Hoxb3 homeobox B3 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Hoxb3provided by MGI
Official Full Name: homeobox B3provided by MGI
Primary source: MGI:MGI:96184
See related: Ensembl:ENSMUSG00000048763 AllianceGenome:MGI:96184
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Hox-2.7
Summary: Enables RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including hemopoiesis; nervous system development; and skeletal system development. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including branchial arch; central nervous system; embryo mesenchyme; gut; and lung. Orthologous to human HOXB3 (homeobox B3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Broad expression in adrenal adult (RPKM 10.4), genital fat pad adult (RPKM 3.2) and 17 other tissues See more
Orthologs: human all
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Genomic context

Location:: 11 D; 11 59.84 cM

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	11	NC_000077.7 (96197927..96238756)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	11	NC_000077.6 (96307101..96347930)

Chromosome 11 - NC_000077.7 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: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

identified a novel Hoxb3 binding site S3 on the Hoxb1 locus and confirmed protein binding to this site in hindbrain tissues from the Hoxb3(Tg) mutant
Title: Hoxb3 negatively regulates Hoxb1 expression in mouse hindbrain patterning.
these results suggest that the multiple non-coding RNAs could be involved in the regulation of Hoxb3.
Title: Multiple coding and non-coding RNAs in the Hoxb3 locus and their spatial expression patterns during mouse embryogenesis.
The Hoxb3 gene plays an essential role in regulating B lymphopoiesis in the BM of adult mice.
Title: Hoxb3 deficiency impairs B lymphopoiesis in mouse bone marrow.
In this expt. mice with a compound deficiency in hoxa9, hoxb3 and hoxb4 (hoxa9/b3/b4) were investigated for evidence of synergy between these genes in hematopoiesis.
Title: Hoxa9/hoxb3/hoxb4 compound null mice display severe hematopoietic defects.
Results suggest that members of the Hox groups (Hoxa3, Hoxb3, Hoxd3) coordinate both suppression and activation mechanisms that ensure distinction between the multiple rhombomeres in the developing hindbrain.
Title: Hox3 genes coordinate mechanisms of genetic suppression and activation in the generation of branchial and somatic motoneurons.
b3IIIa in the Hoxb3 gene locus-lacZ transgene was expressed in a subset of enteric neuroblasts during early development of the gut
Title: Hoxb3 vagal neural crest-specific enhancer element for controlling enteric nervous system development.
These data suggest a direct physiological role of Hoxb4 and Hoxb3 in regulating stem cell regeneration and that these genes are required for maximal proliferative response.
Title: Reduced proliferative capacity of hematopoietic stem cells deficient in Hoxb3 and Hoxb4.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (2) 1 citation

General gene information

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Markers

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

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

G38055 (e-PCR)
- UniSTS:105043

Hoxb3 (e-PCR), detects polymorphism
- UniSTS:265565

BE687976 (e-PCR)
- UniSTS:208738

BE117971 (e-PCR)
- UniSTS:248736

NoName (e-PCR)
- UniSTS:492249

PMC155209P1 (e-PCR)
- UniSTS:271330

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
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, 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	IDA Inferred from Direct Assay more info	PubMed
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	IEA Inferred from Electronic Annotation 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	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within cartilage development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within definitive hemopoiesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in embryonic skeletal system morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within embryonic skeletal system morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within embryonic skeletal system morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within face development	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within glossopharyngeal nerve morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within hematopoietic progenitor cell differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation 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	IDA Inferred from Direct Assay more info	PubMed
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	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within thyroid gland development	IGI Inferred from Genetic Interaction more info	PubMed

Component	Evidence Code	Pubs
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	TAS Traceable Author Statement 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

Names: homeo box B3; homeobox protein Hox-2.7; homeobox protein MH-23

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_001079869.1 → NP_001073338.1 homeobox protein Hox-B3

See identical proteins and their annotated locations for NP_001073338.1

Status: VALIDATED

Description

Transcript Variant: This variant is the longer transcript. Variants 1 and 2 encode the same protein.

Source sequence(s)

AL606824

Consensus CDS

CCDS25299.1

UniProtKB/Swiss-Prot

P09026, P10285, Q4PJ06, Q61680

Related

ENSMUSP00000091476.4, ENSMUST00000093944.10

Conserved Domains (2) summary

pfam00046
Location:195 → 248

Homeobox; Homeobox domain

pfam13293
Location:369 → 431

DUF4074; Domain of unknown function (DUF4074)
NM_010458.2 → NP_034588.2 homeobox protein Hox-B3

See identical proteins and their annotated locations for NP_034588.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR, compared to variant 1. Variants 1 and 2 encode the same protein.

