Hoxb4 (homeobox B4) - Rat Genome Database

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Gene: Hoxb4 (homeobox B4) Mus musculus
Analyze
Symbol: Hoxb4
Name: homeobox B4
RGD ID: 1557963
MGI Page MGI
Description: Exhibits DNA binding activity. Involved in several processes, including embryonic skeletal system morphogenesis; hematopoietic or lymphoid organ development; and somatic stem cell division. Predicted to localize to centrosome and nucleoplasm. Is expressed in several structures, including embryo mesenchyme; genitourinary system; gut; nervous system; and skin. Orthologous to human HOXB4 (homeobox B4); INTERACTS WITH 1,4-benzoquinone; 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: homeo box B4; homeobox protein Hox-2.6; homeobox protein Hox-B4; Hox-2.; Hox-2.6
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391196,209,093 - 96,212,464 (+)NCBIGRCm39mm39
GRCm39 Ensembl1196,209,093 - 96,212,464 (+)Ensembl
GRCm381196,318,267 - 96,321,638 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1196,318,267 - 96,321,638 (+)EnsemblGRCm38mm10GRCm38
MGSCv371196,179,581 - 96,182,952 (+)NCBIGRCm37mm9NCBIm37
MGSCv361196,134,357 - 96,136,690 (+)NCBImm8
Celera11105,969,132 - 105,972,500 (+)NCBICelera
Cytogenetic Map11DNCBI
cM Map1159.83NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:1358459   PMID:1363087   PMID:1582411   PMID:1682218   PMID:1682814   PMID:1683707   PMID:1685115   PMID:1685117   PMID:1972280   PMID:2463210   PMID:2566383   PMID:2571936  
PMID:2576400   PMID:2890503   PMID:2906328   PMID:7628700   PMID:7680626   PMID:7750651   PMID:7768176   PMID:7903957   PMID:7911971   PMID:7969151   PMID:8097432   PMID:8100767  
PMID:8105001   PMID:8555112   PMID:8625838   PMID:8649375   PMID:8660891   PMID:8703472   PMID:9012503   PMID:9106661   PMID:9334279   PMID:9367423   PMID:9415485   PMID:9501100  
PMID:9639506   PMID:9790191   PMID:9806826   PMID:10208743   PMID:10349636   PMID:10373014   PMID:10395784   PMID:10529422   PMID:10559481   PMID:10579975   PMID:10885747   PMID:11042159  
PMID:11044623   PMID:11076861   PMID:11085749   PMID:11091084   PMID:11217851   PMID:11335109   PMID:11518511   PMID:11869294   PMID:11955444   PMID:12135926   PMID:12183370   PMID:12370779  
PMID:12466851   PMID:12477932   PMID:12514132   PMID:12701106   PMID:12705858   PMID:12714971   PMID:12717450   PMID:12736215   PMID:12748289   PMID:12753872   PMID:12791656   PMID:12855555  
PMID:12954718   PMID:14660544   PMID:14681479   PMID:14962901   PMID:15042701   PMID:15206819   PMID:15361871   PMID:15489334   PMID:15580301   PMID:15618518   PMID:15634700   PMID:15741318  
PMID:15944185   PMID:16024804   PMID:16093308   PMID:16141072   PMID:16141073   PMID:16339407   PMID:16364898   PMID:16399080   PMID:16508307   PMID:16624538   PMID:16888613   PMID:16971476  
PMID:17107999   PMID:17303828   PMID:17537796   PMID:17761289   PMID:17940039   PMID:18287559   PMID:18547144   PMID:18553509   PMID:18679416   PMID:18794329   PMID:18808325   PMID:18952892  
PMID:19022763   PMID:19091803   PMID:19168678   PMID:19204410   PMID:19270262   PMID:19328777   PMID:19365557   PMID:19379700   PMID:19420357   PMID:19704006   PMID:19737517   PMID:19828634  
PMID:19922872   PMID:20059953   PMID:20184433   PMID:20184720   PMID:20211142   PMID:20417598   PMID:20711984   PMID:21059868   PMID:21098278   PMID:21267068   PMID:21278354   PMID:21343615  
PMID:21873635   PMID:22084016   PMID:22426104   PMID:22675207   PMID:22701719   PMID:23207902   PMID:23307742   PMID:23843306   PMID:24030384   PMID:24324706   PMID:24446131   PMID:24496623  
PMID:24503485   PMID:24525295   PMID:24574009   PMID:24952961   PMID:25082879   PMID:25381007   PMID:25922517   PMID:26238476   PMID:26930384   PMID:27827825   PMID:28009288   PMID:28041967  
PMID:28188179   PMID:29031500   PMID:29408805   PMID:29444422   PMID:29456178   PMID:30254164   PMID:30470704   PMID:32325033   PMID:32479258   PMID:32795499   PMID:33277484  


