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SIX4 SIX homeobox 4 [ Bos taurus (domestic cattle) ]

Gene ID: 526104, updated on 4-Oct-2024

Summary

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Official Symbol
SIX4provided by VGNC
Official Full Name
SIX homeobox 4provided by VGNC
Primary source
VGNC:VGNC:109396
See related
BGD:BT25833; Ensembl:ENSBTAG00000049091
Gene type
protein coding
RefSeq status
MODEL
Organism
Bos taurus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Artiodactyla; Ruminantia; Pecora; Bovidae; Bovinae; Bos
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Genomic context

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See SIX4 in Genome Data Viewer
Location:
chromosome: 10
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_09 current ARS-UCD2.0 (GCF_002263795.3) 10 NC_037337.1 (72873718..72886158, complement)

Chromosome 10 - NC_037337.1Genomic Context describing neighboring genes Neighboring gene ferritin light chain-like Neighboring gene SNRPN upstream reading frame protein-like Neighboring gene MNAT1 component of CDK activating kinase Neighboring gene tRNA methyltransferase 5

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_037337.1 Chromosome 10 Reference ARS-UCD2.0 Primary Assembly

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Polymorphism in promoter of SIX4 gene shows association with its transcription and body measurement traits in Qinchuan cattle. Wei D, et al. Gene, 2018 May 20. PMID 29496553
  2. Novel polymorphisms of SIX4 gene and their association with body measurement traits in Qinchuan cattle. Wang G, et al. Gene, 2014 Apr 10. PMID 24462757
  3. A whole-genome assembly of the domestic cow, Bos taurus. Zimin AV, et al. Genome Biol, 2009. PMID 19393038, Free PMC Article
  4. Manual GO annotation of predictive protein signatures: the InterPro approach to GO curation. Burge S, et al. Database (Oxford), 2012. PMID 22301074, Free PMC Article
  5. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The potential transcription factor information and combined genotypes H3-H3 of the SIX4 gene can be used as a molecular marker for selection of economic traits in Qinchuan cattle.
    Title: Polymorphism in promoter of SIX4 gene shows association with its transcription and body measurement traits in Qinchuan cattle.
  2. SIX4 gene may have potential effects on body measurement traits in Qinchuan cattle population and could be used for marker-assisted selection.
    Title: Novel polymorphisms of SIX4 gene and their association with body measurement traits in Qinchuan cattle.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by RefSeq

Function Evidence Code Pubs
enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
Inferred from Electronic Annotation
more info
 PubMed 
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IEA
Inferred from Electronic Annotation
more info
 PubMed 
Process Evidence Code Pubs
involved_in regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 PubMed 
part_of transcription regulator complex IEA
Inferred from Electronic Annotation
more info
 PubMed 

General protein information

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Preferred Names
homeobox protein SIX4

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: GCF_002263795.3-RS_2023_09

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

Reference ARS-UCD2.0 Primary Assembly

Genomic

  1. NC_037337.1 Reference ARS-UCD2.0 Primary Assembly

    Range
    72873718..72886158 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024998078.2 → XP_024853846.1  homeobox protein SIX4 isoform X2

    UniProtKB/TrEMBL
    A0AAA9U0P1
    Related
    ENSBTAP00000103529.1, ENSBTAT00000105620.1
    Conserved Domains (2) summary
    cd00086
    Location:224 → 278
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam16878
    Location:104 → 213
    SIX1_SD; Transcriptional regulator, SIX1, N-terminal SD domain

  2. XM_024998077.2 → XP_024853845.1  homeobox protein SIX4 isoform X1

    UniProtKB/TrEMBL
    A0A3Q1M669
    Related
    ENSBTAP00000065862.1, ENSBTAT00000067806.2
    Conserved Domains (2) summary
    cd00086
    Location:232 → 286
    homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
    pfam16878
    Location:112 → 221
    SIX1_SD; Transcriptional regulator, SIX1, N-terminal SD domain
Nucleotide Protein Strain
Heading Accession and Version

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