Hoxb6 MGI Mouse Gene Detail - MGI:96187

Symbol

Hoxb6
Name

homeobox B6
Synonyms

Hox-2.2

Feature Type

protein coding gene
IDs

MGI:96187
NCBI Gene: 15414
Member of

Hoxb cluster
Alliance

gene page
Transcription Start Sites

12 TSS
Regulated by

Rr36 (1 regulatory region)

Sequence Map

Chr11:96183647-96192395 bp, + strand
From NCBI annotation of GRCm39
View this region in JBrowse
Genome Browsers

Ensembl | UCSC | NCBI

Genetic Map

Chromosome 11, 59.82 cM
Mapping Data

7 experiments

SNPs within 2kb

161 from dbSNP Build 142
Strain Annotations

18
RFLP

4

For selected strains:

Strain	Gene Model ID	Feature Type	Coordinates
C57BL/6J	MGI_C57BL6J_96187	protein coding gene	Chr11:96183302-96192395 (+)
129S1/SvImJ	MGP_129S1SvImJ_G0019004	protein coding gene	Chr11:98604290-98613276 (+)
A/J	MGP_AJ_G0018972	protein coding gene	Chr11:94577132-94586180 (+)
AKR/J	MGP_AKRJ_G0018942	protein coding gene	Chr11:97503035-97512269 (+)
BALB/cJ	MGP_BALBcJ_G0018945	protein coding gene	Chr11:95076808-95085853 (+)
C3H/HeJ	MGP_C3HHeJ_G0018759	protein coding gene	Chr11:97634875-97643566 (+)
C57BL/6NJ	MGP_C57BL6NJ_G0019397	protein coding gene	Chr11:101686831-101695834 (+)
CAROLI/EiJ	MGP_CAROLIEiJ_G0017027	protein coding gene	Chr11:92063701-92072725 (+)
CAST/EiJ	MGP_CASTEiJ_G0018312	protein coding gene	Chr11:98456504-98465592 (+)
CBA/J	MGP_CBAJ_G0018730	protein coding gene	Chr11:105848315-105857646 (+)
DBA/2J	MGP_DBA2J_G0018838	protein coding gene	Chr11:94144240-94153602 (+)
FVB/NJ	MGP_FVBNJ_G0018827	protein coding gene	Chr11:93623238-93632341 (+)
LP/J	MGP_LPJ_G0018908	protein coding gene	Chr11:99141758-99150773 (+)
NOD/ShiLtJ	MGP_NODShiLtJ_G0018854	protein coding gene	Chr11:105844390-105853310 (+)
NZO/HlLtJ	MGP_NZOHlLtJ_G0019437	protein coding gene	Chr11:97810668-97819790 (+)
PWK/PhJ	MGP_PWKPhJ_G0018084	protein coding gene	Chr11:95095687-95104924 (+)
SPRET/EiJ	MGP_SPRETEiJ_G0017873	protein coding gene	Chr11:97536465-97546252 (+)
WSB/EiJ	MGP_WSBEiJ_G0018362	protein coding gene	Chr11:97696109-97706071 (+)

Human Ortholog

HOXB6, homeobox B6

Vertebrate Orthologs

4

Vertebrate Orthology Source

Alliance of Genome Resources

Human Ortholog

HOXB6, homeobox B6
Synonyms

HOX2, Hox-2.2, HOX2B, HU-2
Links

HGNC:5117

NCBI Gene ID: 3216

UniProt: P17509
Chr Location

17q21.32; chr17:48595751-48604992 (-) GRCh38

MGI Vertebrate Homology

Hoxb6 stringent orthology
1 human;1 mouse;1 rat;2 zebrafish
HCOP

vertebrate homology predictions: HOXB6
Gene Tree

Hoxb6

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Phenotype Summary

13 phenotypes from 2 alleles in 2 genetic backgrounds
11 phenotypes from multigenic genotypes
21 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

8
Endonuclease-mediated

1
Targeted

7
Genomic Mutations

3 involving Hoxb6
Incidental Mutations

APF
Find Mice (IMSR)

14 strains or lines available
Comparison Matrix

Gene Expression + Phenotype
Recombinase Activity

Comparison Matrix Gene Expression + Recombinase Activity

Homozygotes for a targeted null mutation exhibit an anteriorizing homeotic transformation of the cervicothoracic vertebrae C6-T1, and frequently a missing first rib and a bifid second rib.

