Mcm9 (minichromosome maintenance 9 homologous recombination repair factor) - Rat Genome Database

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Gene: Mcm9 (minichromosome maintenance 9 homologous recombination repair factor) Rattus norvegicus
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Symbol: Mcm9
Name: minichromosome maintenance 9 homologous recombination repair factor
RGD ID: 1560557
Description: Predicted to enable several functions, including 3'-5' DNA helicase activity; chromatin binding activity; and mismatch repair complex binding activity. Predicted to be involved in DNA repair; female gamete generation; and protein localization to chromatin. Predicted to be located in nucleus. Predicted to be part of MCM8-MCM9 complex. Human ortholog(s) of this gene implicated in ovarian dysgenesis 4. Orthologous to human MCM9 (minichromosome maintenance 9 homologous recombination repair factor); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; allethrin; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: DNA helicase MCM9; LOC361852; LOC499437; Mcmdc1; Mini-chromosome maintenance deficient domain-containing protein 1; minichromosome maintenance complex component 9; minichromosome maintenance deficient domain containing 1; RGD1560557; similar to minichromosome maintenance protein 8 isoform 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82033,369,325 - 33,472,243 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2033,387,611 - 33,472,243 (-)EnsemblGRCr8
mRatBN7.22032,818,219 - 32,929,577 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2032,844,951 - 32,929,600 (-)EnsemblmRatBN7.2
Dahl_SR_JrHsd2033,442,276 - 33,526,865 (-)NCBIDahl_SR_JrHsd
Lyon_Normotensive2034,488,999 - 34,573,585 (-)NCBILyon_Normotensive
Lyon_Hypertensive2034,526,802 - 34,611,388 (-)NCBILyon_Hypertensive
F344_StmMcwi2033,386,828 - 33,471,410 (-)NCBIF344_StmMcwi
Rnor_6.02034,818,093 - 34,930,157 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2034,846,804 - 34,929,965 (-)Ensemblrn6Rnor6.0
Rnor_5.02036,601,544 - 36,687,576 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42032,217,045 - 32,300,032 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2034,210,818 - 34,321,841 (-)NCBICelera
RGSC_v3.12032,291,717 - 32,310,543 (-)NCBI
Cytogenetic Map20q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
chromosome  (IEA)
MCM8-MCM9 complex  (IEA,ISO,ISS)
nucleus  (IEA,ISO)

References

References - curated
# Reference Title Reference Citation
1. 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.
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15057822   PMID:15850810   PMID:21987787   PMID:22771115   PMID:22771120   PMID:23401855   PMID:26215093   PMID:26300262  


