Cmtm1 (CKLF-like MARVEL transmembrane domain containing 1) - Rat Genome Database

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Gene: Cmtm1 (CKLF-like MARVEL transmembrane domain containing 1) Rattus norvegicus
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Symbol: Cmtm1
Name: CKLF-like MARVEL transmembrane domain containing 1
RGD ID: 1560130
Description: Predicted to be located in membrane. Orthologous to human CMTM1 (CKLF like MARVEL transmembrane domain containing 1); INTERACTS WITH bisphenol A; aristolochic acid A (ortholog); benzo[a]pyrene (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CKLF-like MARVEL transmembrane domain-containing protein 1; LOC291823; MGC116183; similar to C-terminal binding protein 2 CtBP2
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr819658,075 - 667,618 (-)NCBIGRCr8
mRatBN7.219651,641 - 661,184 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl19651,644 - 661,184 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx19647,443 - 656,954 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0191,414,244 - 1,423,756 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.019689,456 - 698,967 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.019849,145 - 869,508 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl19859,948 - 869,490 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.019852,925 - 862,525 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.419609,302 - 618,845 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera19647,539 - 657,082 (-)NCBICelera
Cytogenetic Map19p14NCBI
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
membrane  (IEA)

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.

Genomics

Comparative Map Data
Cmtm1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr819658,075 - 667,618 (-)NCBIGRCr8
mRatBN7.219651,641 - 661,184 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl19651,644 - 661,184 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx19647,443 - 656,954 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0191,414,244 - 1,423,756 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.019689,456 - 698,967 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.019849,145 - 869,508 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl19859,948 - 869,490 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.019852,925 - 862,525 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.419609,302 - 618,845 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera19647,539 - 657,082 (-)NCBICelera
Cytogenetic Map19p14NCBI
CMTM1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381666,566,439 - 66,579,135 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1666,566,393 - 66,579,137 (+)EnsemblGRCh38hg38GRCh38
GRCh371666,600,342 - 66,613,038 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361665,157,795 - 65,170,539 (+)NCBINCBI36Build 36hg18NCBI36
Build 341665,158,150 - 65,170,537NCBI
Celera1651,106,868 - 51,119,612 (+)NCBICelera
Cytogenetic Map16q21NCBI
HuRef1652,476,217 - 52,488,962 (+)NCBIHuRef
CHM1_11668,007,472 - 68,020,216 (+)NCBICHM1_1
T2T-CHM13v2.01672,360,734 - 72,373,430 (+)NCBIT2T-CHM13v2.0
Cmtm1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398105,020,174 - 105,036,777 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8105,019,555 - 105,036,777 (-)EnsemblGRCm39 Ensembl
GRCm39 Ensembl8105,007,979 - 105,036,713 (-)EnsemblGRCm39 Ensembl
GRCm388104,293,542 - 104,310,145 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8104,292,622 - 104,310,145 (-)EnsemblGRCm38mm10GRCm38
GRCm38.p6 Ensembl8104,281,347 - 104,310,081 (-)EnsemblGRCm38mm10GRCm38
MGSCv378106,817,442 - 106,834,045 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368107,170,614 - 107,199,412 (-)NCBIMGSCv36mm8
Celera8108,524,967 - 108,541,608 (-)NCBICelera
Cytogenetic Map8D3NCBI
cM Map853.04NCBI
CMTM1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21876,068,769 - 76,082,447 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11681,981,180 - 81,994,158 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01646,884,235 - 46,897,219 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11665,985,873 - 65,998,811 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1665,972,218 - 65,998,677 (+)Ensemblpanpan1.1panPan2
CMTM1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1582,697,066 - 82,709,383 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl582,697,066 - 82,709,383 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha582,685,550 - 82,697,868 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0583,133,844 - 83,146,167 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl583,133,844 - 83,146,167 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1582,956,881 - 82,969,199 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0582,650,265 - 82,662,575 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0583,282,401 - 83,294,715 (-)NCBIUU_Cfam_GSD_1.0
Cmtm1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934942,673,019 - 42,697,950 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493647516,891,279 - 16,915,965 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
LOC110260932
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1627,267,733 - 27,281,657 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CMTM1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Vero_WHO_p1.0NW_02366604723,642,436 - 23,656,438 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Cmtm1
12 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:59
Count of miRNA genes:55
Interacting mature miRNAs:57
Transcripts:ENSRNOT00000039025
Prediction methods: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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124688055Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127355345Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19128982497Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19128982497Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131963836Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
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


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 7
Low 1 1
Below cutoff 2 1 11 2 7 2 3 3 17 18 5 7 3

Sequence


RefSeq Acc Id: ENSRNOT00000080433   ⟹   ENSRNOP00000070371
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl19651,644 - 661,184 (-)Ensembl
Rnor_6.0 Ensembl19859,948 - 869,490 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000110554   ⟹   ENSRNOP00000088160
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl19651,644 - 661,146 (-)Ensembl
RefSeq Acc Id: NM_001029914   ⟹   NP_001025085
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819658,075 - 667,618 (-)NCBI
mRatBN7.219651,641 - 661,184 (-)NCBI
Rnor_6.019859,947 - 869,490 (-)NCBI
Rnor_5.019852,925 - 862,525 (-)NCBI
RGSC_v3.419609,302 - 618,845 (-)RGD
Celera19647,539 - 657,082 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001025085 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH98029 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000070371
  ENSRNOP00000070371.1
  ENSRNOP00000088160.1
RefSeq Acc Id: NP_001025085   ⟸   NM_001029914
- UniProtKB: Q4QQS9 (UniProtKB/TrEMBL),   A0A8I6A5X9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000070371   ⟸   ENSRNOT00000080433
RefSeq Acc Id: ENSRNOP00000088160   ⟸   ENSRNOT00000110554
Protein Domains
MARVEL

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4QQS9-F1-model_v2 AlphaFold Q4QQS9 1-399 view protein structure

Transcriptome

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

Promoters
RGD ID:13700911
Promoter ID:EPDNEW_R11435
Type:multiple initiation site
Name:Cmtm1_1
Description:CKLF-like MARVEL transmembrane domain containing 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.019869,538 - 869,598EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1560130 AgrOrtholog
BioCyc Gene G2FUF-6639 BioCyc
Ensembl Genes ENSRNOG00000057711 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000080433 ENTREZGENE
  ENSRNOT00000080433.2 UniProtKB/TrEMBL
  ENSRNOT00000110554.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7456234 IMAGE-MGC_LOAD
InterPro Marvel UniProtKB/TrEMBL
KEGG Report rno:291823 UniProtKB/TrEMBL
MGC_CLONE MGC:116183 IMAGE-MGC_LOAD
NCBI Gene 291823 ENTREZGENE
PANTHER CKLF-LIKE MARVEL TRANSMEMBRANE DOMAIN-CONTAINING PROTEIN 1 UniProtKB/TrEMBL
  MARVEL-CONTAINING POTENTIAL LIPID RAFT-ASSOCIATED PROTEIN UniProtKB/TrEMBL
PhenoGen Cmtm1 PhenoGen
PROSITE MARVEL UniProtKB/TrEMBL
RatGTEx ENSRNOG00000057711 RatGTEx
UniProt A0A8I6A5X9 ENTREZGENE, UniProtKB/TrEMBL
  Q4QQS9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-04 Cmtm1  CKLF-like MARVEL transmembrane domain containing 1  LOC291823  similar to C-terminal binding protein 2 CtBP2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-02-09 LOC291823  similar to C-terminal binding protein 2 CtBP2      Symbol and Name status set to provisional 70820 PROVISIONAL