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Zebrafish Anatomy (ZA): nervous system
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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: ZA Hierarchy (zebrafish anatomy from ZFIN zebrafish anatomy ontology)
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 ZA term (SDZA level: Least Informative)
Highlighted in gray are those with FDR_all>0.001
| SCOP term | FDR (all) | Annotation (direct or inherited) |
| UBA domain | 0 | DIRECT |
| Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit | 0 | DIRECT |
| Platelet-derived growth factor-like | 0 | DIRECT |
| Association domain of calcium/calmodulin-dependent protein kinase type II alpha subunit, CAMK2A | 0 | DIRECT |
| Cdc48 domain 2-like | 0 | DIRECT |
| Hydantoinase (dihydropyrimidinase) | 0 | DIRECT |
| SNARE fusion complex | 0 | DIRECT |
| Biotinyl/lipoyl-carrier proteins and domains | 0 | DIRECT |
| FYVE, a phosphatidylinositol-3-phosphate binding domain | 0 | DIRECT |
| L27 domain | 0 | DIRECT |
| Adenylyl and guanylyl cyclase catalytic domain | 0 | DIRECT |
| Small Kunitz-type inhibitors & BPTI-like toxins | 0 | DIRECT |
| Cap-Gly domain | 0 | DIRECT |
| C5 cytosine-specific DNA methylase, DCM | 0 | DIRECT |
| Tubulin, GTPase domain | 0 | DIRECT |
| CCCH zinc finger | 0 | DIRECT |
| Tubulin, C-terminal domain | 0 | DIRECT |
| Connexin43 | 0 | DIRECT |
| Anticodon-binding domain of Class II aaRS | 0 | DIRECT |
| Doublecortin (DC) | 0 | DIRECT |
| SMAD MH1 domain | 0 | DIRECT |
| Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 0 | DIRECT |
| SMAD domain | 0 | DIRECT |
| Zf-UBP | 0 | DIRECT |
| Chromo domain | 0 | DIRECT |
| Hydantoinase (dihydropyrimidinase), catalytic domain | 0 | DIRECT |
| Tetramerization domain of potassium channels | 0 | DIRECT |
| Long-chain cytokines | 0 | DIRECT |
| Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain | 0 | DIRECT |
| PP2C-like | 0 | DIRECT |
| Cdc48 N-terminal domain-like | 0 | DIRECT |
| Ovomucoid domain III-like | 0 | DIRECT |
| BRK domain-like | 0 | DIRECT |
| WD40-repeat | 0.01705 | INHERITED FROM: photoreceptor outer segment layer || retinal cone cell |
| HMG-box | 0.03965 | INHERITED FROM: vagal ganglion || statoacoustic (VIII) ganglion || ganglion || dorsal root ganglion |
| L domain | 0.06978 | INHERITED FROM: motor neuron |
| Tetratricopeptide repeat (TPR) | 0.09475 | INHERITED FROM: retinal rod cell |
| Multidrug efflux transporter AcrB transmembrane domain | 0.1317 | INHERITED FROM: retinal ganglion cell layer |
| Homeodomain | 0.141 | INHERITED FROM: forebrain || dorsal telencephalon || preoptic area || diencephalon |
| Aquaporin-like | 0.2749 | INHERITED FROM: anterior segment eye |
| Histone deacetylase, HDAC | 0.2749 | INHERITED FROM: lateral line || lateral line system || peripheral nervous system |
| Growth factor receptor domain | 0.2758 | INHERITED FROM: posterior semicircular canal |
| Sema domain | 0.2817 | INHERITED FROM: primary motor neuron || primary neuron || CaP motoneuron |
| POU-specific domain | 0.328 | INHERITED FROM: forebrain || diencephalon |
| Cadherin | 0.4027 | INHERITED FROM: cranial nerve || cranial nerve II || diencephalic white matter || white matter || nerve || optic tectum |
| Motor proteins | 0.4087 | INHERITED FROM: photoreceptor outer segment layer |
| PDZ domain | 0.4237 | INHERITED FROM: central canal |
| Plexin repeat | 0.4303 | INHERITED FROM: primary motor neuron || primary neuron || CaP motoneuron |
| Fibronectin type III | 0.5605 | INHERITED FROM: synencephalon || white matter || medial longitudinal fasciculus || glomerular layer |
| Paired domain | 0.6799 | INHERITED FROM: pars superior ear || mechanoreceptor cell |
| Nuclear receptor ligand-binding domain | 0.703 | INHERITED FROM: hypophysis |
| Cytochrome P450 | 0.7124 | INHERITED FROM: hypophysis |
| I set domains | 0.7433 | INHERITED FROM: synencephalon || white matter || medial longitudinal fasciculus |
