Hoxb5 homeo box B5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Hoxb5provided by RGD
Official Full Name: homeo box B5provided by RGD
Primary source: RGD:1562292
See related: AllianceGenome:RGD:1562292
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1562292
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 anterior/posterior pattern specification and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within embryonic skeletal system morphogenesis; endothelial cell differentiation; and regulation of DNA-templated transcription. Predicted to be located in cytosol; fibrillar center; and nucleoplasm. Predicted to be active in nucleus. Orthologous to human HOXB5 (homeobox B5). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Kidney (RPKM 38.7), Adrenal (RPKM 35.6) and 4 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q26

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (81765911..81768119)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (81269372..81271580)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (84152152..84154360)

Chromosome 10 - NC_086028.1 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?

HoxB5, in lung tissues of neonatal rats, is primarily expressed in alveolar epithelial cells, bronchial membrane, and vascular endothelial cells.
Title: The expression of HoxB5 and its role in neonatal rats with chronic lung disease.
Decreased expression of HoxB5 may associate with the disruption of type II-I alveolar epithelial cell differentiation and thus may play an important role in inhibition of lung development with lung disease.
Title: [Expression of HoxB5 mRNA and their effect on lung development in premature rats with hyperoxia-induced chronic lung disease].

Submit: New GeneRIF Correction

General gene information

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Markers

UniSTS:265259 (e-PCR)
- UniSTS:265259

Hoxb5 (e-PCR), detects polymorphism
- UniSTS:265259

Hoxb5 (e-PCR), detects polymorphism
- UniSTS:536652

RH138053 (e-PCR)
- UniSTS:220140

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	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	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 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 endothelial cell differentiation	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 DNA-templated transcription	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

Component	Evidence Code	Pubs
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in fibrillar center	IEA Inferred from Electronic Annotation more info
located_in fibrillar center	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-B5

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_001191925.1 → NP_001178854.1 homeobox protein Hox-B5

See identical proteins and their annotated locations for NP_001178854.1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000010

UniProtKB/TrEMBL

A6HIE6, D3ZMA1

Conserved Domains (2) summary

PRK07003
Location:67 → 171

PRK07003; DNA polymerase III subunit gamma/tau

pfam00046
Location:198 → 251

Homeobox; Homeobox domain