Hoxb1 homeobox B1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Hoxb1provided by MGI
Official Full Name: homeobox B1provided by MGI
Primary source: MGI:MGI:96182
See related: Ensembl:ENSMUSG00000018973 AllianceGenome:MGI:96182
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-2.9
Summary: Enables sequence-specific DNA binding activity. Contributes to RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including central nervous system development; embryonic skeletal system morphogenesis; and positive regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. Is expressed in several structures, including branchial arch; central nervous system; embryo ectoderm; embryo mesenchyme; and gut. Orthologous to human HOXB1 (homeobox B1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Low expression observed in reference dataset See more
Orthologs: human all
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Genomic context

Location:: 11 D; 11 59.86 cM

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	11	NC_000077.7 (96256547..96259082)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	11	NC_000077.6 (96365746..96368254)

Chromosome 11 - NC_000077.7 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: Mouse ENCODE transcriptome data 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?

Hoxb1 Regulates Distinct Signaling Pathways in Neuromesodermal and Hindbrain Progenitors to Promote Cell Survival and Specification.
Title: Hoxb1 Regulates Distinct Signaling Pathways in Neuromesodermal and Hindbrain Progenitors to Promote Cell Survival and Specification.
Hox-dependent coordination of mouse cardiac progenitor cell patterning and differentiation.
Title: Hox-dependent coordination of mouse cardiac progenitor cell patterning and differentiation.
Hoxa1 and Hoxb1 are required for pharyngeal arch artery development.
Title: Hoxa1 and Hoxb1 are required for pharyngeal arch artery development.
Hoxa1 and Hoxb1 have diverged in function through either sub- or neo-functionalization and that the HoxA1 and HoxB1 proteins are not mutually interchangeable when expressed from the Hoxa1 locus
Title: Mouse fitness measures reveal incomplete functional redundancy of Hox paralogous group 1 proteins.
provide a comprehensive account of the developmental role of Hoxb1 in patterning the vestibular system and evidence for a remarkable developmental plasticity in the descending control of reflex limb movements
Title: Loss of Projections, Functional Compensation, and Residual Deficits in the Mammalian Vestibulospinal System of Hoxb1-Deficient Mice.
These data suggest that Hoxb1 and Hoxa1 are more phenotypically divergent than previously reported and support that sub- and/or neofunctionalization has occurred in these paralogous genes leading to a divergence of gene function and incomplete redundancy
Title: Fitness Assays Reveal Incomplete Functional Redundancy of the HoxA1 and HoxB1 Paralogs of Mice.
Hoxb1 regulates proliferation and differentiation of second heart field progenitors in pharyngeal mesoderm and genetically interacts with Hoxa1 during cardiac outflow tract development.
Title: Hoxb1 regulates proliferation and differentiation of second heart field progenitors in pharyngeal mesoderm and genetically interacts with Hoxa1 during cardiac outflow tract development.
Hoxb1 is required for the anterior-posterior identity of precursors that contribute to the lateral vestibular nucleus.
Title: Hoxb1 controls anteroposterior identity of vestibular projection neurons.
The results of this study show that ES neural differentiation and inducible Hox gene expression can be used as a sensitive model system to systematically identify Hox novel target genes.
Title: Directed neural differentiation of mouse embryonic stem cells is a sensitive system for the identification of novel Hox gene effectors.
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.

Submit: New GeneRIF Correction See all GeneRIFs (19)

Variation

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Alleles

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

Chemically induced (ENU) (2)
Endonuclease-mediated (1)
Targeted (14) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Hoxb1 (e-PCR), detects polymorphism
- UniSTS:143379

NoName (e-PCR)
- UniSTS:484892

Hoxb1 (e-PCR), detects polymorphism
- UniSTS:470557

Hoxb1 (e-PCR), detects polymorphism
- UniSTS:234048

Hoxb1 (e-PCR), detects polymorphism
- UniSTS:536647

Hoxb1 (e-PCR), detects polymorphism
- UniSTS:238163

Hoxb1 (e-PCR), detects polymorphism
- UniSTS:265564

NoName (e-PCR)
- UniSTS:236712

NoName (e-PCR)
- UniSTS:236714

PMC117285P1 (e-PCR)
- UniSTS:270323

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IDA Inferred from Direct Assay more info	PubMed
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, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
contributes_to 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
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables protein domain specific binding	IEA Inferred from Electronic Annotation more info
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific DNA binding	IGI Inferred from Genetic Interaction more info	PubMed
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within anatomical structure formation involved in morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within anatomical structure morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within anterior/posterior pattern specification	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within embryonic skeletal system morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within facial nerve structural organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within facial nucleus development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive 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	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 4 development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within rhombomere 5 development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within rhombomere development	IDA Inferred from Direct Assay 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-B1

Names: homeo box B1; homeobox protein Hox-2.9

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_008266.6 → NP_032292.3 homeobox protein Hox-B1

See identical proteins and their annotated locations for NP_032292.3

Status: VALIDATED

Source sequence(s)

AL606824

Consensus CDS

CCDS25300.1

UniProtKB/Swiss-Prot

P17919, Q3ZAY6, Q9CYH3

Related

ENSMUSP00000019117.3, ENSMUST00000019117.3

Conserved Domains (1) summary

pfam00046
Location:203 → 255

Homeobox; Homeobox domain

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

96256547..96259082

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006532280.1 → XP_006532343.1 homeobox protein Hox-B1 isoform X1

Conserved Domains (1) summary

pfam00046
Location:236 → 289

Homeobox; Homeobox domain