cog-1 Homeobox domain-containing protein [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: cog-1
Official Full Name: Homeobox domain-containing protein
Primary source: WormBase:WBGene00000584
Locus tag: CELE_R03C1.3
See related: AllianceGenome:WB:WBGene00000584
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Caenorhabditis elegans (strain: Bristol N2)
Lineage: Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary: Enables DNA-binding transcription factor binding activity. Involved in several processes, including determination of left/right symmetry; neuron development involved in amphid sensory organ development; and regulation of gene expression. Predicted to be active in nucleus. Is expressed in several structures, including anal sphincter muscle; egg-laying apparatus; ganglia; male-specific anatomical entity; and spermathecal-uterine junction. Human ortholog(s) of this gene implicated in spastic ataxia 8. Orthologous to several human genes including NKX6-1 (NK6 homeobox 1) and NKX6-2 (NK6 homeobox 2). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See cog-1 in Genome Data Viewer

Location:: chromosome: II

Exon count:: 4

Sequence:: Chromosome: II; NC_003280.10 (14902493..14907533)

Chromosome II - NC_003280.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003280.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Cis-regulatory mutations in the Caenorhabditis elegans homeobox gene locus cog-1 affect neuronal development.
Title: Cis-regulatory mutations in the Caenorhabditis elegans homeobox gene locus cog-1 affect neuronal development.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

R03C1.3 (e-PCR)
- UniSTS:322262

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor binding	IPI Inferred from Physical Interaction more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
involved_in determination of left/right symmetry	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in gonad development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neuron development involved in amphid sensory organ development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in pattern specification process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of gene expression	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Homeobox domain-containing protein

NP_001022264.1

Confirmed by transcript evidence

NP_001367047.1

Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003280.10 Reference assembly

Range

14902493..14907533

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001027093.4 → NP_001022264.1 Homeobox domain-containing protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001022264.1

Status: REVIEWED

UniProtKB/TrEMBL

G5EGE2

Conserved Domains (1) summary

pfam00046
Location:172 → 226

Homeobox; Homeobox domain
NM_001381667.2 → NP_001367047.1 Homeobox domain-containing protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

G5EGF2

Conserved Domains (1) summary

pfam00046
Location:22 → 76

Homeobox; Homeobox domain