| Nuclear receptor | 0.757 | INHERITED FROM: hypophysis |
| HLH, helix-loop-helix DNA-binding domain | 0.7716 | INHERITED FROM: Kolmer-Agduhr neuron |
| EGF-type module | 0.8068 | INHERITED FROM: semicircular canal || posterior lateral line ganglion || lateral line ganglion |
| Classic zinc finger, C2H2 | 0.9185 | INHERITED FROM: thalamus || ventral thalamus |
| Transforming growth factor (TGF)-beta | 0.999 | INHERITED FROM: pineal complex || floor plate |
| SCOP term | FDR (all) | Annotation (direct or inherited) |
| UBA domain | 0 | Direct |
| Dimerization-anchoring domain of cAMP-dependent PK regulatory subunit | 0 | Direct |
| Platelet-derived growth factor-like | 0 | Direct |
| Association domain of calcium/calmodulin-dependent protein kinase type II alpha subunit, CAMK2A | 0 | Direct |
| Cdc48 domain 2-like | 0 | Direct |
| Hydantoinase (dihydropyrimidinase) | 0 | Direct |
| SNARE fusion complex | 0 | Direct |
| Biotinyl/lipoyl-carrier proteins and domains | 0 | Direct |
| FYVE, a phosphatidylinositol-3-phosphate binding domain | 0 | Direct |
| L27 domain | 0 | Direct |
| Adenylyl and guanylyl cyclase catalytic domain | 0 | Direct |
| Small Kunitz-type inhibitors & BPTI-like toxins | 0 | Direct |
| Cap-Gly domain | 0 | Direct |
| C5 cytosine-specific DNA methylase, DCM | 0 | Direct |
| Tubulin, GTPase domain | 0 | Direct |
| CCCH zinc finger | 0 | Direct |
| Tubulin, C-terminal domain | 0 | Direct |
| Connexin43 | 0 | Direct |
| Anticodon-binding domain of Class II aaRS | 0 | Direct |
| Doublecortin (DC) | 0 | Direct |
| SMAD MH1 domain | 0 | Direct |
| Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 0 | Direct |
| SMAD domain | 0 | Direct |
| Zf-UBP | 0 | Direct |
| Chromo domain | 0 | Direct |
| Hydantoinase (dihydropyrimidinase), catalytic domain | 0 | Direct |
| Tetramerization domain of potassium channels | 0 | Direct |
| Long-chain cytokines | 0 | Direct |
| Class II aminoacyl-tRNA synthetase (aaRS)-like, catalytic domain | 0 | Direct |
| PP2C-like | 0 | Direct |
| Cdc48 N-terminal domain-like | 0 | Direct |
| Ovomucoid domain III-like | 0 | Direct |
| BRK domain-like | 0 | Direct |
| WD40-repeat | 0.01705 | Inherited |
| HMG-box | 0.03965 | Inherited |
| L domain | 0.06978 | Inherited |
| Tetratricopeptide repeat (TPR) | 0.09475 | Inherited |
| Multidrug efflux transporter AcrB transmembrane domain | 0.1317 | Inherited |
| Homeodomain | 0.141 | Inherited |
| Aquaporin-like | 0.2749 | Inherited |
| Histone deacetylase, HDAC | 0.2749 | Inherited |
| Growth factor receptor domain | 0.2758 | Inherited |
| Sema domain | 0.2817 | Inherited |
| POU-specific domain | 0.328 | Inherited |
| Cadherin | 0.4027 | Inherited |
| Motor proteins | 0.4087 | Inherited |
| PDZ domain | 0.4237 | Inherited |
| Plexin repeat | 0.4303 | Inherited |
| Fibronectin type III | 0.5605 | Inherited |
| Paired domain | 0.6799 | Inherited |
| Nuclear receptor ligand-binding domain | 0.703 | Inherited |
| Cytochrome P450 | 0.7124 | Inherited |
| I set domains | 0.7433 | Inherited |
| Nuclear receptor | 0.757 | Inherited |
| HLH, helix-loop-helix DNA-binding domain | 0.7716 | Inherited |
| EGF-type module | 0.8068 | Inherited |
| Classic zinc finger, C2H2 | 0.9185 | Inherited |
| Transforming growth factor (TGF)-beta | 0.999 | 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 ZA term (SPZA level: Least 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) |
52374,47323
52374 - Nucleotidylyl transferase
47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 0 | DIRECT |
101288,50156
101288 - L27 domain
50156 - PDZ domain-like | 0 | DIRECT |
52058,49265
52058 - L domain-like
49265 - Fibronectin type III | 0 | DIRECT |
54160,54160
54160 - Chromo domain-like
54160 - Chromo domain-like | 0 | DIRECT |
89837,89837
89837 - Doublecortin (DC)
89837 - Doublecortin (DC) | 0 | DIRECT |
103575,81296
103575 - Plexin repeat
81296 - E set domains | 0 | DIRECT |
63380,52343
63380 - Riboflavin synthase domain-like