Genomics

Comparative Map Data
Hoxb4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391196,209,093 - 96,212,464 (+)NCBIGRCm39mm39
GRCm39 Ensembl1196,209,093 - 96,212,464 (+)Ensembl
GRCm381196,318,267 - 96,321,638 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1196,318,267 - 96,321,638 (+)EnsemblGRCm38mm10GRCm38
MGSCv371196,179,581 - 96,182,952 (+)NCBIGRCm37mm9NCBIm37
MGSCv361196,134,357 - 96,136,690 (+)NCBImm8
Celera11105,969,132 - 105,972,500 (+)NCBICelera
Cytogenetic Map11DNCBI
cM Map1159.83NCBI
HOXB4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1748,575,507 - 48,578,350 (-)EnsemblGRCh38hg38GRCh38
GRCh381748,575,507 - 48,578,350 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371746,652,869 - 46,655,712 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361744,007,868 - 44,010,742 (-)NCBINCBI36hg18NCBI36
Build 341744,007,874 - 44,010,742NCBI
Celera1743,107,022 - 43,109,896 (-)NCBI
Cytogenetic Map17q21.32NCBI
HuRef1742,021,675 - 42,024,550 (-)NCBIHuRef
CHM1_11746,718,833 - 46,721,707 (-)NCBICHM1_1
Hoxb4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21081,284,552 - 81,287,134 (+)NCBI
Rnor_6.0 Ensembl1084,167,331 - 84,169,907 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01084,167,331 - 84,169,913 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01083,970,063 - 83,972,645 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41085,050,695 - 85,053,277 (+)NCBIRGSC3.4rn4RGSC3.4
Celera1080,050,714 - 80,053,296 (+)NCBICelera
Cytogenetic Map10q26NCBI
Hoxb4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545112,662,795 - 12,664,374 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495545112,661,290 - 12,665,576 (+)NCBIChiLan1.0ChiLan1.0
HOXB4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1179,143,173 - 9,146,161 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl179,143,173 - 9,146,161 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0178,958,253 - 8,961,261 (+)NCBIMhudiblu_PPA_v0panPan3
HOXB4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1924,837,572 - 24,848,600 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl924,837,914 - 24,840,648 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha924,302,844 - 24,304,749 (-)NCBI
ROS_Cfam_1.0925,633,366 - 25,635,275 (-)NCBI
UMICH_Zoey_3.1924,401,529 - 24,403,435 (-)NCBI
UNSW_CanFamBas_1.0924,662,133 - 24,664,032 (-)NCBI
UU_Cfam_GSD_1.0924,790,347 - 24,792,253 (-)NCBI
Hoxb4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560224,263,448 - 24,266,538 (-)NCBI
SpeTri2.0NW_00493649012,808,679 - 12,811,688 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HOXB4
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11668,988,621 - 68,991,574 (-)NCBI
ChlSab1.1 Ensembl1668,989,862 - 68,991,455 (-)Ensembl
Hoxb4
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247955,074,147 - 5,077,714 (-)NCBI

Position Markers
PMC155209P2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381196,317,253 - 96,317,662UniSTSGRCm38
MGSCv371196,178,567 - 96,178,976UniSTSGRCm37
Celera11105,968,118 - 105,968,527UniSTS
Cytogenetic Map11DUniSTS
cM Map1156.05UniSTS
PMC155209P3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381196,320,642 - 96,321,040UniSTSGRCm38
MGSCv371196,181,956 - 96,182,354UniSTSGRCm37
Celera11105,971,507 - 105,971,905UniSTS
Cytogenetic Map11DUniSTS
cM Map1156.05UniSTS
G38056  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381196,316,652 - 96,316,850UniSTSGRCm38
MGSCv371196,177,966 - 96,178,164UniSTSGRCm37
Celera11105,967,517 - 105,967,715UniSTS
Cytogenetic Map11DUniSTS
cM Map1156.05UniSTS
Hoxb4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map11DUniSTS
cM Map1159.83UniSTS
