Hoxa2 homeobox A2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Hoxa2provided by RGD
Official Full Name: homeobox A2provided by RGD
Primary source: RGD:11468112
See related: EnsemblRapid:ENSRNOG00000005968 AllianceGenome:RGD:11468112
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: Hoxa-2; Hoxa11; Hoxa2l; hox-1.11; RATHOX111A
Summary: Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in embryonic skeletal system development; muscle structure development; and pharyngeal system development. Predicted to act upstream of or within several processes, including regionalization; regulation of transcription by RNA polymerase II; and rhombomere development. Predicted to be located in nucleoplasm. [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Lung (RPKM 42.6), Kidney (RPKM 16.0) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q24

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (82593389..82597589, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (81262668..81266970, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4 Unlocalized Scaffold	NW_007906169.1 (31846..36251, complement)

Chromosome 4 - NC_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

The impact of Hoxa2 over-expression on the proliferation and differentiation of CG4-SHoxa2 cells was investigated.
Title: Conditional Tet-regulated over-expression of Hoxa2 in CG4 cells increases their proliferation and delays their differentiation into oligodendrocyte-like cells expressing myelin basic protein.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription factor activity	TAS Traceable Author Statement more info	PubMed
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription repressor activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology 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 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	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within anterior/posterior pattern specification	ISO Inferred from Sequence Orthology more info
involved_in brain segmentation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within brain segmentation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell fate commitment	ISO Inferred from Sequence Orthology more info
involved_in cell fate determination	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cell fate determination	ISO Inferred from Sequence Orthology more info
involved_in cellular response to retinoic acid	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within cellular response to retinoic acid	ISO Inferred from Sequence Orthology more info
involved_in dorsal/ventral pattern formation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within dorsal/ventral pattern formation	ISO Inferred from Sequence Orthology more info
involved_in 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
involved_in embryonic viscerocranium morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryonic viscerocranium morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in middle ear morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within middle ear morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in motor neuron axon guidance	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within motor neuron axon guidance	ISO Inferred from Sequence Orthology more info
involved_in muscle structure development	IEA Inferred from Electronic Annotation more info
involved_in muscle structure development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of osteoblast differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of osteoblast differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of neuron differentiation	ISO Inferred from Sequence Orthology more info
involved_in osteoblast development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within osteoblast development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within pattern specification process	ISO Inferred from Sequence Orthology more info
involved_in pharyngeal system development	IEA Inferred from Electronic Annotation more info
involved_in pharyngeal system development	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 regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
involved_in rhombomere 2 development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within rhombomere 2 development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within rhombomere 3 development	ISO Inferred from Sequence Orthology more info
involved_in rhombomere 3 morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within rhombomere 3 morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in segment specification	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within segment specification	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: homeobox protein Hox-A2

Names: Homeobox gene A11; Homeobox gene A2; homeo box A2; homeobox protein Hox-1.11

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_012581.3 → NP_036713.2 homeobox protein Hox-A2

See identical proteins and their annotated locations for NP_036713.2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000004

UniProtKB/Swiss-Prot

P31246

UniProtKB/TrEMBL

A6K0Q2, G3V6R6

Related

ENSRNOP00000008023.3, ENSRNOT00000008023.6

Conserved Domains (1) summary

pfam00046
Location:143 → 196

Homeobox; Homeobox domain

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086022.1 Reference GRCr8

Range

82593389..82597589 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039106896.2 → XP_038962824.1 homeobox protein Hox-A2 isoform X2

UniProtKB/Swiss-Prot

P31246

Conserved Domains (1) summary

pfam00046
Location:93 → 146

Homeobox; Homeobox domain
XM_039106895.2 → XP_038962823.1 homeobox protein Hox-A2 isoform X1

UniProtKB/Swiss-Prot

P31246

UniProtKB/TrEMBL

A6K0Q2, G3V6R6

Conserved Domains (1) summary

pfam00046
Location:143 → 196

Homeobox; Homeobox domain