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain | 0 | DIRECT |
82199,57667
82199 - SET domain
57667 - beta-beta-alpha zinc fingers | 0 | DIRECT |
57362,57362
57362 - BPTI-like
57362 - BPTI-like | 0 | DIRECT |
54001,143791
54001 - Cysteine proteinases
143791 - DUSP-like | 0 | DIRECT |
50978,50998
50978 - WD40 repeat-like
50998 - Quinoprotein alcohol dehydrogenase-like | 0 | DIRECT |
54585,52540
54585 - Cdc48 domain 2-like
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | DIRECT |
51556,51338
51556 - Metallo-dependent hydrolases
51338 - Composite domain of metallo-dependent hydrolases | 0 | DIRECT |
48097,56112
48097 - Regulator of G-protein signaling, RGS
56112 - Protein kinase-like (PK-like) | 0 | DIRECT |
50692,54585
50692 - ADC-like
54585 - Cdc48 domain 2-like | 0 | DIRECT |
52490,55307
52490 - Tubulin nucleotide-binding domain-like
55307 - Tubulin C-terminal domain-like | 0 | DIRECT |
54160,52540
54160 - Chromo domain-like
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | DIRECT |
52058,57184
52058 - L domain-like
57184 - Growth factor receptor domain | 0.07246 | INHERITED FROM: motor neuron |
57184,52058
57184 - Growth factor receptor domain
52058 - L domain-like | 0.07246 | INHERITED FROM: motor neuron |
54897,52743
54897 - Protease propeptides/inhibitors
52743 - Subtilisin-like | 0.1454 | INHERITED FROM: optic tectum |
49562,48350
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
48350 - GTPase activation domain, GAP | 0.2834 | INHERITED FROM: hindbrain |
101912,103575
101912 - Sema domain
103575 - Plexin repeat | 0.2986 | INHERITED FROM: primary neuron || CaP motoneuron || primary motor neuron |
81296,81296
81296 - E set domains
81296 - E set domains | 0.3404 | INHERITED FROM: primary neuron || CaP motoneuron || primary motor neuron |
49313,49313
49313 - Cadherin-like
49313 - Cadherin-like | 0.4922 | INHERITED FROM: cranial nerve II || diencephalic white matter || optic tectum || cranial nerve || retinal ganglion cell layer || white matter || nerve |
48726,49265
48726 - Immunoglobulin
49265 - Fibronectin type III | 0.5081 | INHERITED FROM: medial longitudinal fasciculus || white matter || brainstem || brain nucleus || synencephalon |
50156,50156
50156 - PDZ domain-like
50156 - PDZ domain-like | 0.6844 | INHERITED FROM: eye photoreceptor cell || retinal outer nuclear layer |
57196,57184
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.7605 | INHERITED FROM: posterior lateral line ganglion || lateral line ganglion |
57667,57667
57667 - beta-beta-alpha zinc fingers
57667 - beta-beta-alpha zinc fingers | 0.7697 | INHERITED FROM: ventral thalamus || thalamus |
90257,90257
90257 - Myosin rod fragments
90257 - Myosin rod fragments | 0.8688 | INHERITED FROM: midbrain hindbrain boundary |
48726,48726
48726 - Immunoglobulin
48726 - Immunoglobulin | 0.9312 | INHERITED FROM: medial longitudinal fasciculus || white matter || synencephalon |
57196,57196
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.9855 | INHERITED FROM: posterior lateral line ganglion || lateral line ganglion |
57716,57716
57716 - Glucocorticoid receptor-like (DNA-binding domain)
57716 - Glucocorticoid receptor-like (DNA-binding domain) | 0.9956 | INHERITED FROM: Kolmer-Agduhr neuron || VeLD |
| Supra-domain (Duplex) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
52374,47323
52374 - Nucleotidylyl transferase
47323 - Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 0 | Direct |
101288,50156
101288 - L27 domain
50156 - PDZ domain-like | 0 | Direct |
52058,49265
52058 - L domain-like
49265 - Fibronectin type III | 0 | Direct |
54160,54160
54160 - Chromo domain-like
54160 - Chromo domain-like | 0 | Direct |
89837,89837
89837 - Doublecortin (DC)
89837 - Doublecortin (DC) | 0 | Direct |
103575,81296
103575 - Plexin repeat
81296 - E set domains | 0 | Direct |
63380,52343
63380 - Riboflavin synthase domain-like
52343 - Ferredoxin reductase-like, C-terminal NADP-linked domain | 0 | Direct |
