Hoxa13 homeobox A13 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Hoxa13provided by MGI
Official Full Name: homeobox A13provided by MGI
Primary source: MGI:MGI:96173
See related: Ensembl:ENSMUSG00000038203 AllianceGenome:MGI:96173
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Hd; Hox-1.10
Summary: Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including circulatory system development; endothelial cell differentiation; and reproductive structure development. Located in nucleus. Is expressed in several structures, including genitourinary system; intestine; limb; limb bud; and nervous system. Used to study hand-foot-genital syndrome. 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, Apr 2022]
Expression: Biased expression in colon adult (RPKM 25.4), bladder adult (RPKM 9.5) and 1 other tissue See more
Orthologs: human all
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Genomic context

Location:: 6 B3; 6 25.41 cM

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	6	NC_000072.7 (52235833..52237865, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	6	NC_000072.6 (52258853..52260880, complement)

Chromosome 6 - NC_000072.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HOXA13 in etiology and oncogenic potential of Barrett's esophagus.
Title: HOXA13 in etiology and oncogenic potential of Barrett's esophagus.
HOX13-dependent chromatin accessibility underlies the transition towards the digit development program.
Title: HOX13-dependent chromatin accessibility underlies the transition towards the digit development program.
Our data also reveal a specific role for Hoxa13 in the urogenital sinus, which is in part mediated by Gata3, as well as Hoxa13 requirement for the proper organization of the ureter. Finally, we provide evidence that Hoxa13 provides positional and temporal cues during the development of the lower urogenital system, a sine qua non condition for the proper function of the urinary system.
Title: Multifaceted Hoxa13 function in urogenital development underlies the Hand-Foot-Genital Syndrome.
we report on the genome-wide profiling of HOXA13 and HOXD13 in vivo binding and changes of the transcriptome and chromatin state in the transition from the early to the late-distal limb developmental program, as well as in Hoxa13(-/-); Hoxd13(-/-) limbs.
Title: Distal Limb Patterning Requires Modulation of cis-Regulatory Activities by HOX13.
Data show that almost all muscle masses of the zeugopod (forearm) and part of the triceps contain homeobox protein HOXA13-expressing cells and/or their descendants.
Title: A Hoxa13:Cre mouse strain for conditional gene manipulation in developing limb, hindgut, and urogenital system.
Defects in interdigital programmed cell death and digit separation in Hoxa13 mutant mice may be caused in part by reduced levels of RA signaling stemming from a loss in the direct regulation of Aldh1a2
Title: HOXA13 regulates Aldh1a2 expression in the autopod to facilitate interdigital programmed cell death.
The data demonstrate that simvastatin contributes to prevent the progression of renal fibrosis by upregulating BMP-7-mediated anti-fibrotic signaling and that one aspect of crucial efficacies is achieved by regulating HOXA13 and USAG-1.
Title: 3-Hydroxy-3-methylglutaryl-coenzyme A reductase inhibitor simvastatin ameliorates renal fibrosis through HOXA13-USAG-1 pathway.
The results show that overactivation of hedgehog signaling leads to abnormal development of the female reproductive tract, altered levels of Hoxa13 and Wnt5a mRNA, and an aberrant inflammatory response to mating.
Title: Dominant activation of the hedgehog signaling pathway alters development of the female reproductive tract.
Data show that the extra-embryonic function of Hoxa10, -11, and -13 genes stems from their specific expression in the allantois, an extra-embryonic hallmark of amniote vertebrates.
Title: Recruitment of 5' Hoxa genes in the allantois is essential for proper extra-embryonic function in placental mammals.
Data show that cis-regulatory elements driving Hoxd gene expression in distal limbs are present in fish.
Title: Appendage expression driven by the Hoxd Global Control Region is an ancient gnathostome feature.

Submit: New GeneRIF Correction See all GeneRIFs (23)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Spontaneous (1)
Targeted (9) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

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

Hoxa13 (e-PCR), detects polymorphism
- UniSTS:472856

NoName (e-PCR)
- UniSTS:484891

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

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

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

NoName (e-PCR)
- UniSTS:548490

RH66791 (e-PCR)
- UniSTS:1216

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

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

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor 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	IMP Inferred from Mutant Phenotype more info	PubMed
enables cis-regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables transcription cis-regulatory region binding	IDA Inferred from Direct Assay more info	PubMed

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

Component	Evidence Code	Pubs
located_in chromosome	ISO Inferred from Sequence Orthology more info
located_in intermediate filament cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: homeobox protein Hox-A13

Names: homeobox protein Hox-1.10; hypodactyly

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.