Msx2 (msh homeobox 2) - Rat Genome Database

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Gene: Msx2 (msh homeobox 2) Rattus norvegicus
Symbol: Msx2
Name: msh homeobox 2
RGD ID: 3116
Description: Enables DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in several processes, including cartilage development; osteoblast development; and transcription by RNA polymerase II. Predicted to be located in cytosol and nuclear speck. Predicted to be part of transcription regulator complex. Biomarker of hypertension. Human ortholog(s) of this gene implicated in craniosynostosis and parietal foramina. Orthologous to human MSX2 (msh homeobox 2); INTERACTS WITH 1-[(4-chlorophenyl)-phenylmethyl]-4-methylpiperazine; 2,6-dinitrotoluene; 3,7-dihydropurine-6-thione.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: homeobox protein Hox-8-1; homeobox protein MSX-2; hox-8.1; Msh (Drosophila) homeo box homolog; msh homeo box homolog 2; msh homeo box homolog 2 (Drosophila)
RGD Orthologs
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
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
JBrowse: View Region in Genome Browser (JBrowse)

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

Gene Ontology Annotations     Click to see Annotation Detail View

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

Cellular Component


References - curated
# Reference Title Reference Citation
1. Individual osteoblasts in the developing calvaria express different gene repertoires. Candeliere GA, etal., Bone. 2001 Apr;28(4):351-61.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
4. Msx-2 and p21 mediate the pro-apoptotic but not the anti-proliferative effects of BMP4 on cultured sympathetic neuroblasts. Gomes WA and Kessler JA, Dev Biol. 2001 Sep 1;237(1):212-21.
5. [Molecular cloning, expression of rat Msx-1 and Msx-2 during early embryo genesis and roles for mandibular chondrogenesis] Ishiguro S Kokubyo Gakkai Zasshi. 1999 Mar;66(1):33-45.
6. Msx2 and p21(CIP1/WAF1) mediate the proapoptotic effects of bone morphogenetic protein-4 on ventricular zone progenitor cells. Israsena N and Kessler JA, J Neurosci Res 2002 Sep 15;69(6):803-9.
7. Regulation of MT melatonin receptor expression in the foetal rat pituitary. Johnston JD, etal., J Neuroendocrinol. 2006 Jan;18(1):50-6.
8. 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.
9. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
10. 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.
11. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
12. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
13. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
14. GOA pipeline RGD automated data pipeline
15. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
16. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
17. Comprehensive gene review and curation RGD comprehensive gene curation
18. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
19. Msx-2/Hox 8.1: a transcriptional regulator of the rat osteocalcin promoter. Towler DA, etal., Mol Endocrinol. 1994 Nov;8(11):1484-93.
20. 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:7848824   PMID:8787747   PMID:8861098   PMID:8889548   PMID:9073066   PMID:9265625   PMID:10742104   PMID:11668602   PMID:11744114   PMID:14671321   PMID:15175325   PMID:15383550  
PMID:15456894   PMID:15930102   PMID:16115867   PMID:17030628   PMID:17601530   PMID:17693062   PMID:18285513   PMID:18590716   PMID:18667074   PMID:18729207   PMID:19422820   PMID:19769717  
PMID:20843790   PMID:21465616   PMID:21503878   PMID:21512281   PMID:22071108   PMID:33691558  


Comparative Map Data
(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
(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
(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
(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
5 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:143
Count of miRNA genes:99
Interacting mature miRNAs:123
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122871563Rat
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131701463Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17131990913Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17137830672Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17211514921881669Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17211514934551001Rat
631499Stl1Serum triglyceride level QTL 13.6blood triglyceride amount (VT:0002644)blood triglyceride level (CMO:0000118)17327139827389946Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)17429913021293263Rat
2324619Coatc4Coat color QTL 40.001coat/hair pigmentation trait (VT:0010463)pigmented dorsal coat/hair area to total dorsal coat/hair area ratio (CMO:0001811)17429913021293263Rat
1354613Kidm14Kidney mass QTL 146.2kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)17429913035837242Rat
1354596Bw32Body weight QTL 324.5body mass (VT:0001259)body weight (CMO:0000012)17429913060781592Rat
1354630Cm34Cardiac mass QTL 348.7heart left ventricle mass (VT:0007031)heart left ventricle wet weight (CMO:0000071)17429913069599340Rat
1354638Insul1Insulin level QTL 14.8blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)17429913069599340Rat
1354651Lmblg2Limb length QTL 26tibia length (VT:0004357)tibia length (CMO:0000450)17429913069599340Rat
2293648Bmd31Bone mineral density QTL 314.50.0001femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)17435448727028127Rat
2293664Bmd28Bone mineral density QTL 285.10.0001femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)17435448727028127Rat
2303627Vencon8Ventilatory control QTL 80.001respiration trait (VT:0001943)tidal volume (CMO:0000222)17452803849528038Rat
10054088Scort28Serum corticosterone level QTL 282.040.0102blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17452803849528038Rat
1581553Pur14Proteinuria QTL 145.30.0001urine total protein amount (VT:0000032)urine protein excretion rate (CMO:0000759)17797996816317111Rat
2303561Bw91Body weight QTL 912body mass (VT:0001259)body weight (CMO:0000012)17886846253868462Rat
1582199Insul5Insulin level QTL 53.40.0119blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)17920136523653323Rat
1582208Kidm32Kidney mass QTL 323.90.0018kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17920136523653323Rat
1582224Epfw4Epididymal fat weight QTL 43.50.0058epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)17920136523653323Rat
1582225Bw67Body weight QTL 676.20.0001body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582226Bw64Body weight QTL 644.20.0017body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582241Bw70Body weight QTL 704.60.0003body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582245Bw73Body weight QTL 734.60.0004body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
1582258Bw76Body weight QTL 764.60.0005body mass (VT:0001259)body weight (CMO:0000012)17920136523653323Rat
2300002Iddm36Insulin dependent diabetes mellitus QTL 361.98blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)17999128640540197Rat

