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HOXA1 homeobox A1 [ Homo sapiens (human) ]

Gene ID: 3198, updated on 29-Mar-2020

Summary

Official Symbol
HOXA1provided by HGNC
Official Full Name
homeobox A1provided by HGNC
Primary source
HGNC:HGNC:5099
See related
Ensembl:ENSG00000105991 MIM:142955
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
BSAS; HOX1; HOX1F
Summary
In vertebrates, the genes encoding the class of transcription factors called homeobox genes are found in clusters named A, B, C, and D on four separate chromosomes. Expression of these proteins is spatially and temporally regulated during embryonic development. This gene is part of the A cluster on chromosome 7 and encodes a DNA-binding transcription factor which may regulate gene expression, morphogenesis, and differentiation. The encoded protein may be involved in the placement of hindbrain segments in the proper location along the anterior-posterior axis during development. Two transcript variants encoding two different isoforms have been found for this gene, with only one of the isoforms containing the homeodomain region. [provided by RefSeq, Jul 2008]
Expression
Biased expression in urinary bladder (RPKM 4.0), skin (RPKM 1.0) and 13 other tissues See more
Orthologs

Genomic context

See HOXA1 in Genome Data Viewer
Location:
7p15.2
Exon count:
3
Annotation release Status Assembly Chr Location
109.20200228 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (27092993..27096000, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (27132612..27135625, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene tropomyosin 3 pseudogene 4 Neighboring gene NHP2 ribonucleoprotein pseudogene 2 Neighboring gene Sharpr-MPRA regulatory region 2148 Neighboring gene HOXA transcript antisense RNA, myeloid-specific 1 Neighboring gene homeobox A2

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat specifically associates with HOXA1 promoter to upregulate HOXA1 expression in T cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC45232

Gene Ontology Provided by GOA

Process Evidence Code Pubs
abducens nerve formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
anatomical structure morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
artery development IMP
Inferred from Mutant Phenotype
more info
PubMed 
artery morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
cochlea development IMP
Inferred from Mutant Phenotype
more info
PubMed 
cochlea morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
cognition IDA
Inferred from Direct Assay
more info
PubMed 
embryonic neurocranium morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
inner ear development IMP
Inferred from Mutant Phenotype
more info
PubMed 
multicellular organism development TAS
Traceable Author Statement
more info
PubMed 
neuromuscular process IDA
Inferred from Direct Assay
more info
PubMed 
optokinetic behavior IDA
Inferred from Direct Assay
more info
PubMed 
outer ear morphogenesis IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
regulation of behavior IDA
Inferred from Direct Assay
more info
PubMed 
semicircular canal formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
sensory perception of sound IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
nuclear chromatin ISA
Inferred from Sequence Alignment
more info
 

General protein information

Preferred Names
homeobox protein Hox-A1
Names
HOX A1 homeodomain protein
Hox 1.6-like protein
homeo box A1
homeobox 1F
homeobox protein Hox-1F
lab-like protein

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_011813.1 RefSeqGene

    Range
    5001..8014
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_005522.5NP_005513.2  homeobox protein Hox-A1 isoform a

    Status: REVIEWED

    Source sequence(s)
    AC004079
    Consensus CDS
    CCDS5401.1
    Related
    ENSP00000494260.1, ENST00000643460.1
  2. NM_153620.3NP_705873.3  homeobox protein Hox-A1 isoform b

    Status: REVIEWED

    Source sequence(s)
    AC004079
    Consensus CDS
    CCDS5402.2
    Related
    ENSP00000347851.5, ENST00000355633.5

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p13 Primary Assembly

    Range
    27092993..27096000 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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