Hoxa7 homeobox A7 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Hoxa7provided by RGD
Full Name: homeobox A7provided by RGD
Primary source: RGD:1587253
See related: EnsemblRapid:ENSRNOG00000046361 AllianceGenome:RGD:1587253
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: Hoxa9; Hox1r5
Summary: Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific; DNA-binding transcription factor binding activity; and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including angiogenesis; negative regulation of cell-matrix adhesion; and negative regulation of monocyte differentiation. Predicted to act upstream of or within several processes, including embryonic skeletal system morphogenesis; negative regulation of keratinocyte differentiation; and regulation of transcription by RNA polymerase II. Predicted to be located in nuclear membrane and nucleoplasm. Orthologous to human HOXA7 (homeobox A7). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 28.1), Muscle (RPKM 11.3) and 2 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 (82646342..82652449, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (81315730..81317629, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (82184299..82187890, complement)

Chromosome 4 - NC_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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?

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General gene information

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Markers

Hoxa7 (e-PCR), detects polymorphism
- UniSTS:143371

Hoxa7 (e-PCR), detects polymorphism
- UniSTS:143372

Hoxa7 (e-PCR), detects polymorphism
- UniSTS:536645

RH135228 (e-PCR)
- UniSTS:218505

REN100580 (e-PCR)
- UniSTS:425377

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 binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor binding	ISO Inferred from Sequence Orthology 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 angiogenesis	IEA Inferred from Electronic Annotation more info
involved_in angiogenesis	ISO Inferred from Sequence Orthology more info
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 embryonic skeletal system morphogenesis	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryonic skeletal system morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell-matrix adhesion	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of cell-matrix adhesion	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of keratinocyte differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within negative regulation of keratinocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of leukocyte migration	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of leukocyte migration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of monocyte differentiation	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of monocyte 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
involved_in negative regulation of transcription by RNA polymerase II	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
involved_in stem cell differentiation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within stem cell differentiation	ISO Inferred from Sequence Orthology more info

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

General protein information

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Preferred Names: homeobox protein Hox-A7

Names: Homeobox gene A7; homeobox A9; homeobox protein Hox-1.1; homeobox protein Hox-A7-like; homeobox protein R5; hox-1.1

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_001109233.2 → NP_001102703.2 homeobox protein Hox-A7

See identical proteins and their annotated locations for NP_001102703.2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000004

UniProtKB/TrEMBL

M0R7P7

Related

ENSRNOP00000066086.1, ENSRNOT00000071729.4

Conserved Domains (1) summary

pfam00046
Location:133 → 185

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

82646342..82652449 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063286514.1 → XP_063142584.1 homeobox protein Hox-A7 isoform X2
XM_063286512.1 → XP_063142582.1 homeobox protein Hox-A7 isoform X1

UniProtKB/TrEMBL

M0R7P7