82199,57667
82199 - SET domain
57667 - beta-beta-alpha zinc fingers | 0 | Direct |
57362,57362
57362 - BPTI-like
57362 - BPTI-like | 0 | Direct |
54001,143791
54001 - Cysteine proteinases
143791 - DUSP-like | 0 | Direct |
50978,50998
50978 - WD40 repeat-like
50998 - Quinoprotein alcohol dehydrogenase-like | 0 | Direct |
54585,52540
54585 - Cdc48 domain 2-like
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | Direct |
51556,51338
51556 - Metallo-dependent hydrolases
51338 - Composite domain of metallo-dependent hydrolases | 0 | Direct |
48097,56112
48097 - Regulator of G-protein signaling, RGS
56112 - Protein kinase-like (PK-like) | 0 | Direct |
50692,54585
50692 - ADC-like
54585 - Cdc48 domain 2-like | 0 | Direct |
52490,55307
52490 - Tubulin nucleotide-binding domain-like
55307 - Tubulin C-terminal domain-like | 0 | Direct |
54160,52540
54160 - Chromo domain-like
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | Direct |
52058,57184
52058 - L domain-like
57184 - Growth factor receptor domain | 0.07246 | Inherited |
57184,52058
57184 - Growth factor receptor domain
52058 - L domain-like | 0.07246 | Inherited |
54897,52743
54897 - Protease propeptides/inhibitors
52743 - Subtilisin-like | 0.1454 | Inherited |
49562,48350
49562 - C2 domain (Calcium/lipid-binding domain, CaLB)
48350 - GTPase activation domain, GAP | 0.2834 | Inherited |
101912,103575
101912 - Sema domain
103575 - Plexin repeat | 0.2986 | Inherited |
81296,81296
81296 - E set domains
81296 - E set domains | 0.3404 | Inherited |
49313,49313
49313 - Cadherin-like
49313 - Cadherin-like | 0.4922 | Inherited |
48726,49265
48726 - Immunoglobulin
49265 - Fibronectin type III | 0.5081 | Inherited |
50156,50156
50156 - PDZ domain-like
50156 - PDZ domain-like | 0.6844 | Inherited |
57196,57184
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.7605 | Inherited |
57667,57667
57667 - beta-beta-alpha zinc fingers
57667 - beta-beta-alpha zinc fingers | 0.7697 | Inherited |
90257,90257
90257 - Myosin rod fragments
90257 - Myosin rod fragments | 0.8688 | Inherited |
48726,48726
48726 - Immunoglobulin
48726 - Immunoglobulin | 0.9312 | Inherited |
57196,57196
57196 - EGF/Laminin
57196 - EGF/Laminin | 0.9855 | Inherited |
57716,57716
57716 - Glucocorticoid receptor-like (DNA-binding domain)
57716 - Glucocorticoid receptor-like (DNA-binding domain) | 0.9956 | Inherited |
(show details)
Supra-domains annotated to this ZA term (SPZA level: Least 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) |
57184,57184,57196
57184 - Growth factor receptor domain
57184 - Growth factor receptor domain
57196 - EGF/Laminin | 0 | DIRECT |
57196,49899,49899
57196 - EGF/Laminin
49899 - Concanavalin A-like lectins/glucanases
49899 - Concanavalin A-like lectins/glucanases | 0 | DIRECT |
54160,52540,52540
54160 - Chromo domain-like
52540 - P-loop containing nucleoside triphosphate hydrolases
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 |
54160,54160,52540
54160 - Chromo domain-like
54160 - Chromo domain-like
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | DIRECT |
50692,54585,52540
50692 - ADC-like
54585 - Cdc48 domain 2-like
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | DIRECT |
57184,52058,49265
57184 - Growth factor receptor domain
52058 - L domain-like
49265 - Fibronectin type III | 0 | DIRECT |
82199,57667,57667
82199 - SET domain
57667 - beta-beta-alpha zinc fingers
57667 - beta-beta-alpha zinc fingers | 0 | DIRECT |
103575,81296,81296
103575 - Plexin repeat
81296 - E set domains
81296 - E set domains | 0 | DIRECT |
52058,49265,49265
52058 - L domain-like
49265 - Fibronectin type III
49265 - Fibronectin type III | 0 | DIRECT |
52058,57184,52058
52058 - L domain-like
57184 - Growth factor receptor domain
52058 - L domain-like | 0.07246 | INHERITED FROM: motor neuron |
48726,48726,49265
48726 - Immunoglobulin
48726 - Immunoglobulin
