Msx2 (msh homeobox 2) - Rat Genome Database

Send us a Message

Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Msx2 (msh homeobox 2) Mus musculus
Symbol: Msx2
Name: msh homeobox 2
RGD ID: 10921
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 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
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
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)

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)
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)
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 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)
corneal opacity  (IAGP)
curly vibrissae  (IAGP)
decreased bone mineral density  (IAGP)
decreased brain size  (IAGP)
decreased chondrocyte number  (IAGP)
decreased compact bone thickness  (IAGP)
decreased corneal 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 thickness  (IAGP)
increased corneal stroma 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 - 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
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
PMID:1358459   PMID:1358591   PMID:1673109   PMID:1677742   PMID:1682128   PMID:7482767   PMID:7537232   PMID:7538067   PMID:7554927   PMID:7554933   PMID:7577436   PMID:7588050  
PMID:7597092   PMID:7720556   PMID:7848824   PMID:7893602   PMID:7964557   PMID:8098007   PMID:8099267   PMID:8101167   PMID:8104708   PMID:8106171   PMID:8565076   PMID:8660900  
PMID:8769660   PMID:8787747   PMID:8861098   PMID:8861099   PMID:8887328   PMID:9000753   PMID:9097019   PMID:9111364   PMID:9142497   PMID:9207129   PMID:9226452   PMID:9256341  
PMID:9256350   PMID:9265625   PMID:9268572   PMID:9300656   PMID:9477322   PMID:9486790   PMID:9501086   PMID:9541203   PMID:9556061   PMID:9584130   PMID:9651475   PMID:9671575  
PMID:9672840   PMID:9714793   PMID:9768360   PMID:9778496   PMID:9799429   PMID:9808626   PMID:9851982   PMID:9853970   PMID:9870533   PMID:9882503   PMID:9917362   PMID:10021345  
PMID:10075839   PMID:10098408   PMID:10227293   PMID:10349636   PMID:10391928   PMID:10451362   PMID:10467942   PMID:10469309   PMID:10499585   PMID:10534616   PMID:10602018   PMID:10625557  
PMID:10631810   PMID:10674381   PMID:10742104   PMID:10753507   PMID:10773441   PMID:10807864   PMID:11042159   PMID:11044393   PMID:11071781   PMID:11076861   PMID:11084035   PMID:11101846  
PMID:11203701   PMID:11217851   PMID:11274051   PMID:11395003   PMID:11419342   PMID:11437454   PMID:11470817   PMID:11476582   PMID:11512673   PMID:11598925   PMID:11668602   PMID:11714671  
PMID:11744114   PMID:11798166   PMID:11807035   PMID:11807043   PMID:11823447   PMID:11854453   PMID:11861914   PMID:11867524   PMID:11937494   PMID:11944941   PMID:11955708   PMID:11959851  
PMID:12000792   PMID:12152071   PMID:12193642   PMID:12217322   PMID:12351180   PMID:12358782   PMID:12403705   PMID:12413903   PMID:12441290   PMID:12466204   PMID:12466851   PMID:12477932  
PMID:12489206   PMID:12571099   PMID:12588849   PMID:12648495   PMID:12701100   PMID:12736212   PMID:12737212   PMID:12752768   PMID:12754255   PMID:12766037   PMID:12782276   PMID:12783783  
PMID:12805214   PMID:12808456   PMID:12812790   PMID:12874124   PMID:12925529   PMID:12925582   PMID:12944425   PMID:12971989   PMID:14512019   PMID:14526104   PMID:14551209   PMID:14597577  
PMID:14610273   PMID:14623826   PMID:14648841   PMID:14681479   PMID:14699574   PMID:14728799   PMID:15060165   PMID:15081361   PMID:15105374   PMID:15131132   PMID:15136147   PMID:15155529  
PMID:15175325   PMID:15198690   PMID:15201225   PMID:15218525   PMID:15272023   PMID:15342482   PMID:15383550   PMID:15385160   PMID:15385444   PMID:15456894   PMID:15459107   PMID:15469980  
PMID:15496517   PMID:15499554   PMID:15509764   PMID:15581864   PMID:15618518   PMID:15673394   PMID:15691760   PMID:15743757   PMID:15803476   PMID:15812993   PMID:15872058   PMID:15930102  
PMID:15936012   PMID:15944189   PMID:16087869   PMID:16093251   PMID:16115867   PMID:16141072   PMID:16141073   PMID:16207751   PMID:16221730   PMID:16308330   PMID:16314491   PMID:16314518  
PMID:16357211   PMID:16423343   PMID:16495310   PMID:16513791   PMID:16524929   PMID:16537572   PMID:16540516   PMID:16602821   PMID:16630606   PMID:16712836   PMID:16790481   PMID:16806156  
PMID:16839541   PMID:16839542   PMID:16881063   PMID:16887830   PMID:16894609   PMID:16900517   PMID:16959237   PMID:17030628   PMID:17035289   PMID:17060321   PMID:17090159   PMID:17119023  
PMID:17194222   PMID:17199044   PMID:17210130   PMID:17274974   PMID:17301089   PMID:17303760   PMID:17309607   PMID:17319963   PMID:17460765   PMID:17537800   PMID:17546050   PMID:17601530  
PMID:17654563   PMID:17693062   PMID:17693602   PMID:17699607   PMID:17727833   PMID:17764670   PMID:17878071   PMID:17931618   PMID:17932314   PMID:17964566   PMID:18022614   PMID:18202659  
PMID:18243171   PMID:18265010   PMID:18285513   PMID:18287559   PMID:18327258   PMID:18334251   PMID:18422524   PMID:18442049   PMID:18487199   PMID:18539113   PMID:18539270   PMID:18572160  
PMID:18579678   PMID:18586087   PMID:18590716   PMID:18627106   PMID:18667074   PMID:18676816   PMID:18682398   PMID:18692037   PMID:18694570   PMID:18703512   PMID:18729207   PMID:18769023  
PMID:18832392   PMID:18832580   PMID:18849531   PMID:18927156   PMID:18948234   PMID:19103190   PMID:19141668   PMID:19170109   PMID:19210962   PMID:19223390   PMID:19229034   PMID:19251632  
PMID:19251658   PMID:19273610   PMID:19286674   PMID:19338779   PMID:19370755   PMID:19389368   PMID:19391114   PMID:19414008   PMID:19419310   PMID:19422820   PMID:19470461   PMID:19576202  
PMID:19648291   PMID:19700620   PMID:19705442   PMID:19766620   PMID:19769717   PMID:19777594   PMID:19783740   PMID:19850029   PMID:19860126   PMID:19913006   PMID:19922873   PMID:20034106  
PMID:20035737   PMID:20043884   PMID:20059953   PMID:20206242   PMID:20211142   PMID:20225205   PMID:20356956   PMID:20386744   PMID:20392740   PMID:20394734   PMID:20398647   PMID:20436479  
PMID:20440096   PMID:20445055   PMID:20459789   PMID:20460112   PMID:20460368   PMID:20484411   PMID:20510229   PMID:20635397   PMID:20803545   PMID:20843790   PMID:20878775   PMID:20883686  
PMID:20932939   PMID:20934968   PMID:20939017   PMID:20962035   PMID:21089072   PMID:21194678   PMID:21237142   PMID:21256124   PMID:21267068   PMID:21303850   PMID:21307092   PMID:21308776  
PMID:21309073   PMID:21384471   PMID:21387539   PMID:21465616   PMID:21465622   PMID:21471203   PMID:21512281   PMID:21514273   PMID:21531785   PMID:21539829   PMID:21549111   PMID:21558373  
PMID:21693521   PMID:21752813   PMID:21852201   PMID:21873635   PMID:21912524   PMID:21945076   PMID:21953618   PMID:21968101   PMID:21983003   PMID:22071108   PMID:22100262   PMID:22116936  
PMID:22174793   PMID:22219353   PMID:22240098   PMID:22275192   PMID:22275227   PMID:22340494   PMID:22383889   PMID:22387309   PMID:22395741   PMID:22432025   PMID:22461561   PMID:22465667  
PMID:22503753   PMID:22508726   PMID:22547067   PMID:22573616   PMID:22614360   PMID:22632802   PMID:22633971   PMID:22658483   PMID:22662233   PMID:22718343   PMID:22911573   PMID:22966238  
PMID:22988430   PMID:23028704   PMID:23034633   PMID:23071453   PMID:23090744   PMID:23103586   PMID:23123965   PMID:23145080   PMID:23201021   PMID:23213427   PMID:23293290   PMID:23344708  
PMID:23358455   PMID:23382810   PMID:23425387   PMID:23459943   PMID:23469192   PMID:23506836   PMID:23560082   PMID:23584732   PMID:23593111   PMID:23630450   PMID:23633963   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  


