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HOXA3 homeobox A3 [ Homo sapiens (human) ]

Gene ID: 3200, updated on 13-Jun-2021

Summary

Official Symbol
HOXA3provided by HGNC
Official Full Name
homeobox A3provided by HGNC
Primary source
HGNC:HGNC:5104
See related
Ensembl:ENSG00000105997 MIM:142954
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
HOX1; HOX1E
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. Three transcript variants encoding two different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
Expression
Broad expression in kidney (RPKM 1.8), fat (RPKM 1.4) and 17 other tissues See more
Orthologs
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Genomic context

See HOXA3 in Genome Data Viewer
Location:
7p15.2
Exon count:
13
Annotation release Status Assembly Chr Location
109.20210514 current GRCh38.p13 (GCF_000001405.39) 7 NC_000007.14 (27107010..27152583, complement)
105.20201022 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (27146629..27192202, complement)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 2148 Neighboring gene HOXA transcript antisense RNA, myeloid-specific 1 Neighboring gene homeobox A2 Neighboring gene Sharpr-MPRA regulatory region 6231 Neighboring gene HOXA cluster antisense RNA 2 Neighboring gene homeobox A4 Neighboring gene HOXA cluster antisense RNA 3 Neighboring gene homeobox A5 Neighboring gene homeobox A6 Neighboring gene homeobox A7 Neighboring gene HOXA10-HOXA9 readthrough Neighboring gene NUP98-HOXA9 recombination region Neighboring gene homeobox A9

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?

Phenotypes

Associated conditions

Description Tests
Genome-wide association analyses identify variants in developmental genes associated with hypospadias.
GeneReviews: Not available

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC10155

Gene Ontology Provided by GOA

Process Evidence Code Pubs
involved_in angiogenesis IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in animal organ formation IEA
Inferred from Electronic Annotation
more info
 
involved_in anterior/posterior pattern specification IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in blood vessel remodeling IEA
Inferred from Electronic Annotation
more info
 
involved_in cartilage development IEA
Inferred from Electronic Annotation
more info
 
involved_in embryonic skeletal system morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in gene expression IEA
Inferred from Electronic Annotation
more info
 
involved_in glossopharyngeal nerve morphogenesis IEA
Inferred from Electronic Annotation
more info
 
involved_in parathyroid gland development IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of cell population proliferation 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
PubMed 
involved_in specification of animal organ position IEA
Inferred from Electronic Annotation
more info
 
involved_in thymus development IEA
Inferred from Electronic Annotation
more info
 
involved_in thyroid gland development 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
PubMed 

General protein information

Preferred Names
homeobox protein Hox-A3
Names
Hox-1.5-like protein
homeo box 1E
homeo box A3
homeobox protein Hox-1E

NCBI Reference Sequences (RefSeq)

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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.

mRNA and Protein(s)

  1. NM_001384335.1NP_001371264.1  homeobox protein Hox-A3

    Status: REVIEWED

    Source sequence(s)
    AC004079, AC004080, AC010990
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  2. NM_001384336.1NP_001371265.1  homeobox protein Hox-A3

    Status: REVIEWED

    Source sequence(s)
    AC004079, AC004080, AC010990
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  3. NM_001384337.1NP_001371266.1  homeobox protein Hox-A3

    Status: REVIEWED

    Source sequence(s)
    AC004079, AC004080, AC010990
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  4. NM_001384338.1NP_001371267.1  homeobox protein Hox-A3

    Status: REVIEWED

    Source sequence(s)
    AC004079, AC004080, AC010990
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  5. NM_001384339.1NP_001371268.1  homeobox protein Hox-A3

    Status: REVIEWED

    Source sequence(s)
    AC004079, AC004080, AC010990
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  6. NM_001384340.1NP_001371269.1  homeobox protein Hox-A3

    Status: REVIEWED

    Source sequence(s)
    AC004079, AC004080, AC010990
    Related
    ENSP00000324884.2, ENST00000317201.7
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  7. NM_001384341.1NP_001371270.1  homeobox protein Hox-A3

    Status: REVIEWED

    Source sequence(s)
    AC004079, AC010990
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  8. NM_001384342.1NP_001371271.1  homeobox protein Hox-A3

    Status: REVIEWED

    Source sequence(s)
    AC004079, AC010990
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  9. NM_001384343.1NP_001371272.1  homeobox protein Hox-A3

    Status: REVIEWED

    Source sequence(s)
    AC004079, AC010990
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  10. NM_001384344.1NP_001371273.1  homeobox protein Hox-A3

    Status: REVIEWED

    Source sequence(s)
    AC004079, AC010990
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  11. NM_001384345.1NP_001371274.1  homeobox protein Hox-A3

    Status: REVIEWED

    Source sequence(s)
    AC004079
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  12. NM_001384346.1NP_001371275.1  homeobox protein Hox-A3

    Status: REVIEWED

    Source sequence(s)
    AC004079
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  13. NM_030661.5NP_109377.1  homeobox protein Hox-A3

    See identical proteins and their annotated locations for NP_109377.1

    Status: REVIEWED

    Source sequence(s)
    AC004079
    Consensus CDS
    CCDS5404.1
    UniProtKB/Swiss-Prot
    O43365
    UniProtKB/TrEMBL
    A0A024RA33
    Related
    ENSP00000379640.3, ENST00000396352.8
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)
  14. NM_153631.3NP_705895.1  homeobox protein Hox-A3

    See identical proteins and their annotated locations for NP_705895.1

    Status: REVIEWED

    Source sequence(s)
    AC004079, AC004080, AC010990
    Consensus CDS
    CCDS5404.1
    UniProtKB/Swiss-Prot
    O43365
    UniProtKB/TrEMBL
    A0A024RA33, A4D182, B3KPN8
    Related
    ENSP00000484411.1, ENST00000612286.5
    Conserved Domains (2) summary
    pfam00046
    Location:195248
    Homeobox; Homeobox domain
    pfam13293
    Location:378441
    DUF4074; Domain of unknown function (DUF4074)

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20210514

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
    27107010..27152583 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_153632.2: Suppressed sequence

    Description
    NM_153632.2: This RefSeq was permanently suppressed because it represents a poorly supported variant with non-consensus splice sites.
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