Msh6 (mutS homolog 6) - Rat Genome Database

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Gene: Msh6 (mutS homolog 6) Chinchilla lanigera
Analyze
Symbol: Msh6
Name: mutS homolog 6
RGD ID: 8803732
Description: ENCODES a protein that exhibits ADP binding (ortholog); ATP binding (ortholog); ATP-dependent activity, acting on DNA (ortholog); INVOLVED IN determination of adult lifespan (ortholog); DNA repair (ortholog); intrinsic apoptotic signaling pathway (ortholog); PARTICIPATES IN altered mismatch repair pathway; colorectal cancer pathway; endometrial cancer pathway; ASSOCIATED WITH adrenocortical carcinoma (ortholog); ataxia telangiectasia (ortholog); autosomal recessive limb-girdle muscular dystrophy type 2B (ortholog); FOUND IN chromatin (ortholog); cytosol (ortholog); Golgi apparatus (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: DNA mismatch repair protein Msh6
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544114,451,307 - 14,471,227 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544114,451,207 - 14,471,316 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
adrenocortical carcinoma  (ISO)
ataxia telangiectasia  (ISO)
autosomal recessive limb-girdle muscular dystrophy type 2B  (ISO)
autosomal recessive nonsyndromic deafness 3  (ISO)
autosomal recessive progressive external ophthalmoplegia 1  (ISO)
B-lymphoblastic leukemia/lymphoma with BCR-ABL1  (ISO)
bilateral breast cancer  (ISO)
breast cancer  (ISO)
Breast Cancer, Familial  (ISO)
breast carcinoma  (ISO)
CEREBELLAR ATAXIA INFANTILE WITH PROGRESSIVE EXTERNAL OPHTHALMOPLEGIA  (ISO)
cerebellar medulloblastoma  (ISO)
colon adenocarcinoma  (ISO)
colon carcinoma  (ISO)
colorectal cancer  (ISO)
colorectal carcinoma  (ISO)
Digestive System Neoplasms  (ISO)
endometrial cancer  (ISO)
endometrial carcinoma  (ISO)
Endometrial Neoplasms  (ISO)
endometrial serous adenocarcinoma  (ISO)
Familial Prostate Cancer  (ISO)
Gaucher's disease  (ISO)
Gaucher's disease type I  (ISO)
genetic disease  (ISO)
Genetic Predisposition to Disease  (ISO)
hepatoblastoma  (ISO)
hereditary breast ovarian cancer syndrome  (ISO)
Hereditary Neoplastic Syndromes  (ISO)
hereditary nonpolyposis colorectal cancer type 4  (ISO)
hereditary nonpolyposis colorectal cancer type 5  (ISO)
INTELLECTUAL DEVELOPMENTAL DISORDER WITH DYSMORPHIC FACIES AND BEHAVIORAL ABNORMALITIES  (ISO)
lung adenocarcinoma  (ISO)
lung sarcomatoid carcinoma  (ISO)
Lynch syndrome  (ISO)
Lynch syndrome 1  (ISO)
Microsatellite Instability  (ISO)
mismatch repair cancer syndrome  (ISO)
Mismatch Repair Cancer Syndrome 1  (ISO)
Mismatch Repair Cancer Syndrome 3  (ISO)
Neurodevelopmental Disorders  (ISO)
osteosarcoma  (ISO)
ovarian cancer  (ISO)
ovarian carcinoma  (ISO)
Ovarian Neoplasms  (ISO)
Pitt-Hopkins-like syndrome 2  (ISO)
progressive myoclonus epilepsy 5  (ISO)
prostate cancer  (ISO)
rhabdomyosarcoma  (ISO)
sensory ataxic neuropathy, dysarthria, and ophthalmoparesis  (ISO)
sigmoid colon cancer  (ISO)
sigmoid neoplasm  (ISO)
stomach cancer  (ISO)
Thyroid Neoplasms  (ISO)
urinary bladder cancer  (ISO)
Urogenital Neoplasms  (ISO)
uterine corpus cancer  (ISO)
xeroderma pigmentosum group D  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Msh6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544114,451,307 - 14,471,227 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544114,451,207 - 14,471,316 (+)NCBIChiLan1.0ChiLan1.0
MSH6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38247,783,145 - 47,810,101 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl247,695,530 - 47,810,063 (+)EnsemblGRCh38hg38GRCh38
GRCh37248,010,284 - 48,037,240 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36247,863,725 - 47,887,596 (+)NCBINCBI36Build 36hg18NCBI36
Build 34247,921,936 - 47,945,743NCBI
Celera247,849,755 - 47,873,614 (+)NCBICelera
Cytogenetic Map2p16.3NCBI
HuRef247,746,516 - 47,770,575 (+)NCBIHuRef
CHM1_1247,940,665 - 47,964,487 (+)NCBICHM1_1
T2T-CHM13v2.0247,789,083 - 47,816,050 (+)NCBIT2T-CHM13v2.0
Msh6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391788,282,478 - 88,298,320 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1788,282,490 - 88,298,320 (+)EnsemblGRCm39 Ensembl
GRCm381787,975,050 - 87,990,892 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1787,975,062 - 87,990,892 (+)EnsemblGRCm38mm10GRCm38
MGSCv371788,374,390 - 88,390,232 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361787,883,410 - 87,899,389 (+)NCBIMGSCv36mm8
Celera1792,385,348 - 92,401,193 (+)NCBICelera
Cytogenetic Map17E4NCBI
cM Map1757.87NCBI
Msh6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8612,316,190 - 12,333,505 (-)NCBIGRCr8
