Hoxa5 homeo box A5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Hoxa5provided by RGD
Full Name: homeo box A5provided by RGD
Primary source: RGD:620609
See related: EnsemblRapid:ENSRNOG00000047951 AllianceGenome:RGD:620609
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
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. Predicted to be involved in several processes, including negative regulation of angiogenesis; regulation of gene expression; and regulation of myeloid cell differentiation. Predicted to act upstream of or within several processes, including intestinal epithelial cell maturation; mammary gland development; and respiratory system development. Predicted to be active in nucleus. Orthologous to human HOXA5 (homeobox A5). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Kidney (RPKM 90.6), Lung (RPKM 88.9) and 5 other tissues See more
Orthologs: human mouse all
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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 (82632958..82636851, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (81302341..81306234, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4 Unlocalized Scaffold	NW_007906169.1 (71788..76194, complement)

Chromosome 4 - NC_086022.1 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: 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Homeobox A5 and C10 genes modulate adaptation of brown adipose tissue during exercise training in juvenile rats.
Title: Homeobox A5 and C10 genes modulate adaptation of brown adipose tissue during exercise training in juvenile rats.
MiR-130a, by inhibiting Homeobox A5 expression, could down-regulate occludin, thereby increasing BBB permeability. Our results suggested that miR-130a might be implicated in ischemia-induced BBB dysfunction and serve as a target for the treatment of ischemic stroke
Title: MicroRNA-130a regulates cerebral ischemia-induced blood-brain barrier permeability by targeting Homeobox A5.

Submit: New GeneRIF Correction

General gene information

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Markers

Hoxa5 (e-PCR), detects polymorphism
- UniSTS:143368

Hoxa5 (e-PCR), detects polymorphism
- UniSTS:143369

Hoxa5 (e-PCR), detects polymorphism
- UniSTS:265255

MARC_6217-6218:992007117:1 (e-PCR)
- UniSTS:231213

UniSTS:57649 (e-PCR)
- UniSTS:57649

Hoxa5 (e-PCR), detects polymorphism
- UniSTS:536643

Hoxa5 (e-PCR), detects polymorphism
- UniSTS:239193

REN100511 (e-PCR)
- UniSTS:425308

REN100512 (e-PCR)
- UniSTS:425309

REN100522 (e-PCR)
- UniSTS:425319

stSG609349 (e-PCR)
- UniSTS:449442

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
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	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 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 sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in anterior/posterior pattern specification	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within anterior/posterior pattern specification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within bronchiole development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cartilage morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell-cell signaling involved in mammary gland development	ISO Inferred from Sequence Orthology more info
involved_in embryonic skeletal system development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryonic skeletal system development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic skeletal system morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within epithelial tube branching involved in lung morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within intestinal epithelial cell maturation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lobar bronchus epithelium development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lung alveolus development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lung development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lung goblet cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within lung-associated mesenchyme development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mammary gland alveolus development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mammary gland epithelial cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mesenchymal-epithelial cell signaling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within morphogenesis of an epithelium	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within multicellular organism growth	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of angiogenesis	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of erythrocyte differentiation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of erythrocyte differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within pattern specification process	ISO Inferred from Sequence Orthology more info
involved_in pattern specification process	TAS Traceable Author Statement more info	PubMed
involved_in positive regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of gene expression	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of gene expression	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of myeloid cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of myeloid cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation 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
acts_upstream_of_or_within regulation of mammary gland epithelial cell proliferation	ISO Inferred from Sequence Orthology 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 respiratory gaseous exchange by respiratory system	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within respiratory system process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within skeletal system development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within thyroid gland development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within trachea cartilage morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within trachea morphogenesis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
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

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Preferred Names: homeobox protein Hox-A5

Names: homeobox protein Hox-1.3; homeobox protein Hox-A5-like; hox-1.3

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)

NM_024389.1 → NP_077365.1 homeobox protein Hox-A5

Status: VALIDATED

Source sequence(s)

JAXUCZ010000004

UniProtKB/TrEMBL

M0R5H2

Related

ENSRNOP00000064639.2, ENSRNOT00000074167.4

Conserved Domains (1) summary

pfam00046
Location:310 → 363

Homeobox; Homeobox domain