0 | Direct |
| RUNT domain | 0 | Direct |
| p53 tetramerization domain | 0 | Direct |
| Retinoblastoma tumor suppressor domains | 0 | Direct |
| Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 0 | Direct |
| Phenylalanine metabolism regulatory domain | 0 | Direct |
| Intermediate filament protein, coiled coil region | 0.00000637 | Direct |
| Integrin beta tail domain | 0.0002478 | Direct |
| EGF-type module | 0.000463 | Direct |
| Growth factor receptor domain | 0.0005409 | Direct |
| Protein kinases, catalytic subunit | 0.00083 | Direct |
| Plakin repeat | 0.000909 | Direct |
| E2F dimerization segment | 0.000909 | Direct |
| Integrin beta EGF-like domains | 0.001184 | Inherited |
| VWC domain | 0.002171 | Inherited |
| Notch domain | 0.003251 | Inherited |
| Interleukin-1 (IL-1) | 0.003251 | Inherited |
| Nuclear receptor coactivator interlocking domain | 0.003251 | Inherited |
| STAT DNA-binding domain | 0.003794 | Inherited |
| Transcription factor STAT-4 N-domain | 0.003794 | Inherited |
| L domain | 0.003794 | Inherited |
| STAT | 0.003794 | Inherited |
| Nuclear receptor | 0.007034 | Inherited |
| Phoshoinositide 3-kinase (PI3K), catalytic domain | 0.01029 | Inherited |
| Nuclear receptor ligand-binding domain | 0.01133 | Inherited |
| Animal lipoxigenases | 0.01143 | Inherited |
| Lipoxigenase N-terminal domain | 0.01143 | Inherited |
| Fibroblast growth factors (FGF) | 0.01317 | Inherited |
| DNA repair protein MutS, domain III | 0.03245 | Inherited |
| Short-chain cytokines | 0.03607 | Inherited |
| Papain-like | 0.03607 | Inherited |
| TNF receptor-like | 0.03689 | Inherited |
| HLH, helix-loop-helix DNA-binding domain | 0.04068 | Inherited |
| SMAD MH1 domain | 0.04618 | Inherited |
| CalX-beta domain | 0.04618 | Inherited |
| SMAD domain | 0.04618 | Inherited |
| Rhodopsin-like | 0.04691 | Inherited |
| Ankyrin repeat | 0.04699 | Inherited |
| Long-chain cytokines | 0.0522 | Inherited |
| Laminin-type module | 0.06788 | Inherited |
| Transducin (alpha subunit), insertion domain | 0.07177 | Inherited |
| Phosphate binding protein-like | 0.08724 | Inherited |
| Cadherin | 0.09336 | Inherited |
| Leucine zipper domain | 0.104 | Inherited |
| Integrin A (or I) domain | 0.104 | Inherited |
| Phoshoinositide 3-kinase (PI3K) helical domain | 0.1042 | Inherited |
| L-arabinose binding protein-like | 0.1086 | Inherited |
| Homeodomain | 0.1232 | Inherited |
| Hypoxia-inducible factor Hif2a, C-terminal domain | 0.131 | Inherited |
| Integrin domains | 0.1432 | Inherited |
| PAZ domain | 0.1498 | Inherited |
| Frizzled cysteine-rich domain | 0.1789 | Inherited |
| Paired domain | 0.2007 | Inherited |
| RING finger domain, C3HC4 | 0.201 | Inherited |
| Enabled/VASP homology 1 domain (EVH1 domain) | 0.2537 | Inherited |
| Fibronectin type III | 0.2636 | Inherited |
| Ngr ectodomain-like | 0.2723 | Inherited |
| Nicotinic receptor ligand binding domain-like | 0.3404 | Inherited |
| Neurotransmitter-gated ion-channel transmembrane pore | 0.3404 | Inherited |
| FHA domain | 0.4041 | Inherited |
| Protein kinase cysteine-rich domain (cys2, phorbol-binding domain) | 0.443 | Inherited |
| C-type lectin domain | 0.9571 | 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.