Genomics

Comparative Map Data
Mcm9
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82033,369,325 - 33,472,243 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl2033,387,611 - 33,472,243 (-)EnsemblGRCr8
mRatBN7.22032,818,219 - 32,929,577 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2032,844,951 - 32,929,600 (-)EnsemblmRatBN7.2
Dahl_SR_JrHsd2033,442,276 - 33,526,865 (-)NCBIDahl_SR_JrHsd
Lyon_Normotensive2034,488,999 - 34,573,585 (-)NCBILyon_Normotensive
Lyon_Hypertensive2034,526,802 - 34,611,388 (-)NCBILyon_Hypertensive
F344_StmMcwi2033,386,828 - 33,471,410 (-)NCBIF344_StmMcwi
Rnor_6.02034,818,093 - 34,930,157 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2034,846,804 - 34,929,965 (-)Ensemblrn6Rnor6.0
Rnor_5.02036,601,544 - 36,687,576 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.42032,217,045 - 32,300,032 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera2034,210,818 - 34,321,841 (-)NCBICelera
RGSC_v3.12032,291,717 - 32,310,543 (-)NCBI
Cytogenetic Map20q11NCBI
MCM9
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386118,813,455 - 118,935,159 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6118,813,442 - 118,935,162 (-)Ensemblhg38GRCh38
GRCh376119,134,618 - 119,256,324 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 366119,273,461 - 119,298,002 (-)NCBIBuild 36Build 36hg18NCBI36
Build 346119,273,462 - 119,297,978NCBI
Celera6119,976,419 - 120,000,945 (-)NCBICelera
Cytogenetic Map6q22.31NCBI
HuRef6116,716,601 - 116,838,443 (-)NCBIHuRef
CHM1_16119,398,623 - 119,520,384 (-)NCBICHM1_1
T2T-CHM13v2.06119,999,276 - 120,121,020 (-)NCBIT2T-CHM13v2.0
Mcm9
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391053,412,411 - 53,507,251 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1053,412,411 - 53,506,535 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381053,536,315 - 53,630,006 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1053,536,315 - 53,630,439 (-)Ensemblmm10GRCm38
MGSCv371053,257,130 - 53,350,245 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361053,225,739 - 53,318,854 (-)NCBIMGSCv36mm8
Celera1054,365,478 - 54,457,930 (-)NCBICelera
Cytogenetic Map10B3NCBI
cM Map1027.21NCBI
Mcm9
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554361,642,337 - 1,661,362 (-)NCBIChiLan1.0ChiLan1.0
MCM9
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25138,825,818 - 138,948,860 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16136,720,258 - 136,845,920 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06116,620,188 - 116,743,435 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16120,763,329 - 120,881,865 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6120,763,329 - 120,881,865 (-)EnsemblpanPan2panpan1.1
MCM9
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1158,746,637 - 58,862,550 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl158,767,159 - 58,859,282 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha159,549,381 - 59,665,283 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0158,931,274 - 59,047,177 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl158,951,799 - 59,043,905 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1158,849,839 - 58,947,004 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0158,673,270 - 58,789,141 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0159,304,753 - 59,420,717 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Mcm9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946109,550,366 - 109,627,305 (-)NCBIHiC_Itri_2
SpeTri2.0NW_0049366581,657,226 - 1,734,150 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MCM9
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl143,171,892 - 43,269,169 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1143,171,906 - 43,268,533 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2148,322,132 - 48,416,708 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MCM9
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11354,945,668 - 55,069,869 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1354,945,786 - 55,070,328 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604027,269,880 - 27,390,097 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mcm9
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462479811,290,074 - 11,367,495 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462479811,287,882 - 11,370,040 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Mcm9
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11830,516,090 - 30,589,821 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Mcm9
848 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:70
Count of miRNA genes:68
Interacting mature miRNAs:70
Transcripts:ENSRNOT00000004499
Prediction methods:Microtar, Miranda, Rnahybrid
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4889610Pancm3Pancreatic morphology QTL 33.750.001pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)20418947649189476Rat
2303587Bw93Body weight QTL 9313body mass (VT:0001259)body weight (CMO:0000012)202668936256021148Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20133724594Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600300Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20153308346533083Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20134066551Rat
2303626Vencon10Ventilatory control QTL 100.001respiration trait (VT:0001943)respiration rate (CMO:0000289)202074558556021148Rat
1598869Memor6Memory QTL 63.1exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)202668936256021148Rat
1598870Bp289Blood pressure QTL 2892.4arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)20821635953216359Rat
70158Bp60Blood pressure QTL 603arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)203215696745978663Rat
1598858Cm61Cardiac mass QTL 613.6heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)20821635953216359Rat
1331747Hrtrt16Heart rate QTL 163.163heart pumping trait (VT:2000009)heart rate (CMO:0000002)202679235356021148Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)201224324249189476Rat
2303578Gluco50Glucose level QTL 502blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)202668936256021148Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600300Rat
2300188Bmd68Bone mineral density QTL 686.40.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)202668936256021148Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 164 91 90 59 92 59 6 356 192 11 143 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000004499   ⟹   ENSRNOP00000004499
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl2033,387,611 - 33,472,243 (-)Ensembl
mRatBN7.2 Ensembl2032,844,951 - 32,929,600 (-)Ensembl
Rnor_6.0 Ensembl2034,846,804 - 34,929,965 (-)Ensembl
RefSeq Acc Id: NM_001416381   ⟹   NP_001403310
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82033,387,611 - 33,472,243 (-)NCBI
mRatBN7.22032,844,942 - 32,929,575 (-)NCBI
Dahl_SR_JrHsd2033,442,276 - 33,526,865 (-)NCBI
Lyon_Normotensive2034,488,999 - 34,573,585 (-)NCBI
Lyon_Hypertensive2034,526,802 - 34,611,388 (-)NCBI
F344_StmMcwi2033,386,828 - 33,471,410 (-)NCBI
RefSeq Acc Id: XM_008773009   ⟹   XP_008771231
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82033,437,616 - 33,472,238 (-)NCBI
mRatBN7.22032,894,953 - 32,929,577 (-)NCBI
Rnor_6.02034,895,057 - 34,930,155 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063279470   ⟹   XP_063135540
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82033,391,153 - 33,436,443 (-)NCBI
RefSeq Acc Id: XR_005497729
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82033,369,325 - 33,472,236 (-)NCBI
mRatBN7.22032,844,941 - 32,929,575 (-)NCBI
RefSeq Acc Id: XR_005497732
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr82033,395,640 - 33,472,237 (-)NCBI
mRatBN7.22032,852,972 - 32,929,576 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001403310 (Get FASTA)   NCBI Sequence Viewer  
  XP_008771231 (Get FASTA)   NCBI Sequence Viewer  
  XP_063135540 (Get FASTA)   NCBI Sequence Viewer  
  XP_342147 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000004499
GenBank Protein F1M5F3 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_008771231   ⟸   XM_008773009
- Peptide Label: isoform X2
- UniProtKB: A6K498 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000004499   ⟸   ENSRNOT00000004499
RefSeq Acc Id: NP_001403310   ⟸   NM_001416381
- UniProtKB: F1M5F3 (UniProtKB/Swiss-Prot),   K3W4U8 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063135540   ⟸   XM_063279470
- Peptide Label: isoform X1
- UniProtKB: A6K494 (UniProtKB/TrEMBL)
Protein Domains
MCM