49265 - Fibronectin type III | 0.2148 | INHERITED FROM: medial longitudinal fasciculus || white matter || brainstem || brain nucleus || synencephalon |
57196,57196,57184
57196 - EGF/Laminin
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.2391 | INHERITED FROM: semicircular canal || pars superior ear || posterior lateral line ganglion || cranial ganglion || lateral line ganglion |
81296,81296,81296
81296 - E set domains
81296 - E set domains
81296 - E set domains | 0.3404 | INHERITED FROM: primary neuron || CaP motoneuron || primary motor neuron |
90257,90257,90257
90257 - Myosin rod fragments
90257 - Myosin rod fragments
90257 - Myosin rod fragments | 0.5429 | INHERITED FROM: midbrain hindbrain boundary |
49313,49313,49313
49313 - Cadherin-like
49313 - Cadherin-like
49313 - Cadherin-like | 0.5709 | INHERITED FROM: macula || cranial nerve II || diencephalic white matter || optic tectum || cranial nerve || retinal ganglion cell layer || white matter || nerve |
48726,48726,48726
48726 - Immunoglobulin
48726 - Immunoglobulin
48726 - Immunoglobulin | 0.7185 | INHERITED FROM: medial longitudinal fasciculus || white matter || synencephalon |
| Supra-domain (Triple) in N- to C-terminal order |
FDR (all) |
Annotation (direct or inherited) |
57184,57184,57196
57184 - Growth factor receptor domain
57184 - Growth factor receptor domain
57196 - EGF/Laminin | 0 | Direct |
57196,49899,49899
57196 - EGF/Laminin
49899 - Concanavalin A-like lectins/glucanases
49899 - Concanavalin A-like lectins/glucanases | 0 | Direct |
54160,52540,52540
54160 - Chromo domain-like
52540 - P-loop containing nucleoside triphosphate hydrolases
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 |
54160,54160,52540
54160 - Chromo domain-like
54160 - Chromo domain-like
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | Direct |
50692,54585,52540
50692 - ADC-like
54585 - Cdc48 domain 2-like
52540 - P-loop containing nucleoside triphosphate hydrolases | 0 | Direct |
57184,52058,49265
57184 - Growth factor receptor domain
52058 - L domain-like
49265 - Fibronectin type III | 0 | Direct |
82199,57667,57667
82199 - SET domain
57667 - beta-beta-alpha zinc fingers
57667 - beta-beta-alpha zinc fingers | 0 | Direct |
103575,81296,81296
103575 - Plexin repeat
81296 - E set domains
81296 - E set domains | 0 | Direct |
52058,49265,49265
52058 - L domain-like
49265 - Fibronectin type III
49265 - Fibronectin type III | 0 | Direct |
52058,57184,52058
52058 - L domain-like
57184 - Growth factor receptor domain
52058 - L domain-like | 0.07246 | Inherited |
48726,48726,49265
48726 - Immunoglobulin
48726 - Immunoglobulin
49265 - Fibronectin type III | 0.2148 | Inherited |
57196,57196,57184
57196 - EGF/Laminin
57196 - EGF/Laminin
57184 - Growth factor receptor domain | 0.2391 | Inherited |
81296,81296,81296
81296 - E set domains
81296 - E set domains
81296 - E set domains | 0.3404 | Inherited |
90257,90257,90257
90257 - Myosin rod fragments
90257 - Myosin rod fragments
90257 - Myosin rod fragments | 0.5429 | Inherited |
49313,49313,49313
49313 - Cadherin-like
49313 - Cadherin-like
49313 - Cadherin-like | 0.5709 | Inherited |
48726,48726,48726
48726 - Immunoglobulin
48726 - Immunoglobulin
48726 - Immunoglobulin | 0.7185 | Inherited |
Plot distribution on phylogenetic tree for Supra-domains (Single/Individual) annotated by this phenotype term
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Trees by TreeVector
A presence/absence matrix is generated using protein domains and supradomains
for all genomes in SUPERFAMILY. The RAxML
software is used to produce a single, large tree topology using
heuristic parsimony methods. Genome combinations, or specific clades, can be displayed as
if individual trees had been produced. However, this data is extracted from the single
large tree. This produces a higher quality topology than if the trees had been produced
on their own, and allows the trees to be displayed instantly.
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