Hoxb1 MGI Mouse Gene Detail - MGI:96182

Symbol

Hoxb1
Name

homeobox B1
Synonyms

Hox-2.9

Feature Type

protein coding gene
IDs

MGI:96182
NCBI Gene: 15407
Member of

Hoxb cluster
Alliance

genome feature page
Transcription Start Sites

4 TSS
Regulated by

Rr36, Rr578, Rr140 ... (6 regulatory regions)

Sequence Map

Chr11:96256578-96259082 bp, + strand
From Ensembl annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 11, 59.86 cM
Mapping Data

9 experiments

SNPs within 2kb

96 from dbSNP Build 142
Strain Annotations

19
PCR

2
RFLP

1

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_96182	protein coding gene	Chr11:96256547-96259082 (+)
129S1/SvImJ	ENSMUSG00200048673	protein coding gene	Chr11:93500958-93503462 (+)
A/J	ENSMUSG00195048225	protein coding gene	Chr11:93222164-93224668 (+)
AKR/J	ENSMUSG00220045607	protein coding gene	Chr11:93481227-93483731 (+)
BALB/cJ	ENSMUSG00180049647	protein coding gene	Chr11:93485851-93488359 (+)
C3H/HeJ	ENSMUSG00175050309	protein coding gene	Chr11:93481657-93484162 (+)
C57BL/6NJ	ENSMUSG00215053897	protein coding gene	Chr11:93074137-93076642 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0017032	protein coding gene	Chr11:92137177-92139637 (+)
CAST/EiJ	ENSTCUG00005048337	protein coding gene	Chr11:92924747-92927203 (+)
CBA/J	ENSMUSG00210052265	protein coding gene	Chr11:93184587-93187090 (+)
DBA/2J	ENSMUSG00185049909	protein coding gene	Chr11:93531502-93534007 (+)
FVB/NJ	ENSMUSG00205034072	protein coding gene	Chr11:93388046-93390551 (+)
JF1/MsJ	ENSUMUG00000017528	protein coding gene	Chr11:93837269-93839772 (+)
LP/J	ENSMUSG00230049724	protein coding gene	Chr11:94584032-94586536 (+)
NOD/ShiLtJ	ENSMUSG00190048493	protein coding gene	Chr11:93579461-93581967 (+)
NZO/HlLtJ	ENSMUSG00225049077	protein coding gene	Chr11:96639790-96642295 (+)
PWK/PhJ	ENSLUMG00010050657	protein coding gene	Chr11:93382298-93384793 (+)
SPRET/EiJ	ENSMSPG00010044890	protein coding gene	Chr11:93884683-93887132 (+)
WSB/EiJ	ENSIUOG00005047686	protein coding gene	Chr11:93327256-93329731 (+)

Human Ortholog

HOXB1, homeobox B1

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

HOXB1, homeobox B1
Synonyms

HCFP3, HOX2, Hox-2.9, HOX2I
Links

HGNC:5111

NCBI Gene ID: 3211

UniProt: P14653
Chr Location

17q21.32; chr17:48528526-48531011 (-) GRCh38

MGI Vertebrate Homology

Hoxb1 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: HOXB1
Gene Tree

Hoxb1

less

Phenotype Summary

36 phenotypes from 12 alleles in 9 genetic backgrounds
56 phenotypes from multigenic genotypes
72 phenotype references

Phenotype Overview

Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.

adipose tissue	behavior/neurological	cardiovascular system	cellular	craniofacial	digestive/alimentary system	embryo	endocrine/exocrine glands	growth/size/body	hearing/vestibular/ear	hematopoietic system	homeostasis/metabolism	integument	immune system	limbs/digits/tail	liver/biliary system	mortality/aging	muscle	nervous system	pigmentation	renal/urinary system	reproductive system	respiratory system	skeleton	taste/olfaction	neoplasm	vision/eye

Click cells to view annotations.

All Mutations and Alleles

29
Chemically induced (ENU)

2
Endonuclease-mediated

1
Gene trapped

1
Targeted

24
Transgenic

1
Genomic Mutations

3 involving Hoxb1
Incidental Mutations

Mutagenetix , APF
Find Mice (IMSR)

24 strains or lines available
Comparison Matrix

Gene Expression + Phenotype
Recombinase Activity

Comparison Matrix Gene Expression + Recombinase Activity

Mice homozygous for a reporter allele die neonatally with altered segmental identity and abnormal migration of motor neurons in the hindbrain. Mice homozygous for null alleles can exhibit partial postnatal lethality, narrow face, runting, absent facial motor nuclei, and facial nerve/muscle defects.

