Cmc2 (C-x(9)-C motif containing 2) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Cmc2 (C-x(9)-C motif containing 2) Rattus norvegicus
Analyze
Symbol: Cmc2
Name: C-x(9)-C motif containing 2
RGD ID: 2324599
Description: Predicted to be active in mitochondrion. Orthologous to human CMC2 (C-X9-C motif containing 2); INTERACTS WITH 17beta-estradiol; 6-propyl-2-thiouracil; bisphenol A.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: COX assembly mitochondrial protein 2; COX assembly mitochondrial protein 2 homolog; LOC100363376; LOC108348946; rCG51296-like; uncharacterized LOC108348946
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81961,852,126 - 61,880,768 (-)NCBIGRCr8
mRatBN7.21944,943,283 - 44,971,930 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1944,943,285 - 44,971,983 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1951,755,620 - 51,781,512 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01952,408,640 - 52,434,528 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01954,652,875 - 54,678,768 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01949,433,332 - 49,457,641 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1949,433,590 - 49,448,072 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01960,224,644 - 60,248,869 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41947,002,952 - 47,028,957 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1944,218,029 - 44,244,870 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
mitochondrion  (IBA,ISO)

Molecular Function

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:20220131  


Genomics

Comparative Map Data
Cmc2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81961,852,126 - 61,880,768 (-)NCBIGRCr8
mRatBN7.21944,943,283 - 44,971,930 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1944,943,285 - 44,971,983 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1951,755,620 - 51,781,512 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01952,408,640 - 52,434,528 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01954,652,875 - 54,678,768 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01949,433,332 - 49,457,641 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1949,433,590 - 49,448,072 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01960,224,644 - 60,248,869 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41947,002,952 - 47,028,957 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1944,218,029 - 44,244,870 (-)NCBICelera
Cytogenetic Map19q12NCBI
CMC2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381680,966,448 - 81,006,885 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1680,966,448 - 81,020,270 (-)EnsemblGRCh38hg38GRCh38
GRCh371681,000,345 - 81,040,490 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361679,567,200 - 79,597,991 (-)NCBINCBI36Build 36hg18NCBI36
Celera1665,308,104 - 65,338,903 (-)NCBICelera
Cytogenetic Map16q23.2NCBI
HuRef1666,766,556 - 66,797,378 (-)NCBIHuRef
CHM1_11682,421,068 - 82,451,870 (-)NCBICHM1_1
T2T-CHM13v2.01687,028,306 - 87,068,420 (-)NCBIT2T-CHM13v2.0
Cmc2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398117,615,424 - 117,671,061 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8117,615,424 - 117,648,194 (-)EnsemblGRCm39 Ensembl
GRCm388116,888,685 - 116,944,322 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8116,888,685 - 116,921,455 (-)EnsemblGRCm38mm10GRCm38
MGSCv378119,412,585 - 119,445,336 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368119,775,495 - 119,807,413 (-)NCBIMGSCv36mm8
Celera8121,107,831 - 121,140,821 (-)NCBICelera
Cytogenetic Map8E1NCBI
cM Map863.28NCBI
Cmc2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555223,773,997 - 3,802,336 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555223,774,136 - 3,801,892 (-)NCBIChiLan1.0ChiLan1.0
CMC2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21890,726,744 - 90,757,303 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11696,646,245 - 96,676,782 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01661,582,018 - 61,612,597 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11681,009,625 - 81,040,354 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1681,009,625 - 81,040,355 (-)Ensemblpanpan1.1panPan2
LOC102155476
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1106,581,983 - 6,582,314 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl570,821,294 - 70,836,763 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha106,510,190 - 6,511,912 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0106,618,965 - 6,620,687 (-)NCBIROS_Cfam_1.0
Cmc2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934930,906,128 - 30,931,491 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647528,657,630 - 28,682,932 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647528,657,623 - 28,682,947 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CMC2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.167,254,937 - 7,278,714 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CMC2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1566,426,682 - 66,459,610 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl566,426,557 - 66,460,003 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660479,375,751 - 9,409,032 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cmc2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247466,347,006 - 6,369,981 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247466,330,932 - 6,369,245 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cmc2
160 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:185
Count of miRNA genes:125
Interacting mature miRNAs:139
Transcripts:ENSRNOT00000014997
Prediction methods:Microtar, 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 (http://mirgate.bioinfo.cnio.es/).
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
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191560502346559041Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat

Markers in Region
RH134044  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21944,943,371 - 44,943,569 (+)MAPPERmRatBN7.2
Rnor_6.01949,433,419 - 49,433,616NCBIRnor6.0
Rnor_5.01960,224,731 - 60,224,928UniSTSRnor5.0
RGSC_v3.41947,003,041 - 47,003,238UniSTSRGSC3.4
Celera1944,218,116 - 44,218,313UniSTS
RH 3.4 Map19596.8UniSTS