Source sequence(s)

AL606824

Consensus CDS

CCDS25299.1

UniProtKB/Swiss-Prot

P09026, P10285, Q4PJ06, Q61680

Related

ENSMUSP00000053426.3, ENSMUST00000055334.3

Conserved Domains (2) summary

pfam00046
Location:195 → 248

Homeobox; Homeobox domain

pfam13293
Location:369 → 431

DUF4074; Domain of unknown function (DUF4074)

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000077.7 Reference GRCm39 C57BL/6J

Range

96197927..96238756

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006532290.4 → XP_006532353.1 homeobox protein Hox-B3 isoform X1

See identical proteins and their annotated locations for XP_006532353.1

UniProtKB/Swiss-Prot

P09026, P10285, Q4PJ06, Q61680

Conserved Domains (2) summary

pfam00046
Location:195 → 248

Homeobox; Homeobox domain

pfam13293
Location:369 → 431

DUF4074; Domain of unknown function (DUF4074)
XM_006532289.5 → XP_006532352.1 homeobox protein Hox-B3 isoform X1

See identical proteins and their annotated locations for XP_006532352.1

UniProtKB/Swiss-Prot

P09026, P10285, Q4PJ06, Q61680

Conserved Domains (2) summary

pfam00046
Location:195 → 248

Homeobox; Homeobox domain

pfam13293
Location:369 → 431

DUF4074; Domain of unknown function (DUF4074)
XM_006532288.3 → XP_006532351.1 homeobox protein Hox-B3 isoform X1

See identical proteins and their annotated locations for XP_006532351.1

UniProtKB/Swiss-Prot

P09026, P10285, Q4PJ06, Q61680

Conserved Domains (2) summary

pfam00046
Location:195 → 248

Homeobox; Homeobox domain

pfam13293
Location:369 → 431

DUF4074; Domain of unknown function (DUF4074)
XM_006532283.5 → XP_006532346.1 homeobox protein Hox-B3 isoform X1

See identical proteins and their annotated locations for XP_006532346.1

UniProtKB/Swiss-Prot

P09026, P10285, Q4PJ06, Q61680

Conserved Domains (2) summary

pfam00046
Location:195 → 248

Homeobox; Homeobox domain

pfam13293
Location:369 → 431

DUF4074; Domain of unknown function (DUF4074)
XM_006532291.3 → XP_006532354.1 homeobox protein Hox-B3 isoform X2

Conserved Domains (2) summary

pfam00046
Location:194 → 247

Homeobox; Homeobox domain

pfam13293
Location:368 → 430

DUF4074; Domain of unknown function (DUF4074)
XM_006532284.4 → XP_006532347.1 homeobox protein Hox-B3 isoform X1

See identical proteins and their annotated locations for XP_006532347.1

UniProtKB/Swiss-Prot

P09026, P10285, Q4PJ06, Q61680

Conserved Domains (2) summary

pfam00046
Location:195 → 248

Homeobox; Homeobox domain

pfam13293
Location:369 → 431

DUF4074; Domain of unknown function (DUF4074)
XM_006532285.4 → XP_006532348.1 homeobox protein Hox-B3 isoform X1

See identical proteins and their annotated locations for XP_006532348.1

UniProtKB/Swiss-Prot

P09026, P10285, Q4PJ06, Q61680

Conserved Domains (2) summary

pfam00046
Location:195 → 248

Homeobox; Homeobox domain

pfam13293
Location:369 → 431

DUF4074; Domain of unknown function (DUF4074)
XM_011248757.3 → XP_011247059.1 homeobox protein Hox-B3 isoform X1

See identical proteins and their annotated locations for XP_011247059.1

UniProtKB/Swiss-Prot

P09026, P10285, Q4PJ06, Q61680

Conserved Domains (2) summary

pfam00046
Location:195 → 248

Homeobox; Homeobox domain

pfam13293
Location:369 → 431

DUF4074; Domain of unknown function (DUF4074)
XM_006532286.5 → XP_006532349.1 homeobox protein Hox-B3 isoform X1

See identical proteins and their annotated locations for XP_006532349.1

UniProtKB/Swiss-Prot

P09026, P10285, Q4PJ06, Q61680

Conserved Domains (2) summary

pfam00046
Location:195 → 248

Homeobox; Homeobox domain

pfam13293
Location:369 → 431

DUF4074; Domain of unknown function (DUF4074)