Comparative Map Data
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
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
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
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
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
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
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
ChiLan1.0 EnsemblNW_00495540827,323,360 - 27,329,755 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540827,323,405 - 27,329,484 (+)NCBIChiLan1.0ChiLan1.0
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
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
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
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
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
HiC_Itri_2NW_02440721392,492,782 - 92,498,921 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366091,216,436 - 1,221,561 (-)EnsemblSpeTri2.0
SpeTri2.0NW_0049366091,216,436 - 1,221,528 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
Sscrofa11.1 Ensembl1649,765,910 - 49,771,789 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11649,765,587 - 49,771,745 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
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
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
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 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
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 (
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
26884393Humsd7_mhumerus midshaft diameter 7, 16 week (mouse)13395000076048119Mouse
1301015Sysbp2_msystolic blood pressure 2 (mouse)Not determined132047761259821605Mouse
4142147Mvwf4_mmodifier of von Willebrand factor 4 (mouse)Not determined20477612112898424Mouse
1357591Tesq1_mtestis weight QTL 1 (mouse)Not determined132061551255720517Mouse
4142009Pregq3_mpregnancy QTL 3 (mouse)Not determined132061551272385189Mouse
10045618Heal17_mwound healing/regeneration 17 (mouse)Not determined132074693954747056Mouse
4142489Ath25_matherosclerosis 25 (mouse)Not determined2583652959836529Mouse
10401111Pgia40_mproteoglycan induced arthritis 40 (mouse)Not determined132791846961918560Mouse
1300710Pcd4ts2_mp-glycoprotein positive CD4 T cell subset 2 (mouse)Not determined132821044262210544Mouse
1357802Vtbt15_mvertebral trabecular bone trait 15 (mouse)Not determined132821737962217515Mouse
10045621Heal21_mwound healing/regeneration 21 (mouse)Not determined132821737962217515Mouse
10755533Chol18_mcholesterol 18 (mouse)133096946764969467Mouse
10755517Chol15_mcholesterol 15 (mouse)133096946764969467Mouse
12738439Twq4_mtestis weight QTL 4 (mouse)133112911065129110Mouse
14696729Kidlq2_mkidney weight, left QTL 2 (mouse)133134473665344736Mouse
1301299Sluc23_msusceptibility to lung cancer 23 (mouse)Not determined133492194368922081Mouse
10412235Scgq5_mspontaneous crescentic glomerulonephritis QTL 5 (mouse)Not determined133606090896239162Mouse
1357587Pfat3_mpredicted fat percentage 3 (mouse)Not determined133610153070101640Mouse
1301734Acsns2_mAngiostrongylus costaricensis nematode susceptibility 2 (mouse)Not determined133610153070101640Mouse
1300561Heal7_mwound healing/regeneration 7 (mouse)Not determined133614482070144904Mouse
1300862Cfbw5_mcystic fibrosis body weight 5 (mouse)Not determined133872035872720517Mouse
1300985Bmd13_mbone mineral density 13 (mouse)Not determined133962924973629397Mouse
1302157Bwem2_mbody weight day 30 males 2 (mouse)Not determined133962924973629397Mouse
1301801Cpfd5_mcerebellum pattern fissures (mouse)Not determined133962924973629397Mouse
15039353Nmrs35_mNAFLD-associated magnetic resonance shift 35 (mouse)134058825374588253Mouse
1300668Pas10_mpulmonary adenoma susceptibility 10 (mouse)Not determined134148904275489158Mouse
4142331Bxs6_mBXSB/MpJ autoimmune nephritis 6 (mouse)Not determined4521044283744746Mouse
10412109Bxs7_mBXSB/MpJ autoimmune nephritis 7 (mouse)Not determined134521044283744746Mouse
26884396Humsd4_mhumerus midshaft diameter 4, 10 week (mouse)134785347673148119Mouse
4142372Moo2_mmodifier of Odc2 (mouse)Not determinedX5031841184318559Mouse
1301666Eae13_msusceptibility to experimental allergic encephalomyelitis 13 (mouse)Not determined135031841184318559Mouse
1300573Elsgp2_melevated serum gp70 2 (mouse)Not determined135061682884617027Mouse
14746975Manh74_mmandible shape 74 (mouse)135247726986477269Mouse
25671382Hrsq4_mhost response to SARS QTL 4, vascular cuffing (mouse)135288165154992738Mouse

