Msx1 (msh homeobox 1) - Rat Genome Database

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Pathways
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Gene: Msx1 (msh homeobox 1) Heterocephalus glaber
Analyze
Symbol: Msx1
Name: msh homeobox 1
RGD ID: 18935719
Description: ENCODES a protein that exhibits cis-regulatory region sequence-specific DNA binding (ortholog); DNA-binding transcription activator activity, RNA polymerase II-specific (ortholog); DNA-binding transcription factor activity, RNA polymerase II-specific (ortholog); INVOLVED IN activation of meiosis (ortholog); anterior/posterior pattern specification (ortholog); BMP signaling pathway (ortholog); ASSOCIATED WITH anodontia (ortholog); cleft lip (ortholog); cleft palate (ortholog); FOUND IN nuclear periphery (ortholog); nucleoplasm (ortholog); nucleus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: homeobox protein MSX-1
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: HetGla 1.0 - Naked Mole-Rat female 1.0 Assembly
Position:
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475521,857,461 - 21,861,337 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475521,857,360 - 21,861,235 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
activation of meiosis  (ISO)
anterior/posterior pattern specification  (ISO)
BMP signaling pathway  (ISO)
bone morphogenesis  (ISO)
cartilage development  (ISO)
cartilage morphogenesis  (ISO)
cell morphogenesis  (ISO)
cell surface receptor signaling pathway involved in heart development  (ISO)
cellular response to nicotine  (ISO)
embryonic digit morphogenesis  (ISO)
embryonic forelimb morphogenesis  (ISO)
embryonic hindlimb morphogenesis  (ISO)
embryonic limb morphogenesis  (ISO)
embryonic nail plate morphogenesis  (ISO)
epithelial to mesenchymal transition  (ISO)
epithelial to mesenchymal transition involved in endocardial cushion formation  (ISO)
face morphogenesis  (ISO)
forebrain development  (ISO)
heart development  (ISO)
heart morphogenesis  (ISO)
in utero embryonic development  (ISO)
inner ear development  (ISO)
mammary gland epithelium development  (ISO)
mesenchymal cell apoptotic process  (ISO)
mesenchymal cell proliferation  (ISO)
midbrain development  (ISO)
middle ear morphogenesis  (ISO)
muscle organ development  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of cell growth  (ISO)
negative regulation of cell population proliferation  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of gene expression  (ISO)
negative regulation of odontoblast differentiation  (ISO)
negative regulation of striated muscle cell differentiation  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
nose development  (ISO)
odontogenesis  (ISO)
odontogenesis of dentin-containing tooth  (ISO)
pituitary gland development  (ISO)
positive regulation of BMP signaling pathway  (ISO)
positive regulation of cell cycle  (ISO)
positive regulation of intrinsic apoptotic signaling pathway by p53 class mediator  (ISO)
positive regulation of mesenchymal cell apoptotic process  (ISO)
positive regulation of odontogenesis  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
protein localization to nucleus  (ISO)
protein stabilization  (ISO)
regulation of odontogenesis  (ISO)
roof of mouth development  (ISO)
signal transduction involved in regulation of gene expression  (ISO)
stem cell differentiation  (ISO)
transcription by RNA polymerase II  (ISO)

Cellular Component

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Msx1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462475521,857,461 - 21,861,337 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462475521,857,360 - 21,861,235 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2
MSX1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3844,859,665 - 4,863,936 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl44,859,665 - 4,863,936 (+)EnsemblGRCh38hg38GRCh38
GRCh3744,861,392 - 4,865,663 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 3644,912,293 - 4,916,564 (+)NCBINCBI36Build 36hg18NCBI36
Build 3444,979,477 - 4,983,530NCBI
Celera44,758,413 - 4,762,671 (+)NCBICelera
Cytogenetic Map4p16.2NCBI
HuRef44,797,648 - 4,801,917 (+)NCBIHuRef
CHM1_144,859,330 - 4,863,591 (+)NCBICHM1_1
T2T-CHM13v2.044,829,290 - 4,833,545 (+)NCBIT2T-CHM13v2.0
Msx1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39537,977,835 - 37,981,929 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl537,977,829 - 37,981,927 (-)EnsemblGRCm39 Ensembl
GRCm38537,820,491 - 37,824,585 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl537,820,485 - 37,824,583 (-)EnsemblGRCm38mm10GRCm38
MGSCv37538,211,730 - 38,215,824 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36538,108,742 - 38,112,705 (-)NCBIMGSCv36mm8
Celera535,276,257 - 35,280,351 (-)NCBICelera
Cytogenetic Map5B3NCBI
cM Map520.21NCBI
Msx1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81477,185,802 - 77,189,735 (+)NCBIGRCr8
mRatBN7.21472,961,036 - 72,964,970 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1472,961,148 - 72,964,966 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1477,415,192 - 77,419,125 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01478,656,060 - 78,659,993 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01475,096,617 - 75,100,553 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01477,712,262 - 77,716,061 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1477,712,240 - 77,716,059 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01477,690,990 - 77,694,789 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41478,257,345 - 78,261,144 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11478,259,735 - 78,263,533 (+)NCBI
Celera1471,923,586 - 71,927,385 (+)NCBICelera
Cytogenetic Map14q21NCBI
Msx1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555144,923,552 - 4,927,471 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555144,923,552 - 4,927,471 (-)NCBIChiLan1.0ChiLan1.0
MSX1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v235,122,740 - 5,127,000 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan145,055,790 - 5,060,071 (+)NCBINHGRI_mPanPan1
PanPan1.144,935,603 - 4,939,117 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl44,935,600 - 4,939,079 (+)Ensemblpanpan1.1panPan2
MSX1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1370,232,790 - 70,236,295 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl370,232,052 - 70,236,447 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha372,783,942 - 72,787,987 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0370,991,546 - 70,995,590 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl370,991,361 - 70,995,465 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1370,263,330 - 70,267,578 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0370,426,128 - 70,430,168 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0370,808,811 - 70,812,856 (+)NCBIUU_Cfam_GSD_1.0
Msx1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440528563,704,859 - 63,711,968 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647717,409,191 - 17,412,919 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647717,406,551 - 17,413,615 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MSX1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl85,628,380 - 5,632,607 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.185,628,381 - 5,632,375 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.285,246,698 - 5,250,692 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MSX1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12741,028,763 - 41,032,676 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2741,028,919 - 41,033,006 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604787,832,093 - 87,836,013 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_004847303 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AHKG01036023 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSHGLT00000005793   ⟹   ENSHGLP00000005721
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla_female_1.0 EnsemblNW_00462475521,857,461 - 21,861,337 (+)Ensembl
RefSeq Acc Id: XM_004847303   ⟹   XP_004847360
Type: CODING
Position:
Naked Mole-Rat AssemblyChrPosition (strand)Source
HetGla 1.0NW_00462475521,857,360 - 21,861,235 (+)NCBI
Protein Sequences
Protein RefSeqs XP_004847360 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSHGLP00000005721
Reference Protein Sequences
RefSeq Acc Id: XP_004847360   ⟸   XM_004847303
RefSeq Acc Id: ENSHGLP00000005721   ⟸   ENSHGLT00000005793


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSHGLG00000004181 Ensembl, ENTREZGENE
Ensembl Transcript ENSHGLT00000005793 ENTREZGENE
NCBI Gene Msx1 ENTREZGENE