Hoxb3 homeo box B3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Hoxb3provided by RGD
Official Full Name: homeo box B3provided by RGD
Primary source: RGD:1310780
See related: EnsemblRapid:ENSRNOG00000008313 AllianceGenome:RGD:1310780
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
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 angiogenesis; embryonic skeletal system morphogenesis; and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including hemopoiesis; nervous system development; and thyroid gland development. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Orthologous to human HOXB3 (homeobox B3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Kidney (RPKM 61.6), Adrenal (RPKM 46.7) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q26

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (81786001..81810655)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (81258739..81314134)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (84170629..84196823)

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?

HOXB3 promotes trophoblast cell proliferation, invasion, and migration to alleviate preeclampsia via mediating the Notch/Wnt/beta-catenin pathway.
Title: HOXB3 promotes trophoblast cell proliferation, invasion, and migration to alleviate preeclampsia via mediating the Notch/Wnt/β-catenin pathway.

Submit: New GeneRIF Correction

General gene information

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Markers

Hoxb3 (e-PCR), detects polymorphism
- UniSTS:143381

AW524089 (e-PCR)
- UniSTS:244550

Hoxb3 (e-PCR), detects polymorphism
- UniSTS:536650

BE117971 (e-PCR)
- UniSTS:248736

NoName (e-PCR)
- UniSTS:492249

BF397575 (e-PCR)
- UniSTS:246234

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA-binding transcription activator activity, RNA polymerase II-specific	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

Process	Evidence Code	Pubs
involved_in angiogenesis	ISO Inferred from Sequence Orthology more info
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 cartilage development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within definitive hemopoiesis	ISO Inferred from Sequence Orthology more info
involved_in embryonic skeletal system morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within embryonic skeletal system morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within face development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within glossopharyngeal nerve morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within hematopoietic progenitor cell differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within 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	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of neurogenesis	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 rhombomere development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within thyroid gland development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
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

General protein information

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Preferred Names: homeobox protein Hox-B3

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_001107042.1 → NP_001100512.1 homeobox protein Hox-B3

See identical proteins and their annotated locations for NP_001100512.1

Status: PROVISIONAL

Source sequence(s)

CH473948

UniProtKB/TrEMBL

A6HIE8

Conserved Domains (2) summary

pfam00046
Location:191 → 244

Homeobox; Homeobox domain

pfam13293
Location:365 → 427

DUF4074; Domain of unknown function (DUF4074)

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_086028.1 Reference GRCr8

Range

81786001..81810655

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_017597314.3 → XP_017452803.1 homeobox protein Hox-B3 isoform X1

UniProtKB/TrEMBL

A6HIE8

Conserved Domains (2) summary

pfam00046
Location:191 → 244

Homeobox; Homeobox domain

pfam13293
Location:365 → 427

DUF4074; Domain of unknown function (DUF4074)
XM_017597315.3 → XP_017452804.1 homeobox protein Hox-B3 isoform X1

UniProtKB/TrEMBL

A6HIE8

Conserved Domains (2) summary

pfam00046
Location:191 → 244

Homeobox; Homeobox domain

pfam13293
Location:365 → 427

DUF4074; Domain of unknown function (DUF4074)
XM_006247194.5 → XP_006247256.1 homeobox protein Hox-B3 isoform X2

See identical proteins and their annotated locations for XP_006247256.1

UniProtKB/TrEMBL

B2RYQ0, F7FL39

Related

ENSRNOP00000011027.5, ENSRNOT00000011027.8

Conserved Domains (2) summary

pfam00046
Location:190 → 243

Homeobox; Homeobox domain

pfam13293
Location:364 → 426

DUF4074; Domain of unknown function (DUF4074)
XM_039086074.2 → XP_038942002.1 homeobox protein Hox-B3 isoform X1

UniProtKB/TrEMBL

A6HIE8

Conserved Domains (2) summary

pfam00046
Location:191 → 244

Homeobox; Homeobox domain

pfam13293
Location:365 → 427

DUF4074; Domain of unknown function (DUF4074)
XM_039086075.2 → XP_038942003.1 homeobox protein Hox-B3 isoform X1

UniProtKB/TrEMBL

A6HIE8

Conserved Domains (2) summary

pfam00046
Location:191 → 244

Homeobox; Homeobox domain

pfam13293
Location:365 → 427

DUF4074; Domain of unknown function (DUF4074)