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HOXA2 homeobox A2 [ Homo sapiens (human) ]

Gene ID: 3199, updated on 11-Jun-2025
Official Symbol
HOXA2provided by HGNC
Official Full Name
homeobox A2provided by HGNC
Primary source
HGNC:HGNC:5103
See related
Ensembl:ENSG00000105996 MIM:604685; AllianceGenome:HGNC:5103
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
HOX1K; MCOHI
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. [provided by RefSeq, Jul 2008]
Expression
Broad expression in lung (RPKM 1.2), fat (RPKM 0.8) and 19 other tissues See more
Orthologs
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See HOXA2 in Genome Data Viewer
Location:
7p15.2
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (27100354..27102683, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (27236253..27238582, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (27139973..27142302, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:27133706-27134206 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:27134207-27134707 Neighboring gene Sharpr-MPRA regulatory region 2148 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:27136009-27136581 Neighboring gene homeobox A1 Neighboring gene HOXA transcript antisense RNA, myeloid-specific 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:27142137-27142976 Neighboring gene Sharpr-MPRA regulatory region 6231 Neighboring gene NANOG hESC enhancer GRCh37_chr7:27152731-27153232 Neighboring gene homeobox A3 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:27155135-27155350 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr7:27161315-27162514 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:27163690-27164487 Neighboring gene HOXA cluster antisense RNA 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18042 Neighboring gene homeobox A4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:27179129-27179707 Neighboring gene HOXA cluster antisense RNA 3 Neighboring gene homeobox A5

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
Products Interactant Other Gene Complex Source Pubs Description

Markers

Gene Ontology Provided by GOA

Process Evidence Code Pubs
acts_upstream_of_or_within anterior/posterior pattern specification IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within brain segmentation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cell fate commitment IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cell fate determination IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within cellular response to retinoic acid IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within dorsal/ventral pattern formation IEA
Inferred from Electronic Annotation
more info
 
involved_in embryonic skeletal system development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within embryonic skeletal system morphogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within embryonic viscerocranium morphogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within middle ear morphogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within motor neuron axon guidance IEA
Inferred from Electronic Annotation
more info
 
involved_in muscle structure development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of neuron differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of osteoblast differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of neuron differentiation IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within osteoblast development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within pattern specification process IEA
Inferred from Electronic Annotation
more info
 
involved_in pharyngeal system development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within rhombomere 2 development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within rhombomere 3 development IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within rhombomere 3 morphogenesis IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within segment specification IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
located_in chromatin ISA
Inferred from Sequence Alignment
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
Preferred Names
homeobox protein Hox-A2
Names
homeobox protein Hox-1K

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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_012078.2 RefSeqGene

    Range
    5093..7422
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_006735.4NP_006726.1  homeobox protein Hox-A2

    See identical proteins and their annotated locations for NP_006726.1

    Status: REVIEWED

    Source sequence(s)
    AI581335, AI796505, AW292406, BE465040, BF509655
    Consensus CDS
    CCDS5403.1
    UniProtKB/Swiss-Prot
    A1L4K3, B2RMW3, O43364
    Related
    ENSP00000222718.5, ENST00000222718.7
    Conserved Domains (1) summary
    pfam00046
    Location:147200
    Homeobox; Homeobox domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    27100354..27102683 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    27236253..27238582 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)