Markers in Region
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
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
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13B1UniSTS
cM Map1332.0UniSTS
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13B1UniSTS
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13B1UniSTS
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13B1UniSTS
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map13B1UniSTS
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381353,468,458 - 53,468,560UniSTSGRCm38
Celera1354,546,720 - 54,546,822UniSTS
Cytogenetic Map13B1UniSTS
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
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



RefSeq Acc Id: ENSMUST00000021922   ⟹   ENSMUSP00000021922
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1353,620,920 - 53,627,110 (-)Ensembl
GRCm38.p6 Ensembl1353,466,884 - 53,473,074 (-)Ensembl
RefSeq Acc Id: ENSMUST00000188606
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
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
RefSeq Acc Id: NP_038629   ⟸   NM_013601
- UniProtKB: Q63856 (UniProtKB/Swiss-Prot),   Q03358 (UniProtKB/Swiss-Prot),   Q3UZH5 (UniProtKB/TrEMBL),   G3DRA8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000021922   ⟸   ENSMUST00000021922
Protein Domains

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

RGD ID:8680418
Promoter ID:EPDNEW_M18216
Type:initiation region
Description:Mus musculus msh homeobox 2 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database,
Experiment Methods:Single-end sequencing.
Mouse AssemblyChrPosition (strand)Source
GRCm381353,472,770 - 53,472,830EPDNEW
RGD ID:6824170
Promoter ID:MM_KWN:14165
SO ACC ID:SO:0000170
Tissues & Cell Lines:ES_Cell,   MEF_B4,   MEF_B6
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, 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
KEGG Report mmu:17702 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Homeodomain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Msx2 PhenoGen
  HOMEOBOX_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART HOX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
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