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-K3W4U8-F1-model_v2 AlphaFold K3W4U8 1-1128 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560557 AgrOrtholog
BioCyc Gene G2FUF-3626 BioCyc
Ensembl Genes ENSRNOG00000003281 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000004499 ENTREZGENE
Gene3D-CATH 2.40.50.140 UniProtKB/Swiss-Prot
  3.40.50.300 UniProtKB/Swiss-Prot
InterPro AAA+_ATPase UniProtKB/Swiss-Prot
  MCM UniProtKB/Swiss-Prot
  MCM_dom UniProtKB/Swiss-Prot
  MCM_lid UniProtKB/Swiss-Prot
  MCM_OB UniProtKB/Swiss-Prot
  NA-bd_OB-fold UniProtKB/Swiss-Prot
  P-loop_NTPase UniProtKB/Swiss-Prot
NCBI Gene 499437 ENTREZGENE
PANTHER DNA HELICASE MCM9 UniProtKB/Swiss-Prot
  DNA REPLICATION LICENSING FACTOR MCM FAMILY MEMBER UniProtKB/Swiss-Prot
Pfam MCM UniProtKB/Swiss-Prot
  MCM_lid UniProtKB/Swiss-Prot
  MCM_OB UniProtKB/Swiss-Prot
PhenoGen Mcm9 PhenoGen
PRINTS MCMFAMILY UniProtKB/Swiss-Prot
PROSITE MCM_2 UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000003281 RatGTEx
SMART AAA UniProtKB/Swiss-Prot
  MCM UniProtKB/Swiss-Prot
Superfamily-SCOP Nucleic acid-binding proteins UniProtKB/Swiss-Prot
  P-loop containing nucleoside triphosphate hydrolases UniProtKB/Swiss-Prot
UniProt A6K494 ENTREZGENE, UniProtKB/TrEMBL
  A6K498 ENTREZGENE, UniProtKB/TrEMBL
  F1M5F3 ENTREZGENE
  K3W4U8 ENTREZGENE, UniProtKB/TrEMBL
  MCM9_RAT UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-01-30 Mcm9  minichromosome maintenance 9 homologous recombination repair factor  Mcmdc1  minichromosome maintenance deficient domain containing 1  Data merged from RGD:1305582 737654 PROVISIONAL
2015-09-18 Mcm9  minichromosome maintenance 9 homologous recombination repair factor  Mcm9  minichromosome maintenance complex component 9  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-11-25 Mcm9  minichromosome maintenance complex component 9  RGD1560557  similar to minichromosome maintenance protein 8 isoform 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Mcmdc1  minichromosome maintenance deficient domain containing 1   Mcmdc1_predicted  minichromosome maintenance deficient domain containing 1 (predicted)  'predicted' is removed 2292626 APPROVED
2008-04-30 RGD1560557  similar to minichromosome maintenance protein 8 isoform 1   RGD1560557_predicted  similar to minichromosome maintenance protein 8 isoform 1 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1560557_predicted  similar to minichromosome maintenance protein 8 isoform 1 (predicted)  LOC499437  similar to minichromosome maintenance protein 8 isoform 1  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC499437  similar to minichromosome maintenance protein 8 isoform 1      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-12 Mcmdc1_predicted  minichromosome maintenance deficient domain containing 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED