Msx2 (msh homeobox 2) - Rat Genome Database

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Gene: Msx2 (msh homeobox 2) Mus musculus
Analyze
Symbol: Msx2
Name: msh homeobox 2
RGD ID: 10921
MGI Page MGI
Description: Enables DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in negative regulation of transcription by RNA polymerase II and osteoblast differentiation. Acts upstream of or within several processes, including embryonic limb morphogenesis; heart development; and skeletal system development. Part of transcription regulator complex. Is expressed in several structures, including alimentary system; embryo ectoderm; embryo mesenchyme; genitourinary system; and sensory organ. Used to study craniosynostosis and parietal foramina. Human ortholog(s) of this gene implicated in craniosynostosis and parietal foramina. Orthologous to human MSX2 (msh homeobox 2).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: BB122635; homeo box, msh-like 2; homeobox protein Hox-8-1; homeobox protein MSX-2; homeobox, msh-like 2; Hox; Hox-; Hox-8; Hox8; Hox8.; Hox8.1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391353,620,917 - 53,626,816 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1353,620,920 - 53,627,110 (-)EnsemblGRCm39 Ensembl
GRCm381353,466,881 - 53,472,780 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1353,466,884 - 53,473,074 (-)EnsemblGRCm38mm10GRCm38
MGSCv371353,562,250 - 53,568,149 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361353,475,420 - 53,480,608 (-)NCBIMGSCv36mm8
Celera1354,545,172 - 54,551,024 (-)NCBICelera
Cytogenetic Map13B1NCBI
cM Map1327.84NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1-[(4-chlorophenyl)-phenylmethyl]-4-methylpiperazine  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP)
2,6-dinitrotoluene  (ISO)
2-ethylhexan-1-ol  (EXP)
3,7-dihydropurine-6-thione  (ISO)
4,4'-sulfonyldiphenol  (EXP)
5-fluorouracil  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (EXP,ISO)
alpha-Zearalanol  (ISO)
ammonium chloride  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
belinostat  (ISO)
benzalkonium chloride  (EXP)
benzo[a]pyrene  (EXP,ISO)
benzo[e]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (EXP)
cadmium dichloride  (ISO)
cadmium sulfate  (EXP)
calcitriol  (ISO)
carbamazepine  (ISO)
carbon nanotube  (EXP)
CGP 52608  (ISO)
chlorpyrifos  (EXP)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
coumestrol  (ISO)
Cuprizon  (ISO)
deoxynivalenol  (ISO)
dexamethasone  (EXP)
diarsenic trioxide  (ISO)
diethylstilbestrol  (EXP)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
entinostat  (ISO)
folic acid  (EXP)
furan  (ISO)
genistein  (EXP)
glycerol 2-phosphate  (EXP)
hexaconazole  (EXP)
L-ascorbic acid  (EXP)
lead diacetate  (EXP)
lipopolysaccharide  (EXP)
manganese(II) chloride  (ISO)
mercaptopurine  (ISO)
mercury dibromide  (ISO)
methapyrilene  (ISO)
methylmercury chloride  (ISO)
Muraglitazar  (ISO)
N-methyl-4-phenylpyridinium  (ISO)
N-nitrosodiethylamine  (ISO)
p-chloromercuribenzoic acid  (ISO)
panobinostat  (ISO)
perfluorooctanoic acid  (ISO)
phenethyl caffeate  (ISO)
phenylmercury acetate  (ISO)
progesterone  (EXP)
purine-6-thiol  (ISO)
retinyl acetate  (EXP)
SB 431542  (ISO)
silicon dioxide  (ISO)
sunitinib  (ISO)
tebuconazole  (ISO)
Tesaglitazar  (ISO)
triadimefon  (ISO)
trichostatin A  (ISO)
tripotassium phosphate  (ISO)
troglitazone  (ISO)
valproic acid  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of meiosis  (IPI)
anterior/posterior pattern specification  (IGI)
BMP signaling pathway  (IDA,IGI)
bone morphogenesis  (IGI)
bone trabecula formation  (IMP)
branching involved in mammary gland duct morphogenesis  (IMP)
cartilage development  (IMP,ISO)
cell surface receptor signaling pathway involved in heart development  (IGI)
cellular response to estradiol stimulus  (IDA)
cellular response to growth factor stimulus  (IDA)
chondrocyte development  (IMP)
embryonic digit morphogenesis  (IGI)
embryonic forelimb morphogenesis  (IGI)
embryonic hindlimb morphogenesis  (IGI)
embryonic limb morphogenesis  (IGI)
embryonic morphogenesis  (IBA)
embryonic nail plate morphogenesis  (IGI)
enamel mineralization  (IMP)
endochondral bone growth  (IMP)
epithelial to mesenchymal transition involved in endocardial cushion formation  (IGI)
frontal suture morphogenesis  (IMP)
mammary gland epithelium development  (IGI)
mesenchymal cell apoptotic process  (IGI)
negative regulation of apoptotic process  (IGI)
negative regulation of cell population proliferation  (IGI)
negative regulation of CREB transcription factor activity  (IDA)
negative regulation of DNA-templated transcription  (IDA)
negative regulation of fat cell differentiation  (IDA)
negative regulation of keratinocyte differentiation  (IMP)
negative regulation of transcription by RNA polymerase II  (IDA,IGI,ISO)
odontogenesis  (IMP)
ossification  (IMP)
osteoblast development  (IMP,ISO)
osteoblast differentiation  (IDA)
outflow tract morphogenesis  (IGI)
outflow tract septum morphogenesis  (IGI)
positive regulation of apoptotic process  (ISO)
positive regulation of BMP signaling pathway  (IGI)
positive regulation of mesenchymal cell apoptotic process  (IGI)
positive regulation of osteoblast differentiation  (IDA)
positive regulation of response to biotic stimulus  (ISO)
positive regulation of timing of catagen  (IMP)
regulation of apoptotic process  (IDA)
regulation of DNA-templated transcription  (IEA)
regulation of transcription by RNA polymerase II  (IBA)
signal transduction involved in regulation of gene expression  (IGI)
stem cell differentiation  (IGI)
transcription by RNA polymerase II  (ISO)
wound healing  (IMP)
wound healing, spreading of epidermal cells  (IMP)

Cellular Component

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
abnormal apical ectodermal ridge morphology  (IAGP)
abnormal appendicular skeleton morphology  (IAGP)
abnormal artery morphology  (IAGP)
abnormal atrioventricular cushion morphology  (IAGP)
abnormal axial skeleton morphology  (IAGP)
abnormal bone ossification  (IAGP)
abnormal cardiac epithelial to mesenchymal transition  (IAGP)
abnormal carotid artery morphology  (IAGP)
abnormal carpal bone morphology  (IAGP)
abnormal cerebellum anterior vermis morphology  (IAGP)
abnormal cerebellum development  (IAGP)
abnormal cornea morphology  (IAGP)
abnormal craniofacial development  (IAGP)
abnormal craniofacial morphology  (IAGP)
abnormal enamel organ morphology  (IAGP)
abnormal external auditory canal morphology  (IAGP)
abnormal eye development  (IAGP)
abnormal eye morphology  (IAGP)
abnormal frontal bone morphology  (IAGP)
abnormal hair shedding  (IEA)
abnormal heart valve morphology  (IAGP)
abnormal lens morphology  (IAGP)
abnormal lens vesicle development  (IAGP)
abnormal limb development  (IAGP)
abnormal long bone hypertrophic chondrocyte zone  (IAGP)
abnormal malleus morphology  (IAGP)
abnormal mammary gland development  (IAGP)
abnormal mammary gland embryonic development  (IAGP)
abnormal Meckel's cartilage morphology  (IAGP)
abnormal middle ear ossicle morphology  (IAGP)
abnormal nail bed morphology  (IAGP)
abnormal nail matrix morphology  (IAGP)
abnormal nail morphology  (IAGP)
abnormal nail plate morphology  (IAGP)
abnormal neural tube morphology  (IAGP)
abnormal neurocranium morphology  (IAGP)
abnormal optic vesicle formation  (IAGP)
abnormal pelvic girdle bone morphology  (IAGP)
abnormal retina pigment epithelium morphology  (IAGP)
abnormal skeleton development  (IAGP)
abnormal stellate reticulum morphology  (IAGP)
abnormal stratum intermedium morphology  (IAGP)
abnormal tarsal bone morphology  (IAGP)
abnormal trabecular bone morphology  (IAGP)
abnormal vertebral artery morphology  (IAGP)
absent cerebellum vermis lobule IX  (IAGP)
absent cerebellum vermis lobule VIII  (IAGP)
absent gastric milk in neonates  (IAGP)
absent malleus manubrium  (IAGP)
absent malleus processus brevis  (IAGP)
absent pubis  (IAGP)
absent teeth  (IAGP)
absent tympanic ring  (IAGP)
alopecia  (IAGP)
ameloblast degeneration  (IAGP)
anterior iris synechia  (IAGP)
arrest of tooth development  (IAGP)
atrial septal defect  (IAGP)
atrioventricular cushion hypoplasia  (IAGP)
big ears  (IAGP)
brittle teeth  (IAGP)
cerebellum vermis hypoplasia  (IAGP)
chondrodystrophy  (IAGP)
cleft palate  (IAGP)
cleft secondary palate  (IAGP)
cornea opacity  (IAGP)
curly vibrissae  (IAGP)
decreased bone mineral density  (IAGP)
decreased brain size  (IAGP)
decreased chondrocyte number  (IAGP)
decreased compact bone thickness  (IAGP)
decreased cornea epithelium thickness  (IAGP)
decreased embryo size  (IAGP)
decreased hair follicle number  (IAGP)
decreased osteoclast cell number  (IAGP)
decreased spinal cord size  (IAGP)
deformed nails  (IAGP)
degenerate molars  (IAGP)
delaminated cerebellar granule layer  (IAGP)
delaminated Purkinje cell layer  (IAGP)
delayed hair regrowth  (IEA)
embryonic growth retardation  (IAGP)
embryonic lethality during organogenesis, incomplete penetrance  (IAGP)
exencephaly  (IAGP)
frontal bone foramen  (IAGP)
fused cornea and lens  (IAGP)
increased cornea stroma thickness  (IAGP)
increased cornea thickness  (IAGP)
interdigital webbing  (IAGP)
intracranial aneurysm  (IAGP)
intracranial hemorrhage  (IAGP)
iris hyperplasia  (IAGP)
lethality throughout fetal growth and development, complete penetrance  (IAGP)
long nails  (IAGP)
long toenails  (IAGP)
malocclusion  (IAGP)
microphthalmia  (IAGP)
narrow eye opening  (IAGP)
neonatal lethality  (IAGP)
no abnormal phenotype detected  (IAGP)
oligodactyly  (IAGP)
perinatal lethality  (IAGP)
polydactyly  (IAGP)
premature hair loss  (IAGP)
retina fold  (IAGP)
short femur  (IAGP)
short limbs  (IAGP)
short nails  (IAGP)
short snout  (IAGP)
short tibia  (IAGP)
short vibrissae  (IAGP)
small interparietal bone  (IAGP)
small lens  (IAGP)
small limb buds  (IAGP)
small malleus  (IAGP)
small scapula  (IAGP)
small supraoccipital bone  (IAGP)
spina bifida  (IAGP)
thoracoabdominoschisis  (IAGP)
tonic seizures  (IAGP)
vascular smooth muscle hypoplasia  (IAGP)
vitreous body deposition  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. Changes in homeobox-containing gene expression during ectopic bone formation induced by bone morphogenetic protein. Iimura T, etal., Biochem Biophys Res Commun 1994 Jun 15;201(2):980-7.
2. Regulation of MT melatonin receptor expression in the foetal rat pituitary. Johnston JD, etal., J Neuroendocrinol. 2006 Jan;18(1):50-6.
3. Calcification of aortic smooth muscle cells isolated from spontaneously hypertensive rats. Kanemaru K, etal., J Pharmacol Sci. 2008 Feb;106(2):280-6. Epub 2008 Feb 9.
4. The molecular basis of Boston-type craniosynostosis: the Pro148-->His mutation in the N-terminal arm of the MSX2 homeodomain stabilizes DNA binding without altering nucleotide sequence preferences. Ma L, etal., Hum Mol Genet. 1996 Dec;5(12):1915-20.
5. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
6. MGDs mouse GO annotations MGD data from the GO Consortium
7. MGD IEA MGD IEA
8. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
9. Mouse MP Annotation Import Pipeline RGD automated import pipeline
10. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
11. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
12. Functional haploinsufficiency of the human homeobox gene MSX2 causes defects in skull ossification. Wilkie AO, etal., Nat Genet. 2000 Apr;24(4):387-90.
Additional References at PubMed
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PMID:23685555   PMID:23702391   PMID:23744351   PMID:23818325   PMID:24007338   PMID:24115909   PMID:24146773   PMID:24238961   PMID:24257627   PMID:24278237   PMID:24336726   PMID:24385915  
PMID:24387797   PMID:24586192   PMID:24631216   PMID:24680892   PMID:24715462   PMID:24831012   PMID:24947469   PMID:24990742   PMID:24990743   PMID:25034710   PMID:25056439   PMID:25166858  
PMID:25448692   PMID:25460335   PMID:25617432   PMID:25626636   PMID:25687138   PMID:25794678   PMID:25820239   PMID:25931120   PMID:25950518   PMID:26042621   PMID:26093309   PMID:26212322  
PMID:26391659   PMID:26441343   PMID:26450968   PMID:26512061   PMID:26538636   PMID:26661618   PMID:26667042   PMID:26677825   PMID:26806701   PMID:26813283   PMID:26826495   PMID:26912775  
PMID:26959361   PMID:27048518   PMID:27234308   PMID:27435625   PMID:27524798   PMID:27586544   PMID:27606604   PMID:27713395   PMID:27827819   PMID:28069742   PMID:28333962   PMID:28461333  
PMID:28710291   PMID:28794157   PMID:28829997   PMID:28846100   PMID:28893947   PMID:28964716   PMID:29255029   PMID:29321139   PMID:29352015   PMID:29463648   PMID:29577917   PMID:29746183  
PMID:29771958   PMID:29773104   PMID:29852132   PMID:29921154   PMID:30097516   PMID:30177510   PMID:30201295   PMID:30575813   PMID:30615824   PMID:30638444   PMID:30683901   PMID:30854720  
PMID:30905259   PMID:30953627   PMID:31024170   PMID:31125045   PMID:31221479   PMID:31351040   PMID:31427537   PMID:31869353   PMID:32105214   PMID:32325033   PMID:32467233   PMID:32616504  
PMID:32866472   PMID:33046507   PMID:33080014   PMID:33192593   PMID:33206716   PMID:33382037   PMID:33483579   PMID:34041852   PMID:34150743   PMID:34155146   PMID:34292881   PMID:34321664  
PMID:34584102   PMID:34822715   PMID:34845330   PMID:34851738   PMID:35514355   PMID:35593225   PMID:35781558   PMID:35830813   PMID:36220812   PMID:36227576   PMID:36941249   PMID:37102702  
PMID:37191055   PMID:37385754   PMID:37524711   PMID:37702066   PMID:38404688   PMID:38742226  


Genomics

Comparative Map Data
Msx2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391353,620,917 - 53,626,816 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1353,620,920 - 53,627,110 (-)EnsemblGRCm39 Ensembl
GRCm381353,466,881 - 53,472,780 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1353,466,884 - 53,473,074 (-)EnsemblGRCm38mm10GRCm38
MGSCv371353,562,250 - 53,568,149 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361353,475,420 - 53,480,608 (-)NCBIMGSCv36mm8
Celera1354,545,172 - 54,551,024 (-)NCBICelera
Cytogenetic Map13B1NCBI
cM Map1327.84NCBI
MSX2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh385174,724,582 - 174,730,896 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl5174,724,582 - 174,730,896 (+)EnsemblGRCh38hg38GRCh38
GRCh375174,151,585 - 174,157,899 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 365174,084,181 - 174,090,508 (+)NCBINCBI36Build 36hg18NCBI36
Build 345174,084,207 - 174,090,507NCBI
Celera5170,185,579 - 170,191,910 (+)NCBICelera
Cytogenetic Map5q35.2NCBI
HuRef5169,246,978 - 169,253,303 (+)NCBIHuRef
CHM1_15173,583,988 - 173,590,298 (+)NCBICHM1_1
T2T-CHM13v2.05175,263,949 - 175,271,855 (+)NCBIT2T-CHM13v2.0
Msx2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81711,102,284 - 11,107,949 (+)NCBIGRCr8
mRatBN7.21711,097,214 - 11,102,879 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1711,097,103 - 11,102,879 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1711,105,528 - 11,111,192 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01712,641,862 - 12,647,525 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01711,104,006 - 11,109,669 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01711,683,862 - 11,689,527 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1711,683,862 - 11,689,527 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01713,785,024 - 13,790,689 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41717,243,262 - 17,248,927 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11717,247,335 - 17,247,755 (+)NCBI
Celera1711,158,359 - 11,164,024 (+)NCBICelera
RH 3.4 Map17109.2RGD
Cytogenetic Map17p14NCBI
Msx2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540827,323,360 - 27,329,755 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540827,323,405 - 27,329,484 (+)NCBIChiLan1.0ChiLan1.0
MSX2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v24169,845,949 - 169,853,128 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan15167,985,531 - 167,992,667 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v05170,063,137 - 170,070,226 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.15176,968,315 - 176,974,679 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl5176,967,902 - 176,976,609 (+)Ensemblpanpan1.1panPan2
MSX2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1438,002,724 - 38,007,407 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl438,002,428 - 38,007,407 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha437,948,799 - 37,953,445 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0438,376,184 - 38,380,830 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl438,375,888 - 38,381,225 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1438,192,821 - 38,197,476 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0438,380,991 - 38,385,645 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0438,891,167 - 38,895,822 (-)NCBIUU_Cfam_GSD_1.0
Msx2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721392,492,782 - 92,498,921 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366091,216,436 - 1,221,561 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366091,216,436 - 1,221,528 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MSX2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1649,765,910 - 49,771,789 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11649,765,587 - 49,771,745 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
MSX2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12376,873,499 - 76,879,935 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2376,873,669 - 76,879,553 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660341,717,428 - 1,723,746 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Msx2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473315,288,326 - 15,294,568 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473315,288,417 - 15,294,481 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Msx2
275 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:392
Count of miRNA genes:257
Interacting mature miRNAs:356
Transcripts:ENSMUST00000021922
Prediction methods:Miranda, Rnahybrid, Targetscan
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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300561Heal7_mwound healing/regeneration 7 (mouse)Not determined133614482070144904Mouse
1357591Tesq1_mtestis weight QTL 1 (mouse)Not determined132061551255720517Mouse
1301015Sysbp2_msystolic blood pressure 2 (mouse)Not determined132047761259821605Mouse
4142331Bxs6_mBXSB/MpJ autoimmune nephritis 6 (mouse)Not determined4521044283744746Mouse
12738439Twq4_mtestis weight QTL 4 (mouse)133112911065129110Mouse
4142009Pregq3_mpregnancy QTL 3 (mouse)Not determined132061551272385189Mouse
1357587Pfat3_mpredicted fat percentage 3 (mouse)Not determined133610153070101640Mouse
10401111Pgia40_mproteoglycan induced arthritis 40 (mouse)Not determined132791846961918560Mouse
1300573Elsgp2_melevated serum gp70 2 (mouse)Not determined135061682884617027Mouse
25671382Hrsq4_mhost response to SARS QTL 4, vascular cuffing (mouse)135288165154992738Mouse
10412109Bxs7_mBXSB/MpJ autoimmune nephritis 7 (mouse)Not determined134521044283744746Mouse
10412235Scgq5_mspontaneous crescentic glomerulonephritis QTL 5 (mouse)Not determined133606090896239162Mouse
10755517Chol15_mcholesterol 15 (mouse)133096946764969467Mouse
4142372Moo2_mmodifier of Odc2 (mouse)Not determinedX5031841184318559Mouse
15039353Nmrs35_mNAFLD-associated magnetic resonance shift 35 (mouse)134058825374588253Mouse
1302157Bwem2_mbody weight day 30 males 2 (mouse)Not determined133962924973629397Mouse
1301299Sluc23_msusceptibility to lung cancer 23 (mouse)Not determined133492194368922081Mouse
4142489Ath25_matherosclerosis 25 (mouse)Not determined2583652959836529Mouse
10755533Chol18_mcholesterol 18 (mouse)133096946764969467Mouse
1300985Bmd13_mbone mineral density 13 (mouse)Not determined133962924973629397Mouse
10045618Heal17_mwound healing/regeneration 17 (mouse)Not determined132074693954747056Mouse
10045621Heal21_mwound healing/regeneration 21 (mouse)Not determined132821737962217515Mouse
1300862Cfbw5_mcystic fibrosis body weight 5 (mouse)Not determined133872035872720517Mouse
1300668Pas10_mpulmonary adenoma susceptibility 10 (mouse)Not determined134148904275489158Mouse
1301666Eae13_msusceptibility to experimental allergic encephalomyelitis 13 (mouse)Not determined135031841184318559Mouse
26884393Humsd7_mhumerus midshaft diameter 7, 16 week (mouse)13395000076048119Mouse
1301734Acsns2_mAngiostrongylus costaricensis nematode susceptibility 2 (mouse)Not determined133610153070101640Mouse
1300710Pcd4ts2_mp-glycoprotein positive CD4 T cell subset 2 (mouse)Not determined132821044262210544Mouse
26884396Humsd4_mhumerus midshaft diameter 4, 10 week (mouse)134785347673148119Mouse
14696729Kidlq2_mkidney weight, left QTL 2 (mouse)133134473665344736Mouse
1301801Cpfd5_mcerebellum pattern fissures (mouse)Not determined133962924973629397Mouse
4142147Mvwf4_mmodifier of von Willebrand factor 4 (mouse)Not determined20477612112898424Mouse
1357802Vtbt15_mvertebral trabecular bone trait 15 (mouse)Not determined132821737962217515Mouse
14746975Manh74_mmandible shape 74 (mouse)135247726986477269Mouse

Markers in Region
BB122635  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381353,466,963 - 53,467,064UniSTSGRCm38
MGSCv371353,562,332 - 53,562,433UniSTSGRCm37
Celera1354,545,254 - 54,545,355UniSTS
Cytogenetic Map13B1UniSTS
cM Map1332.0UniSTS
Whitehead/MRC_RH13562.84UniSTS
L11739  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381353,468,050 - 53,468,155UniSTSGRCm38
MGSCv371353,563,419 - 53,563,524UniSTSGRCm37
Celera1354,546,312 - 54,546,417UniSTS
Cytogenetic Map13B1UniSTS
cM Map1332.0UniSTS
Whitehead/MRC_RH13562.84UniSTS
Msx2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13B1UniSTS
cM Map1332.0UniSTS
Msx2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13B1UniSTS
Msx2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13B1UniSTS
Msx2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13B1UniSTS
Msx2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13B1UniSTS
Msx2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381353,468,458 - 53,468,560UniSTSGRCm38
Celera1354,546,720 - 54,546,822UniSTS
Cytogenetic Map13B1UniSTS
Msx2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381353,467,951 - 53,468,209UniSTSGRCm38
MGSCv371353,563,320 - 53,563,578UniSTSGRCm37
Celera1354,546,213 - 54,546,471UniSTS
Cytogenetic Map13B1UniSTS
cM Map1332.0UniSTS
Msx2  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381353,473,658 - 53,473,864UniSTSGRCm38
MGSCv371353,569,027 - 53,569,233UniSTSGRCm37
Celera1354,551,902 - 54,552,111UniSTS
Cytogenetic Map13B1UniSTS
cM Map1332.0UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000021922   ⟹   ENSMUSP00000021922
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1353,620,920 - 53,627,110 (-)Ensembl
GRCm38.p6 Ensembl1353,466,884 - 53,473,074 (-)Ensembl
Ensembl Acc Id: ENSMUST00000188606
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1353,625,542 - 53,627,110 (-)Ensembl
GRCm38.p6 Ensembl1353,471,506 - 53,473,074 (-)Ensembl
RefSeq Acc Id: NM_013601   ⟹   NP_038629
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391353,620,917 - 53,626,816 (-)NCBI
GRCm381353,466,881 - 53,472,780 (-)ENTREZGENE
MGSCv371353,562,250 - 53,568,149 (-)RGD
Celera1354,545,172 - 54,551,024 (-)RGD
cM Map13 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_038629   ⟸   NM_013601
- UniProtKB: Q63856 (UniProtKB/Swiss-Prot),   Q03358 (UniProtKB/Swiss-Prot),   Q3UZH5 (UniProtKB/TrEMBL),   G3DRA8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSMUSP00000021922   ⟸   ENSMUST00000021922
Protein Domains
Homeobox

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q03358-F1-model_v2 AlphaFold Q03358 1-267 view protein structure

Promoters
RGD ID:8680418
Promoter ID:EPDNEW_M18216
Type:initiation region
Name:Msx2_1
Description:Mus musculus msh homeobox 2 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381353,472,770 - 53,472,830EPDNEW
RGD ID:6824170
Promoter ID:MM_KWN:14165
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:ES_Cell,   MEF_B4,   MEF_B6
Transcripts:OTTMUST00000049518
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv361353,567,869 - 53,568,369 (-)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:97169 AgrOrtholog
Ensembl Genes ENSMUSG00000021469 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000021922 ENTREZGENE
  ENSMUST00000021922.10 UniProtKB/Swiss-Prot
Gene3D-CATH Homeodomain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Homeobox-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeobox_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeobox_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Homeobox_metazoa UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Msh_Homeobox_Regulators UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:17702 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:97169 ENTREZGENE
NCBI Gene 17702 ENTREZGENE
PANTHER HOMEOBOX PROTEIN MSX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HOMEOBOX PROTEIN MSX-2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Homeodomain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Msx2 PhenoGen
PRINTS HOMEOBOX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE HOMEOBOX_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  HOMEOBOX_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HOX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt G3DRA8 ENTREZGENE, UniProtKB/TrEMBL
  MSX2_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
  Q3UZH5 ENTREZGENE, UniProtKB/TrEMBL
  Q63856 ENTREZGENE
UniProt Secondary Q63856 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-06 Msx2  msh homeobox 2  Msx2  homeobox, msh-like 2  Symbol and/or name change 5135510 APPROVED