Hoxa13 homeo box A13 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Hoxa13provided by RGD
Full Name: homeo box A13provided by RGD
Primary source: RGD:1562483
See related: Ensembl:ENSRNOG00000057061 AllianceGenome:RGD:1562483
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1562483
Summary: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in embryonic hindgut morphogenesis; prostate gland development; and response to testosterone. Predicted to be located in chromosome; intermediate filament cytoskeleton; and nucleoplasm. Biomarker of hypospadias. Human ortholog(s) of this gene implicated in Guttmacher syndrome and hand-foot-genital syndrome. Orthologous to human HOXA13 (homeobox A13). [provided by Alliance of Genome Resources, Jul 2025]
Expression: Restricted expression toward (RPKM 16.9) See more
Orthologs: all
: Try the new Gene page
Try the new Transcripts and proteins table

Genomic context

Location:: 4q24

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (82689566..82691701, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (81358956..81361091, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4 Unlocalized Scaffold	NW_007906169.1 (128924..131059, complement)

Chromosome 4 - NC_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Submit: New GeneRIF Correction

General gene information

Go to the top of the page Help

Markers

Hoxa13 (e-PCR), detects polymorphism
- UniSTS:143364

Hoxa13 (e-PCR), detects polymorphism
- UniSTS:536639

REN100771 (e-PCR)
- UniSTS:425568

Hoxa13 (e-PCR), detects polymorphism
- UniSTS:547441

Hoxa13 (e-PCR), detects polymorphism
- UniSTS:265597

Hoxa13 (e-PCR), detects polymorphism
- UniSTS:547818

Hoxa13 (e-PCR), detects polymorphism
- UniSTS:265718

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology 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 activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables cis-regulatory region sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	IEA Inferred from Electronic Annotation more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	IEA Inferred from Electronic Annotation more info
enables transcription cis-regulatory region binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within anatomical structure morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within animal organ morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within artery morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within branching involved in prostate gland morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic forelimb morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in embryonic hindgut morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within endothelial cell fate specification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within endothelial cell morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within inner ear development	ISO Inferred from Sequence Orthology more info
involved_in limb development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within male genitalia development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of mesenchymal cell apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of mitotic nuclear division	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in prostate gland development	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within regulation of BMP signaling pathway	ISO Inferred from Sequence Orthology 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
involved_in response to testosterone	IEP Inferred from Expression Pattern more info	PubMed
acts_upstream_of_or_within tissue homeostasis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within vasculogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within ventricular septum development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology 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
located_in nucleus	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: homeobox protein Hox-A13

Names: homeobox A13; homeobox protein Hox-A13-like

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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)

NM_001271355.1 → NP_001258284.1 homeobox protein Hox-A13

Status: VALIDATED

Source sequence(s)

JAXUCZ010000004

UniProtKB/TrEMBL

A0A0G2K6K0

Related

ENSRNOP00000073843.2, ENSRNOT00000089432.3

Conserved Domains (2) summary

smart00389
Location:320 → 376

HOX; Homeodomain

pfam12284
Location:85 → 220

HoxA13_N; Hox protein A13 N terminal