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000014997   ⟹   ENSRNOP00000014997
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1949,433,590 - 49,448,072 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000095441   ⟹   ENSRNOP00000087382
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1944,943,285 - 44,971,403 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000117703   ⟹   ENSRNOP00000078459
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1944,943,285 - 44,971,480 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000119763   ⟹   ENSRNOP00000087344
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1944,943,285 - 44,971,983 (-)Ensembl
RefSeq Acc Id: NM_001402209   ⟹   NP_001389138
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81961,852,126 - 61,880,258 (-)NCBI
mRatBN7.21944,943,283 - 44,971,420 (-)NCBI
RefSeq Acc Id: NM_001402210   ⟹   NP_001389139
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81961,852,126 - 61,880,258 (-)NCBI
mRatBN7.21944,943,283 - 44,971,420 (-)NCBI
RefSeq Acc Id: NM_001402211   ⟹   NP_001389140
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81961,852,126 - 61,880,258 (-)NCBI
mRatBN7.21944,943,283 - 44,971,420 (-)NCBI
RefSeq Acc Id: NM_001402212   ⟹   NP_001389141
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81961,852,128 - 61,880,768 (-)NCBI
mRatBN7.21944,943,285 - 44,971,930 (-)NCBI
RefSeq Acc Id: XM_039098177   ⟹   XP_038954105
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81961,852,128 - 61,879,956 (-)NCBI
mRatBN7.21944,943,283 - 44,971,124 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000014997   ⟸   ENSRNOT00000014997
RefSeq Acc Id: XP_038954105   ⟸   XM_039098177
- Peptide Label: isoform X1
- UniProtKB: D4A471 (UniProtKB/TrEMBL),   A6IZF8 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSRNOP00000078459   ⟸   ENSRNOT00000117703
RefSeq Acc Id: ENSRNOP00000087344   ⟸   ENSRNOT00000119763
RefSeq Acc Id: ENSRNOP00000087382   ⟸   ENSRNOT00000095441
RefSeq Acc Id: NP_001389138   ⟸   NM_001402209
- Peptide Label: isoform 1
- UniProtKB: D4A471 (UniProtKB/TrEMBL),   A6IZF8 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001389140   ⟸   NM_001402211
- Peptide Label: isoform 2
- UniProtKB: A0A8I5ZLA6 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001389139   ⟸   NM_001402210
- Peptide Label: isoform 1
- UniProtKB: D4A471 (UniProtKB/TrEMBL),   A6IZF8 (UniProtKB/TrEMBL)
RefSeq Acc Id: NP_001389141   ⟸   NM_001402212
- Peptide Label: isoform 1
- UniProtKB: D4A471 (UniProtKB/TrEMBL),   A6IZF8 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A471-F1-model_v2 AlphaFold D4A471 1-79 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:2324599 AgrOrtholog
BioCyc Gene G2FUF-5562 BioCyc
Ensembl Genes ENSRNOG00000011279 Ensembl
  ENSRNOG00000068690 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000095441 ENTREZGENE
  ENSRNOT00000095441.1 UniProtKB/TrEMBL
  ENSRNOT00000117703 ENTREZGENE
  ENSRNOT00000117703.1 UniProtKB/TrEMBL
  ENSRNOT00000119763.1 UniProtKB/TrEMBL
InterPro Cyt_c_biogenesis_Cmc1-like UniProtKB/TrEMBL
KEGG Report rno:100363376 UniProtKB/TrEMBL
NCBI Gene 100363376 ENTREZGENE
PANTHER COX ASSEMBLY MITOCHONDRIAL PROTEIN 2 HOMOLOG UniProtKB/TrEMBL
  PTHR22977 UniProtKB/TrEMBL
Pfam Cmc1 UniProtKB/TrEMBL
PhenoGen Cmc2 PhenoGen
PROSITE CHCH UniProtKB/TrEMBL
RatGTEx ENSRNOG00000011279 RatGTEx
  ENSRNOG00000068690 RatGTEx
UniProt A0A8I5ZLA6 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6A307_RAT UniProtKB/TrEMBL
  A6IZF8 ENTREZGENE, UniProtKB/TrEMBL
  D4A471 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-06-02 Cmc2  C-x(9)-C motif containing 2  Cmc2  C-x(9)-C motif containing 2  Data merged from RGD:149736354 737654 PROVISIONAL
2021-08-09 Cmc2  C-x(9)-C motif containing 2      Symbol and Name status set to provisional 45752 PROVISIONAL
2021-03-09 Cmc2  C-x(9)-C motif containing 2  LOC108348946  uncharacterized LOC108348946  Data merged from RGD:11497651 737654 PROVISIONAL
2016-08-02 LOC108348946  uncharacterized LOC108348946      Symbol and Name status set to provisional 70820 PROVISIONAL
2014-05-12 Cmc2  C-x(9)-C motif containing 2  Cmc2  COX assembly mitochondrial protein 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-09-11 Cmc2  COX assembly mitochondrial protein 2  LOC100363376  rCG51296-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-06 LOC100363376  rCG51296-like      Symbol and Name status set to provisional 70820 PROVISIONAL