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All GO Annotations

41
GO References

13

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.

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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

1301
Tissues

295
cDNA Data

20
Literature Summary

85

Images

Tissue x Stage Matrix

Comparison Matrix

Gene Expression + Phenotype

Other Mouse Links

Allen Institute

GEO

Expression Atlas
Other Vertebrate Links

Xenbase hoxb6

ZFIN hoxb6a, hoxb6b

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All Sequences

35
RefSeq

4
UniProt

1
CCDS

CCDS25295.1

Ensembl

ENSMUSG00000000690 (Evidence)
NCBI Gene

15414

			Length	Strain/Species	Flank
genomic	15414	NCBI Gene Model \| MGI Sequence Detail	8749	C57BL/6J	± kb
transcript	NM_008269	RefSeq \| MGI Sequence Detail	1435	ZRU/MplStud
polypeptide	P09023	UniProt \| EBI \| MGI Sequence Detail	224	Not Applicable

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UniProt

1 Sequence
Protein Ontology

PR:000008703 homeobox protein Hox-B6

(term hierarchy)
InterPro Domains

IPR050296 Antennapedia-type homeobox

IPR017970 Homeobox, conserved site

IPR001356 Homeobox domain

IPR020479 Homeobox domain, metazoa

IPR009057 Homeobox-like domain superfamily

IPR017995 Homeobox protein, antennapedia type

IPR001827 Homeobox protein, antennapedia type, conserved site

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All nucleic 66

Genomic 12

cDNA 20

Primer pair 11

Other 23

Microarray probesets 2

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MGD-MRK-10830, MGD-MRK-10888

Summaries

All 140

Developmental Gene Expression 85

Gene Ontology 13

Phenotypes 21
Earliest

J:8129 Hart CP, et al., Homeo box gene complex on mouse chromosome 11: molecular cloning, expression in embryogenesis, and homology to a human homeo box locus. Cell. 1985 Nov;43(1):9-18
Latest

J:362225 Avino-Esteban L, et al., Spatio-temporal reconstruction of gene expression patterns in developing mice. Development. 2025 Feb 15;152(4)

Hoxb6 expression regulated by:

Feature	Feature Type	Location	Reference
Rr36, regulatory region 36	response element	Chr11:96201561-96201577	J:208763

TSS for Hoxb6:

(View these features in JBrowse)

Transcription Start Site	Location	Distance from Gene 5'-end
Tssr104478	Chr11:96182979-96182985 (+)	-665 bp
Tssr104479	Chr11:96183279-96183334 (+)	-340 bp
Tssr104480	Chr11:96189580-96189596 (+)	5,941 bp
Tssr104481	Chr11:96189610-96189624 (+)	5,970 bp
Tssr104482	Chr11:96189631-96189647 (+)	5,992 bp
Tssr104483	Chr11:96189872-96189909 (+)	6,244 bp
Tssr104484	Chr11:96189915-96189928 (+)	6,275 bp
Tssr104485	Chr11:96189938-96189955 (+)	6,300 bp
Tssr104486	Chr11:96189963-96189974 (+)	6,322 bp
Tssr104487	Chr11:96190033-96190048 (+)	6,394 bp
Tssr104488	Chr11:96190049-96190078 (+)	6,417 bp
Tssr3658	Chr11:96190079-96190091 (+)	6,438 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 03/25/2025 MGI 6.24