mRatBN7.266,562,631 - 6,579,995 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl66,562,632 - 6,579,956 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx66,844,774 - 6,862,085 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.067,154,179 - 7,171,490 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.066,681,324 - 6,698,635 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0611,644,565 - 11,662,389 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl611,644,578 - 11,662,499 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0621,616,672 - 21,634,338 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4611,525,292 - 11,542,592 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera66,326,162 - 6,343,370 (-)NCBICelera
Cytogenetic Map6q12NCBI
MSH6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21278,578,235 - 78,603,381 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12A78,582,203 - 78,607,350 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02A47,901,591 - 47,926,662 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12A48,824,469 - 48,849,779 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A48,824,350 - 48,849,779 (+)Ensemblpanpan1.1panPan2
MSH6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11049,825,330 - 49,838,036 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1049,803,898 - 49,838,028 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1049,669,446 - 49,693,588 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01050,687,723 - 50,711,873 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1050,687,741 - 50,711,873 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11050,394,939 - 50,419,090 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01050,681,795 - 50,705,920 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01050,869,560 - 50,893,685 (+)NCBIUU_Cfam_GSD_1.0
Msh6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629233,280,052 - 33,300,065 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365084,708,661 - 4,728,787 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365084,708,661 - 4,728,671 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MSH6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl392,785,664 - 92,814,238 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1392,792,590 - 92,814,154 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2398,710,956 - 98,732,503 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MSH6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11459,375,602 - 59,400,252 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1459,375,691 - 59,400,174 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604552,443,508 - 52,468,664 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Msh6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473829,083,692 - 29,108,792 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462473829,083,696 - 29,108,792 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000004494   ⟹   ENSCLAP00000004411
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_00495544114,451,307 - 14,471,227 (+)Ensembl
RefSeq Acc Id: XM_013517569   ⟹   XP_013373023
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_00495544114,451,207 - 14,471,316 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013373023 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000004411
  ENSCLAP00000004411.1
RefSeq Acc Id: XP_013373023   ⟸   XM_013517569
- UniProtKB: A0A8C2UQM7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000004411   ⟸   ENSCLAT00000004494
Protein Domains
PWWP


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000003134 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000004494 ENTREZGENE
  ENSCLAT00000004494.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.1420.10 UniProtKB/TrEMBL
  2.30.30.140 UniProtKB/TrEMBL
  3.30.420.110 UniProtKB/TrEMBL
  3.40.1170.10 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro DNA_mismatch_repair_MutS-lik_N UniProtKB/TrEMBL
  DNA_mismatch_repair_MutS/MSH UniProtKB/TrEMBL
  DNA_mismatch_repair_MutS_C UniProtKB/TrEMBL
  DNA_mismatch_repair_MutS_clamp UniProtKB/TrEMBL
  DNA_mismatch_repair_MutS_core UniProtKB/TrEMBL
  DNA_mismatch_repair_MutS_N UniProtKB/TrEMBL
  DNA_mismatch_repair_MutS_sf UniProtKB/TrEMBL
  DNA_mmatch_repair_MutS_con_dom UniProtKB/TrEMBL
  MutS_con_dom_sf UniProtKB/TrEMBL
  MutS_family UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  PWWP_dom UniProtKB/TrEMBL
NCBI Gene Msh6 ENTREZGENE
PANTHER DNA MISMATCH REPAIR PROTEIN MSH6 UniProtKB/TrEMBL
  PTHR11361 UniProtKB/TrEMBL
Pfam MutS_I UniProtKB/TrEMBL
  MutS_II UniProtKB/TrEMBL
  MutS_III UniProtKB/TrEMBL
  MutS_IV UniProtKB/TrEMBL
  MutS_V UniProtKB/TrEMBL
  PWWP UniProtKB/TrEMBL
PIRSF DNA_mis_repair_Msh6 UniProtKB/TrEMBL
PROSITE DNA_MISMATCH_REPAIR_2 UniProtKB/TrEMBL
  PWWP UniProtKB/TrEMBL
SMART MUTSac UniProtKB/TrEMBL
  MUTSd UniProtKB/TrEMBL
  PWWP UniProtKB/TrEMBL
Superfamily-SCOP SSF48334 UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
  SSF53150 UniProtKB/TrEMBL
  SSF55271 UniProtKB/TrEMBL
  Tudor/PWWP/MBT UniProtKB/TrEMBL
UniProt A0A8C2UQM7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-08-25 Msh6  mutS homolog 6    mutS homolog 6 (E. coli)  Symbol and/or name change 5135510 APPROVED