Markers in Region
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21711,101,730 - 11,101,950 (+)MAPPERmRatBN7.2
Rnor_6.01711,688,379 - 11,688,598NCBIRnor6.0
Rnor_5.01713,789,541 - 13,789,760UniSTSRnor5.0
RGSC_v3.41717,247,779 - 17,247,998UniSTSRGSC3.4
Celera1711,162,876 - 11,163,095UniSTS
RH 3.4 Map17110.7UniSTS
Cytogenetic Map17p14UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21711,101,436 - 11,101,623 (+)MAPPERmRatBN7.2
Rnor_6.01711,688,085 - 11,688,271NCBIRnor6.0
Rnor_5.01713,789,247 - 13,789,433UniSTSRnor5.0
RGSC_v3.41717,247,485 - 17,247,671UniSTSRGSC3.4
Celera1711,162,582 - 11,162,768UniSTS
RH 3.4 Map17109.2UniSTS
Cytogenetic Map17p14UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21711,102,483 - 11,102,686 (+)MAPPERmRatBN7.2
Rnor_6.01711,689,132 - 11,689,334NCBIRnor6.0
Rnor_5.01713,790,294 - 13,790,496UniSTSRnor5.0
RGSC_v3.41717,248,532 - 17,248,734UniSTSRGSC3.4
Celera1711,163,629 - 11,163,831UniSTS
RH 3.4 Map17107.8UniSTS
Cytogenetic Map17p14UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21711,102,640 - 11,102,799 (+)MAPPERmRatBN7.2
Rnor_6.01711,689,289 - 11,689,447NCBIRnor6.0
Rnor_5.01713,790,451 - 13,790,609UniSTSRnor5.0
RGSC_v3.41717,248,689 - 17,248,847UniSTSRGSC3.4
Celera1711,163,786 - 11,163,944UniSTS
RH 3.4 Map17110.2UniSTS
Cytogenetic Map17p14UniSTS


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
Medium 8 14 7
Low 35 6 6 6 1 1 56 24 23 1
Below cutoff 11 2 9 2 7 9 4 11 9 11 7


RefSeq Acc Id: ENSRNOT00000024766   ⟹   ENSRNOP00000024765
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1711,097,103 - 11,102,879 (+)Ensembl
Rnor_6.0 Ensembl1711,683,862 - 11,689,527 (+)Ensembl
RefSeq Acc Id: NM_012982   ⟹   NP_037114
RefSeq Status: VALIDATED
Rat AssemblyChrPosition (strand)Source
mRatBN7.21711,097,214 - 11,102,879 (+)NCBI
Rnor_6.01711,683,862 - 11,689,527 (+)NCBI
Rnor_5.01713,785,024 - 13,790,689 (+)NCBI
RGSC_v3.41717,243,262 - 17,248,927 (+)RGD
Celera1711,158,359 - 11,164,024 (+)RGD
Protein Sequences
Protein RefSeqs NP_037114 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA20669 (Get FASTA)   NCBI Sequence Viewer  
  EDL94072 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000024765
GenBank Protein P52953 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_037114   ⟸   NM_012982
- UniProtKB: G3V8D1 (UniProtKB/TrEMBL),   A6KB14 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000024765   ⟸   ENSRNOT00000024766
Protein Domains

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P52953-F1-model_v2 AlphaFold P52953 1-139 view protein structure


eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

RGD ID:13700329
Promoter ID:EPDNEW_R10853
Type:initiation region
Description:msh homeobox 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database,
Experiment Methods:Single-end sequencing.
Rat AssemblyChrPosition (strand)Source
Rnor_6.01711,683,799 - 11,683,859EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3116 AgrOrtholog
BioCyc Gene G2FUF-10135 BioCyc
Ensembl Genes ENSRNOG00000018355 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024766 ENTREZGENE
  ENSRNOT00000024766.4 UniProtKB/TrEMBL
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
  HTH_motif UniProtKB/Swiss-Prot
KEGG Report rno:25483 UniProtKB/TrEMBL
Pfam Homeodomain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Msx2 PhenoGen
  HTHREPRESSR UniProtKB/Swiss-Prot
  HOMEOBOX_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000018355 RatGTEx
SMART HOX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC232949

Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-15 Msx2  msh homeobox 2  Msx2  msh homeo box homolog 2 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-11-06 Msx2  msh homeo box homolog 2 (Drosophila)    Msh (Drosophila) homeo box homolog  Name updated 625702 APPROVED
2002-06-10 Msx2  Msh (Drosophila) homeo box homolog      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_process mediates the proapoptotic effects of BMP4 on VZ progenitor cells 727419