Enzyme Commission (EC): RNA-directed DNA polymerase

Biomedical Ontology
Like Gene Ontology (GO), biomedical ontology such as phenotype 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. Biomedical ontologies we have incorporated are as follows:

Disease Ontology (DO) Ontology
DO semantically integrates disease and medical vocabularies through extensive cross mapping of DO terms to MeSH, ICD, NCI’s thesaurus, SNOMED and OMIM.
Human Phenotype (HP) Ontology
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 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 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
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 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 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 displays anatomical terms of the zebrafish using standard anatomical nomenclature, together with affected genes.
Xenopus Anatomy (XA) Ontology
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
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
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.
UniProtKB KeyWords (KW) Ontology
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).
CTD Diseases (CD) Ontology
CD is MEDIC disease vocabulary that is modified by CTD from the "Diseases" [C] branch of Medical Subject Headings (MeSH), combined with genetic disorders from the Online Mendelian Inheritance in OMIM database.
CTD Chemicals (CC) Ontology
CC is chemical vocabulary that is adapted by CTD from the "Chemicals and Drugs" category and Supplementary Concept Records of Medical Subject Headings (MeSH, a hierarchical vocabulary used to index articles for MEDLINE/PubMed).

Superfamily

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Superfamily

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SCOP term	FDR (all)	Annotation (direct or inherited)
Retrovirus capsid dimerization domain-like	0	Direct
Retroviral matrix proteins	0	Direct
Ribonuclease H-like	0	Direct
Acid proteases	0	Direct
DNA-binding domain of retroviral integrase	0	Direct
Retrovirus zinc finger-like domains	0	Direct
N-terminal Zn binding domain of HIV integrase	0	Direct
dUTPase-like	0	Direct
DNA/RNA polymerases	0	Direct
Retrovirus capsid protein, N-terminal core domain	0	Direct
DNase I-like	0.00000000002389	Direct

LINKTO: Domain2BO Download and Domain2BO Algorithm

Family

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Family

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SCOP term	FDR (all)	Annotation (direct or inherited)
HTLV-II matrix protein	0	Direct
Retrovirus capsid protein, N-terminal core domain	0	Direct
Retrovirus zinc finger-like domains	0	Direct
Ribonuclease H	0	Direct
Mason-Pfizer monkey virus matrix protein	0	Direct
Retrovirus capsid protein C-terminal domain	0	Direct
Immunodeficiency virus matrix proteins	0	Direct
GAG polyprotein M-domain	0	Direct
Retroviral integrase, catalytic domain	0	Direct
MMLV matrix protein-like	0	Direct
N-terminal Zn binding domain of HIV integrase	0	Direct
Reverse transcriptase	0	Direct
DNA-binding domain of retroviral integrase	0	Direct
Retroviral protease (retropepsin)	0	Direct
dUTPase-like	0	Direct
DNase I-like	0.00000000001818	Direct

LINKTO: Domain2BO Download and Domain2BO Algorithm

Supra-domain (Single|Duplex|Triple)

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Supra-domain (Single)

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Supra-domain (Single)	FDR (all)	Annotation (direct or inherited)
Ribonuclease H-like	0	Direct
Acid proteases	0	Direct
DNA/RNA polymerases	0	Direct
DNA-binding domain of retroviral integrase	0	Direct
N-terminal Zn binding domain of HIV integrase	0	Direct
Retrovirus zinc finger-like domains	0	Direct
dUTPase-like	0	Direct
Retrovirus capsid protein, N-terminal core domain	0	Direct
Retrovirus capsid dimerization domain-like	0	Direct
Retroviral matrix proteins	0	Direct
DNase I-like	0.00000000001739	Direct

LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm

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Supra-domain (Duplex) in N- to C-terminal order