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Supra-domain (including individual superfamily)
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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) |
55021,56534
55021 - ACT-like
56534 - Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 0 | DIRECT |
75399,75399
75399 - Plakin repeat
75399 - Plakin repeat | 0 | DIRECT |
49417,47719
49417 - p53-like transcription factors
47719 - p53 tetramerization domain | 0 | DIRECT |
64593,74853
64593 - Intermediate filament protein, coiled coil region
74853 - Lamin A/C globular tail domain | 0 | DIRECT |
81324,53850
81324 - Voltage-gated potassium channels
53850 - Periplasmic binding protein-like II | 0 | DIRECT |
64593,64593
64593 - Intermediate filament protein, coiled coil region
64593 - Intermediate filament protein, coiled coil region | 0.000004784 | DIRECT |
57196,69687
57196 - EGF/Laminin
69687 - Integrin beta tail domain | 0.0001889 | DIRECT |
55550,55550
55550 - SH2 domain
55550 - SH2 domain | 0.0007243 | DIRECT |
57903,51197
57903 - FYVE/PHD zinc finger
51197 - Clavaminate synthase-like | 0.002675 | INHERITED FROM: abnormal skin adnexa morphology |
57196,57184
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.00277 | INHERITED FROM: abnormal mammary gland physiology |
48092,47655
48092 - Transcription factor STAT-4 N-domain
47655 - STAT | 0.003057 | INHERITED FROM: abnormal mammary gland epithelium physiology || abnormal mammary gland morphology || abnormal skin adnexa morphology || abnormal skin adnexa physiology |
53300,69179
53300 - vWA-like
69179 - Integrin domains | 0.003057 | INHERITED FROM: abnormal hair growth || alopecia || abnormal epidermal layer morphology || abnormal hair follicle morphology |
52058,57184
52058 - L domain-like
57184 - Growth factor receptor domain | 0.003057 | INHERITED FROM: abnormal mammary gland morphology || abnormal mammary gland physiology || abnormal skin adnexa morphology || abnormal lactation |
57184,52058
57184 - Growth factor receptor domain
52058 - L domain-like | 0.003057 | INHERITED FROM: abnormal mammary gland morphology || abnormal mammary gland physiology || abnormal skin adnexa morphology || abnormal lactation |
49417,55550
49417 - p53-like transcription factors
55550 - SH2 domain | 0.003057 | INHERITED FROM: abnormal mammary gland epithelium physiology || abnormal mammary gland morphology || abnormal skin adnexa morphology || abnormal skin adnexa physiology |
47655,49417
47655 - STAT
49417 - p53-like transcription factors | 0.003057 | INHERITED FROM: abnormal mammary gland epithelium physiology || abnormal mammary gland morphology || abnormal skin adnexa morphology || abnormal skin adnexa physiology |
57716,48508
57716 - Glucocorticoid receptor-like (DNA-binding domain)
48508 - Nuclear receptor ligand-binding domain | 0.003277 | INHERITED FROM: shiny skin || abnormal mammary gland development || abnormal mammary gland lobule morphology || abnormal mammary gland alveolus morphology || abnormal nociception after inflammation |
57196,57196
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.004624 | INHERITED FROM: abnormal mammary gland duct morphology || dermal-epidermal separation || absent sebaceous gland || abnormal epidermal-dermal junction morphology |
57424,57424
57424 - LDL receptor-like module
57424 - LDL receptor-like module | 0.009348 | INHERITED FROM: abnormal coat appearance || abnormal coat/ hair morphology |
57196,90193
57196 - EGF/Laminin
90193 - Notch domain | 0.009477 | INHERITED FROM: scaly skin || abnormal skin appearance || abnormal sebaceous gland morphology || thick epidermis || abnormal epidermal layer morphology || abnormal hair follicle morphology || absent sebaceous gland |
46579,64593
46579 - Prefoldin
64593 - Intermediate filament protein, coiled coil region | 0.009477 | INHERITED FROM: abnormal hair follicle morphology |