less

All GO Annotations

54
GO References

12

Molecular Function

carbohydrate derivative binding	cytoskeletal protein binding	DNA binding	enzyme regulator	hydrolase	ligase	lipid binding	oxidoreductase	RNA binding	signaling receptor activity	signaling receptor binding	transcription	transferase	transporter

Biological Process

carbohydrate derivative metabolism	cell differentiation	cell population proliferation	cellular component organization	DNA-templated transcription	establishment of localization	homeostatic process	immune system process	lipid metabolic process	programmed cell death	protein metabolic process	response to stimulus	signaling	system development

Cellular Component

cell projection	cytoplasmic vesicle	cytoskeleton	cytosol	endoplasmic reticulum	endosome	extracellular region	Golgi apparatus	mitochondrion	membraneless organelle	nucleus	organelle envelope	organelle lumen	plasma membrane	protein-containing complex	synapse	vacuole

Click cells to view annotations.

less

Expression Overview

GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.

Blue cells = expressed in wild-type.
Gray triangles = other expression annotations only
(e.g. absence of expression or data from mutants).

early conceptus	embryo ectoderm	embryo endoderm	embryo mesoderm	embryo mesenchyme	extraembryonic component	alimentary system	auditory system	branchial arches	cardiovascular system	connective tissue	endocrine system	exocrine system	hemolymphoid system	integumental system	limbs	liver and biliary system	musculoskeletal system	nervous system	olfactory system	reproductive system	respiratory system	urinary system	visual system

Click cells to view annotations.

Assay Results

1353
Tissues

255
cDNA Data

28
Literature Summary

240

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

GEISHA HOXB1

ZFIN hoxb1a, hoxb1b

less

All Sequences

42
RefSeq

4
UniProt

2
CCDS

CCDS25300.1

Ensembl

ENSMUSG00000018973 (Evidence)
NCBI Gene

15407

			Length	Strain/Species	Flank
genomic	ENSMUSG00000018973	Ensembl Gene Model \| MGI Sequence Detail	2505	C57BL/6J	± kb
transcript	ENSMUST00000019117	Ensembl \| MGI Sequence Detail	2086	Not Applicable
polypeptide	ENSMUSP00000019117	Ensembl \| MGI Sequence Detail	297	Not Applicable

less

UniProt

2 Sequences
Protein Ontology

PR:000008697 homeobox protein Hox-B1

(term hierarchy)
InterPro Domains

IPR017970 Homeobox, conserved site

IPR046327 Homeobox protein Hox-A1/B1/D1

IPR001356 Homeodomain

IPR009057 Homeodomain-like superfamily

IPR020479 Homeodomain, metazoa

less

All nucleic 110

Genomic 12

cDNA 36

Primer pair 16

Other 46

Antibodies 5

Microarray probesets 3

less

MGD-MRK-10837, MGD-MRK-10883

Summaries

All 346

Developmental Gene Expression 240

Gene Ontology 12

Phenotypes 72
Earliest

J:32355 Hauser CA, et al., Expression of homologous homeo-box-containing genes in differentiated human teratocarcinoma cells and mouse embryos. Cell. 1985 Nov;43(1):19-28
Latest

J:381104 Wiszniak S, et al., Neural crest cell-derived DKK1 and NEDD4 modulate Wnt signalling in the second heart field to orchestrate outflow tract development. Nat Commun. 2026 Jan 22;17(1):1751

Hoxb1 expression regulated by:

Feature	Feature Type	Location	Reference
Rr36, regulatory region 36	response element	Chr11:96201561-96201577	J:336097
Rr578, regulatory region 578	response element	Chr11:96215137-96215156	J:336097
Rr140, regulatory region 140	enhancer	Chr11:96254776-96256567	J:197162
Rr451, regulatory region 451	silencer	Chr11:96254776-96255513	J:24362
Rr453, regulatory region 453	response element	Chr11:96254932-96254952	J:24362
Rr452, regulatory region 452	enhancer	Chr11:96256237-96256567	J:24362

TSS for Hoxb1:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr104532	Chr11:96256540-96256562 (+)	-27 bp
Tssr104533	Chr11:96256566-96256577 (+)	-6 bp
Tssr104534	Chr11:96256580-96256587 (+)	6 bp
Tssr104535	Chr11:96256688-96256725 (+)	129 bp

Contributing Projects: Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
Citing These Resources Funding Information Warranty Disclaimer, Privacy Notice, Licensing, & Copyright Send questions and comments to User Support.	last database update 09/01/2026 MGI 6.24