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Supra-domain (Duplex) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
57756,51283 57756 - Retrovirus zinc finger-like domains 51283 - dUTPase-like	0	Direct
53098,53098 53098 - Ribonuclease H-like 53098 - Ribonuclease H-like	0	Direct
51283,50630 51283 - dUTPase-like 50630 - Acid proteases	0	Direct
47353,57756 47353 - Retrovirus capsid dimerization domain-like 57756 - Retrovirus zinc finger-like domains	0	Direct
47836,47943 47836 - Retroviral matrix proteins 47943 - Retrovirus capsid protein, N-terminal core domain	0	Direct
57756,50630 57756 - Retrovirus zinc finger-like domains 50630 - Acid proteases	0	Direct
53098,50122 53098 - Ribonuclease H-like 50122 - DNA-binding domain of retroviral integrase	0	Direct
50630,56672 50630 - Acid proteases 56672 - DNA/RNA polymerases	0	Direct
53098,51283 53098 - Ribonuclease H-like 51283 - dUTPase-like	0	Direct
47943,47353 47943 - Retrovirus capsid protein, N-terminal core domain 47353 - Retrovirus capsid dimerization domain-like	0	Direct
53098,46919 53098 - Ribonuclease H-like 46919 - N-terminal Zn binding domain of HIV integrase	0	Direct
51283,46919 51283 - dUTPase-like 46919 - N-terminal Zn binding domain of HIV integrase	0	Direct
56672,46919 56672 - DNA/RNA polymerases 46919 - N-terminal Zn binding domain of HIV integrase	0	Direct
46919,53098 46919 - N-terminal Zn binding domain of HIV integrase 53098 - Ribonuclease H-like	0	Direct
56672,53098 56672 - DNA/RNA polymerases 53098 - Ribonuclease H-like	0	Direct
56219,56672 56219 - DNase I-like 56672 - DNA/RNA polymerases	0	Direct
57756,57756 57756 - Retrovirus zinc finger-like domains 57756 - Retrovirus zinc finger-like domains	0.000000006867	Direct

LINKTO: Supra-domain2BO Download and Supra-domain2BO Algorithm

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Supra-domain (Triple) in N- to C-terminal order

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Supra-domain (Triple) in N- to C-terminal order	FDR (all)	Annotation (direct or inherited)
47943,47353,57756 47943 - Retrovirus capsid protein, N-terminal core domain 47353 - Retrovirus capsid dimerization domain-like 57756 - Retrovirus zinc finger-like domains	0	Direct
50630,56672,53098 50630 - Acid proteases 56672 - DNA/RNA polymerases 53098 - Ribonuclease H-like	0	Direct
56672,53098,50122 56672 - DNA/RNA polymerases 53098 - Ribonuclease H-like 50122 - DNA-binding domain of retroviral integrase	0	Direct
57756,50630,56672 57756 - Retrovirus zinc finger-like domains 50630 - Acid proteases 56672 - DNA/RNA polymerases	0	Direct
51283,50630,56672 51283 - dUTPase-like 50630 - Acid proteases 56672 - DNA/RNA polymerases	0	Direct
57756,51283,50630 57756 - Retrovirus zinc finger-like domains 51283 - dUTPase-like 50630 - Acid proteases	0	Direct
53098,51283,46919 53098 - Ribonuclease H-like 51283 - dUTPase-like 46919 - N-terminal Zn binding domain of HIV integrase	0	Direct
56672,46919,53098 56672 - DNA/RNA polymerases 46919 - N-terminal Zn binding domain of HIV integrase 53098 - Ribonuclease H-like	0	Direct
53098,46919,53098 53098 - Ribonuclease H-like 46919 - N-terminal Zn binding domain of HIV integrase 53098 - Ribonuclease H-like	0	Direct
56672,53098,53098 56672 - DNA/RNA polymerases 53098 - Ribonuclease H-like 53098 - Ribonuclease H-like	0	Direct
50630,56672,46919 50630 - Acid proteases 56672 - DNA/RNA polymerases 46919 - N-terminal Zn binding domain of HIV integrase	0	Direct
46919,53098,50122 46919 - N-terminal Zn binding domain of HIV integrase 53098 - Ribonuclease H-like 50122 - DNA-binding domain of retroviral integrase	0	Direct
47836,47943,47353 47836 - Retroviral matrix proteins 47943 - Retrovirus capsid protein, N-terminal core domain 47353 - Retrovirus capsid dimerization domain-like	0	Direct
56672,53098,51283 56672 - DNA/RNA polymerases 53098 - Ribonuclease H-like 51283 - dUTPase-like	0	Direct
51283,46919,53098 51283 - dUTPase-like 46919 - N-terminal Zn binding domain of HIV integrase 53098 - Ribonuclease H-like	0	Direct
56672,53098,46919 56672 - DNA/RNA polymerases 53098 - Ribonuclease H-like 46919 - N-terminal Zn binding domain of HIV integrase	0	Direct
47353,57756,50630 47353 - Retrovirus capsid dimerization domain-like 57756 - Retrovirus zinc finger-like domains 50630 - Acid proteases	0	Direct
57756,57756,51283 57756 - Retrovirus zinc finger-like domains 57756 - Retrovirus zinc finger-like domains 51283 - dUTPase-like	0.000000000000002983	Direct
47353,57756,57756 47353 - Retrovirus capsid dimerization domain-like 57756 - Retrovirus zinc finger-like domains 57756 - Retrovirus zinc finger-like domains	0.000000000000002983	Direct