49723,48484
49723 - Lipase/lipooxygenase domain (PLAT/LH2 domain)
48484 - Lipoxigenase | 0.009564 | INHERITED FROM: abnormal skin physiology || impaired skin barrier function |
47459,55785
47459 - HLH, helix-loop-helix DNA-binding domain
55785 - PYP-like sensor domain (PAS domain) | 0.01431 | INHERITED FROM: abnormal mammary gland morphology || abnormal skin adnexa physiology |
49265,49265
49265 - Fibronectin type III
49265 - Fibronectin type III | 0.01745 | INHERITED FROM: increased subcutaneous adipose tissue amount |
48334,52540
48334 - DNA repair protein MutS, domain III
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.02837 | INHERITED FROM: increased skin tumor incidence |
50729,56112
50729 - PH domain-like
56112 - Protein kinase-like (PK-like) | 0.03988 | INHERITED FROM: increased mammary adenocarcinoma incidence || increased mammary gland tumor incidence || decreased hair follicle number |
57184,57184
57184 - Growth factor receptor domain
57184 - Growth factor receptor domain | 0.0424 | INHERITED FROM: abnormal coat appearance || abnormal coat/ hair morphology || abnormal cutaneous elastic fiber morphology |
47895,52540
47895 - Transducin (alpha subunit), insertion domain
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.04411 | INHERITED FROM: abnormal pain threshold |
49313,49313
49313 - Cadherin-like
49313 - Cadherin-like | 0.06347 | INHERITED FROM: abnormal epidermis stratum spinosum morphology || acantholysis |
55785,55785
55785 - PYP-like sensor domain (PAS domain)
55785 - PYP-like sensor domain (PAS domain) | 0.06364 | INHERITED FROM: abnormal mammary gland morphology |
48371,56112
48371 - ARM repeat
56112 - Protein kinase-like (PK-like) | 0.06364 | INHERITED FROM: skin lesions |
57586,57586
57586 - TNF receptor-like
57586 - TNF receptor-like | 0.06372 | INHERITED FROM: skin lesions |
49562,48371
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
48371 - ARM repeat | 0.09303 | INHERITED FROM: skin lesions |
63712,90112
63712 - Nicotinic receptor ligand binding domain-like
90112 - Neurotransmitter-gated ion-channel transmembrane pore | 0.2999 | INHERITED FROM: decreased chemically-elicited antinociception |
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
55021,56534
55021 - ACT-like
56534 - Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 0 | Direct |
75399,75399
75399 - Plakin repeat
75399 - Plakin repeat | 0 | Direct |
49417,47719
49417 - p53-like transcription factors
47719 - p53 tetramerization domain | 0 | Direct |
64593,74853
64593 - Intermediate filament protein, coiled coil region
74853 - Lamin A/C globular tail domain | 0 | Direct |
81324,53850
81324 - Voltage-gated potassium channels
53850 - Periplasmic binding protein-like II | 0 | Direct |
64593,64593
64593 - Intermediate filament protein, coiled coil region
64593 - Intermediate filament protein, coiled coil region | 0.000004784 | Direct |
57196,69687
57196 - EGF/Laminin
69687 - Integrin beta tail domain | 0.0001889 | Direct |
55550,55550
55550 - SH2 domain
55550 - SH2 domain | 0.0007243 | Direct |
57903,51197
57903 - FYVE/PHD zinc finger
51197 - Clavaminate synthase-like | 0.002675 | Inherited |
57196,57184
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.00277 | Inherited |
48092,47655
48092 - Transcription factor STAT-4 N-domain
47655 - STAT | 0.003057 | Inherited |
53300,69179
53300 - vWA-like
69179 - Integrin domains | 0.003057 | Inherited |
52058,57184
52058 - L domain-like
57184 - Growth factor receptor domain | 0.003057 | Inherited |
57184,52058
57184 - Growth factor receptor domain
52058 - L domain-like | 0.003057 | Inherited |
49417,55550
49417 - p53-like transcription factors
55550 - SH2 domain | 0.003057 | Inherited |
47655,49417
47655 - STAT
49417 - p53-like transcription factors | 0.003057 | Inherited |
57716,48508
57716 - Glucocorticoid receptor-like (DNA-binding domain)
48508 - Nuclear receptor ligand-binding domain | 0.003277 | Inherited |
57196,57196
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.004624 | Inherited |
57424,57424
57424 - LDL receptor-like module
57424 - LDL receptor-like module | 0.009348 | Inherited |
57196,90193
57196 - EGF/Laminin
90193 - Notch domain | 0.009477 | Inherited |
46579,64593
46579 - Prefoldin
64593 - Intermediate filament protein, coiled coil region | 0.009477 | Inherited |
49723,48484
49723 - Lipase/lipooxygenase domain (PLAT/LH2 domain)
48484 - Lipoxigenase | 0.009564 | Inherited |
47459,55785
47459 - HLH, helix-loop-helix DNA-binding domain
55785 - PYP-like sensor domain (PAS domain) | 0.01431 | Inherited |
49265,49265
49265 - Fibronectin type III
49265 - Fibronectin type III | 0.01745 | Inherited |
48334,52540
48334 - DNA repair protein MutS, domain III
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.02837 | Inherited |
50729,56112
50729 - PH domain-like
56112 - Protein kinase-like (PK-like) | 0.03988 | Inherited |
57184,57184
57184 - Growth factor receptor domain
57184 - Growth factor receptor domain | 0.0424 | Inherited |
47895,52540
47895 - Transducin (alpha subunit), insertion domain
52540 - P-loop containing nucleoside triphosphate hydrolases | 0.04411 | Inherited |
49313,49313
49313 - Cadherin-like
49313 - Cadherin-like | 0.06347 | Inherited |
55785,55785
55785 - PYP-like sensor domain (PAS domain)
55785 - PYP-like sensor domain (PAS domain) | 0.06364 | Inherited |
48371,56112
48371 - ARM repeat
56112 - Protein kinase-like (PK-like) | 0.06364 | Inherited |
57586,57586
57586 - TNF receptor-like
57586 - TNF receptor-like | 0.06372 | Inherited |
49562,48371
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
48371 - ARM repeat | 0.09303 | Inherited |
63712,90112
63712 - Nicotinic receptor ligand binding domain-like
90112 - Neurotransmitter-gated ion-channel transmembrane pore | 0.2999 | 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) |
57184,52058,57184
57184 - Growth factor receptor domain
52058 - L domain-like
57184 - Growth factor receptor domain | 0 | DIRECT |
75399,75399,75399
75399 - Plakin repeat
75399 - Plakin repeat
75399 - Plakin repeat | 0 | DIRECT |
57196,57196,69687
57196 - EGF/Laminin
57196 - EGF/Laminin
69687 - Integrin beta tail domain | 0.0001889 | DIRECT |
57184,57196,57196
57184 - Growth factor receptor domain
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.0002379 | DIRECT |
57196,57184,57196
57196 - EGF/Laminin
57184 - Growth factor receptor domain
57196 - EGF/Laminin | 0.0002719 | DIRECT |
48092,47655,49417
48092 - Transcription factor STAT-4 N-domain
47655 - STAT
49417 - p53-like transcription factors | 0.003057 | INHERITED FROM: abnormal mammary gland epithelium physiology || abnormal mammary gland morphology || abnormal skin adnexa morphology || abnormal skin adnexa physiology |
47655,49417,55550
47655 - STAT
49417 - p53-like transcription factors
55550 - SH2 domain | 0.003057 | INHERITED FROM: abnormal mammary gland epithelium physiology || abnormal mammary gland morphology || abnormal skin adnexa morphology || abnormal skin adnexa physiology |
52058,57184,52058
52058 - L domain-like
57184 - Growth factor receptor domain
52058 - L domain-like | 0.003057 | INHERITED FROM: abnormal mammary gland morphology || abnormal mammary gland physiology || abnormal skin adnexa morphology || abnormal lactation |
57424,57424,57424
57424 - LDL receptor-like module
57424 - LDL receptor-like module
57424 - LDL receptor-like module | 0.005714 | INHERITED FROM: abnormal coat appearance || abnormal coat/ hair morphology |
100895,100895,100895
100895 - Kazal-type serine protease inhibitors
100895 - Kazal-type serine protease inhibitors
100895 - Kazal-type serine protease inhibitors | 0.009477 | INHERITED FROM: abnormal skin appearance |
57184,57196,57184