Hoxb4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map11DUniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357859Lvrq7_mliver weight QTL 7 (mouse)Not determined1112318637118131898Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112318637118131898Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1917420497007000Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44739211113167183Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156973201114267131Mouse
27226730Tibmd1_mtibia midshaft diameter 1, 5 week (mouse)1162700000109500000Mouse
11039501Ltpr6a_mLeishmania tropica response 6a (mouse)116493951098939647Mouse
11039502Ltpr6b_mLeishmania tropica response 6b (mouse)116493951098939647Mouse
11039515Ltpr6_mLeishmania tropica response 6 (mouse)116493951098939647Mouse
1301546Pcir2_mperiosteal circumference 2 (mouse)Not determined1166842594100842826Mouse
1357766Si5lq6_mserum IGFBP-5 level QTL 6 (mouse)Not determined1166842594100842826Mouse
4141012Femwf6_mfemur work to failure 6 (mouse)Not determined66842594100842826Mouse
1301833Tbbmd5_mtotal body bone mineral density 5 (mouse)Not determined1166842594100842826Mouse
1300784Prdt3_mprion disease incubation time 3 (mouse)Not determined1166842594100842826Mouse
1300628Lgth6_mbody length 6 (mouse)Not determined1166842594100842826Mouse
27226783Tibl5_mtibia length 5, 5 week (mouse)1168300000102000000Mouse
1300651Pcyts3_mplasmacytoma susceptibility 3 (mouse)Not determined1170800372104800540Mouse
1301681Sle13_msystematic lupus erythematosus susceptibility 13 (mouse)Not determined1170800372104800540Mouse
1558812Rafar_mretinoic acid induced forelimb autopod reduction (mouse)Not determined1170800372104800540Mouse
4141339Nilac2_mnicotine induced locomotor activity 2 (mouse)Not determined1170800372104800540Mouse
1301404Sbmd4_mspinal bone mineral density 4 (mouse)Not determined1172128823106128908Mouse
1301310Tmevd5_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 5 (mouse)Not determined1172835299106835463Mouse
4142348Pstc2_mperiosteal circumference 2 (mouse)Not determined1172927789106927907Mouse
10043866Adip19_madiposity 19 (mouse)Not determined1172927789106927907Mouse
11038695Par8_mpulmonary adenoma resistance 8 (mouse)1177172953111173092Mouse
1301414Heal10_mwound healing/regeneration 10 (mouse)Not determined1177546357111546496Mouse
10045616Heal25_mwound healing/regeneration 25 (mouse)Not determined1177546357111546496Mouse
1302124Eae7_msusceptibility to experimental allergic encephalomyelitis 7 (mouse)Not determined117768304799486994Mouse
10413882Moe1_mmodifier of epilepsy 1 (mouse)1177880152111880273Mouse
1301640Lore4_mloss of righting induced by ethanol 4 (mouse)Not determined1179265183107725646Mouse
14746970Manh71_mmandible shape 71 (mouse)1179525431113525431Mouse
10043865T2dm5sa_mtype 2 diabetes mellitus 5 in SMXA RI mice (mouse)Not determined1179922933104611872Mouse
27226758Femd3_mfemur midshaft diameter 3, 5 week (mouse)1181000000102000000Mouse
1300649Crhq1_mcompensatory renal hypertrophy QTL 1 (mouse)Not determined1181683655115683810Mouse
1300766Skull16_mskull morphology 16 (mouse)Not determined1181683655115683810Mouse
10412288Carg4_mCandida albicans resistance gene 4 (mouse)Not determined1181919441115919441Mouse
1301072Eae22_mexperimental allergic encephalomyelitis 22 (mouse)Not determined1182486872116486994Mouse
14747003Mancz9_mmandible centroid size 9 (mouse)1185954085119954085Mouse
15039374Adip29_madiposity 29 (mouse)1186717494120717494Mouse
15039376Bw42_mbody weight QTL 42 (mouse)1186717494120717494Mouse
15014785Mvlq1_mmacrovesicular liver lesion QTL 1 (mouse)1186717494120717494Mouse
27226789Feml16_mfemur length 16, 10 week (mouse)1187600000126900000Mouse
10044007Hbnr14_mHeligmosomoides bakeri nematode resistance 14 (mouse)Not determined1187611774121611872Mouse
1357631Motr1_mmodifier of tubby retinal degeneration 1 (mouse)Not determined1187800372103383289Mouse
1301491Abbp4_mA/J and C57BL/6 blood pressure 4 (mouse)Not determined118880876299190771Mouse
1301313Pas5a_mpulmonary adenoma susceptibility 5a (mouse)Not determined118907597898974942Mouse
11251723Ewc5_methanol withdrawal and consumption 5 (mouse)1189978425122082543Mouse
1302034Pkccl_mprotein kinase C content in lungs (mouse)Not determined1191713782122082543Mouse
1558753Ath19_matherosclerosis 19 (mouse)Not determined1191713782122082543Mouse
10045617Heal26_mwound healing/regeneration 26 (mouse)Not determined1193048547112653728Mouse
1301095El6_mepilepsy 6 (mouse)Not determined1193338357122082543Mouse
4141939Pregq2_mpregnancy QTL 2 (mouse)Not determined1194172953118131898Mouse
27226731Tibmd4_mtibia midshaft diameter 4, 10 week (mouse)1194300000119000000Mouse
4141465Dbm2_mdiabetes modifier 2 (mouse)Not determined94546357118131898Mouse
1300944Alcp20_malcohol preference locus 20 (mouse)Not determined1195513139122082543Mouse
1301958Alcp18_malcohol preference locus 18 (mouse)Not determined1195513139122082543Mouse
14700796Syncq9_msynovial calcification QTL 9 (mouse)119604700097102000Mouse
1300962Cd8mts4_mCD8 memory T cell subset 4 (mouse)Not determined1196246848122082543Mouse
1301535Pas5b_mpulmonary adenoma susceptibility 5b (mouse)Not determined1196285639108915558Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:412
Count of miRNA genes:327
Interacting mature miRNAs:347
Transcripts:ENSMUST00000049241
Prediction methods:Miranda, Rnahybrid
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000049241   ⟹   ENSMUSP00000048002
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl1196,318,267 - 96,321,638 (+)Ensembl
RefSeq Acc Id: NM_010459   ⟹   NP_034589
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391196,209,093 - 96,212,464 (+)NCBI
GRCm381196,318,267 - 96,321,638 (+)ENTREZGENE
MGSCv371196,179,581 - 96,182,952 (+)RGD
Celera11105,969,132 - 105,972,500 (+)RGD
cM Map11 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_034589   ⟸   NM_010459
- UniProtKB: P10284 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000048002   ⟸   ENSMUST00000049241

Promoters
RGD ID:6821076
Promoter ID:MM_KWN:9399
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day4,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Kidney,   Lung
Transcripts:OTTMUST00000003562
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361196,179,356 - 96,180,327 (+)MPROMDB
RGD ID:8676338
Promoter ID:EPDNEW_M16200
Type:initiation region
Name:Hoxb4_1
Description:Mus musculus homeobox B4 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M16201  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381196,318,317 - 96,318,377EPDNEW
RGD ID:8676340
Promoter ID:EPDNEW_M16201
Type:initiation region
Name:Hoxb4_2
Description:Mus musculus homeobox B4 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_M16200  
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381196,318,739 - 96,318,799EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:96185 AgrOrtholog
Ensembl Genes ENSMUSG00000038692 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000048002 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000049241 ENTREZGENE, UniProtKB/Swiss-Prot
InterPro Homeobox-like_sf UniProtKB/Swiss-Prot
  Homeobox_antennapedia UniProtKB/Swiss-Prot
  Homeobox_Antennapedia_CS UniProtKB/Swiss-Prot
  Homeobox_CS UniProtKB/Swiss-Prot
  Homeobox_dom UniProtKB/Swiss-Prot
  Homeobox_metazoa UniProtKB/Swiss-Prot
KEGG Report mmu:15412 UniProtKB/Swiss-Prot
MGD MGI:96185 ENTREZGENE
NCBI Gene 15412 ENTREZGENE
Pfam Homeodomain UniProtKB/Swiss-Prot
PhenoGen Hoxb4 PhenoGen
PRINTS ANTENNAPEDIA UniProtKB/Swiss-Prot
  HOMEOBOX UniProtKB/Swiss-Prot
PROSITE ANTENNAPEDIA UniProtKB/Swiss-Prot
  HOMEOBOX_1 UniProtKB/Swiss-Prot
  HOMEOBOX_2 UniProtKB/Swiss-Prot
SMART HOX UniProtKB/Swiss-Prot
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot
UniProt HXB4_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q3UZB4 UniProtKB/Swiss-Prot
  Q4VBG0 UniProtKB/Swiss-Prot