57184 - Growth factor receptor domain
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.009564 | INHERITED FROM: abnormal skin morphology |
57196,57196,57196
57196 - EGF/Laminin
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.01701 | INHERITED FROM: absent sebaceous gland |
57184,57184,57196
57184 - Growth factor receptor domain
57184 - Growth factor receptor domain
57196 - EGF/Laminin | 0.02183 | INHERITED FROM: abnormal dermal layer morphology |
57196,57196,57184
57196 - EGF/Laminin
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.0301 | INHERITED FROM: diluted coat color || abnormal epidermal layer morphology || absent sebaceous gland |
47459,55785,55785
47459 - HLH, helix-loop-helix DNA-binding domain
55785 - PYP-like sensor domain (PAS domain)
55785 - PYP-like sensor domain (PAS domain) | 0.03988 | INHERITED FROM: abnormal mammary gland morphology |
49313,49313,49313
49313 - Cadherin-like
49313 - Cadherin-like
49313 - Cadherin-like | 0.04362 | INHERITED FROM: abnormal epidermis stratum spinosum morphology || acantholysis |
48726,48726,48726
48726 - Immunoglobulin
48726 - Immunoglobulin
48726 - Immunoglobulin | 0.05891 | INHERITED FROM: skin fibrosis |
49562,48371,56112
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
48371 - ARM repeat
56112 - Protein kinase-like (PK-like) | 0.09303 | INHERITED FROM: skin lesions |
| Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
57184,52058,57184
57184 - Growth factor receptor domain
52058 - L domain-like
57184 - Growth factor receptor domain | 0 | Direct |
75399,75399,75399
75399 - Plakin repeat
75399 - Plakin repeat
75399 - Plakin repeat | 0 | Direct |
57196,57196,69687
57196 - EGF/Laminin
57196 - EGF/Laminin
69687 - Integrin beta tail domain | 0.0001889 | Direct |
57184,57196,57196
57184 - Growth factor receptor domain
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.0002379 | Direct |
57196,57184,57196
57196 - EGF/Laminin
57184 - Growth factor receptor domain
57196 - EGF/Laminin | 0.0002719 | Direct |
48092,47655,49417
48092 - Transcription factor STAT-4 N-domain
47655 - STAT
49417 - p53-like transcription factors | 0.003057 | Inherited |
47655,49417,55550
47655 - STAT
49417 - p53-like transcription factors
55550 - SH2 domain | 0.003057 | Inherited |
52058,57184,52058
52058 - L domain-like
57184 - Growth factor receptor domain
52058 - L domain-like | 0.003057 | Inherited |
57424,57424,57424
57424 - LDL receptor-like module
57424 - LDL receptor-like module
57424 - LDL receptor-like module | 0.005714 | Inherited |
100895,100895,100895
100895 - Kazal-type serine protease inhibitors
100895 - Kazal-type serine protease inhibitors
100895 - Kazal-type serine protease inhibitors | 0.009477 | Inherited |
57184,57196,57184
57184 - Growth factor receptor domain
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.009564 | Inherited |
57196,57196,57196
57196 - EGF/Laminin
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.01701 | Inherited |
57184,57184,57196
57184 - Growth factor receptor domain
57184 - Growth factor receptor domain
57196 - EGF/Laminin | 0.02183 | Inherited |
57196,57196,57184
57196 - EGF/Laminin
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.0301 | Inherited |
47459,55785,55785
47459 - HLH, helix-loop-helix DNA-binding domain
55785 - PYP-like sensor domain (PAS domain)
55785 - PYP-like sensor domain (PAS domain) | 0.03988 | Inherited |
49313,49313,49313
49313 - Cadherin-like
49313 - Cadherin-like
49313 - Cadherin-like | 0.04362 | Inherited |
48726,48726,48726
48726 - Immunoglobulin
48726 - Immunoglobulin
48726 - Immunoglobulin | 0.05891 | Inherited |
49562,48371,56112
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
48371 - ARM repeat
56112 - Protein kinase-like (PK-like) | 0.09303 | 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
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