Cmtm4 (CKLF-like MARVEL transmembrane domain containing 4) - Rat Genome Database

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Gene: Cmtm4 (CKLF-like MARVEL transmembrane domain containing 4) Rattus norvegicus
Analyze
Symbol: Cmtm4
Name: CKLF-like MARVEL transmembrane domain containing 4
RGD ID: 1565098
Description: Predicted to be active in membrane. Orthologous to human CMTM4 (CKLF like MARVEL transmembrane domain containing 4); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: chemokine-like factor super family 4; CKLF-like MARVEL transmembrane domain-containing protein 4; Cklfsf4; LOC498902; RGD1565098; similar to chemokine-like factor super family 4
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
GRCr819582,642 - 622,546 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl19582,621 - 677,816 (+)EnsemblGRCr8
mRatBN7.219576,203 - 616,109 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl19576,203 - 616,109 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx19572,067 - 611,907 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0191,338,864 - 1,378,708 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.019614,078 - 653,922 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.019784,618 - 824,420 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl19784,618 - 824,420 (+)Ensemblrn6Rnor6.0
Rnor_5.019783,437 - 822,756 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.419532,342 - 572,975 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera19572,245 - 612,048 (+)NCBICelera
Cytogenetic Map19p14NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
membrane  (IBA,IEA)

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:21351585  


Genomics

Comparative Map Data
Cmtm4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr819582,642 - 622,546 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl19582,621 - 677,816 (+)EnsemblGRCr8
mRatBN7.219576,203 - 616,109 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl19576,203 - 616,109 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx19572,067 - 611,907 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0191,338,864 - 1,378,708 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.019614,078 - 653,922 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.019784,618 - 824,420 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl19784,618 - 824,420 (+)Ensemblrn6Rnor6.0
Rnor_5.019783,437 - 822,756 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.419532,342 - 572,975 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera19572,245 - 612,048 (+)NCBICelera
Cytogenetic Map19p14NCBI
CMTM4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381666,598,178 - 66,696,743 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1666,614,750 - 66,696,743 (-)Ensemblhg38GRCh38
GRCh371666,648,653 - 66,730,646 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361665,206,154 - 65,288,111 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341665,213,160 - 65,288,111NCBI
Celera1651,155,146 - 51,176,975 (-)NCBICelera
Cytogenetic Map16q21-q22.1NCBI
HuRef1652,524,423 - 52,605,791 (-)NCBIHuRef
CHM1_11668,055,796 - 68,137,675 (-)NCBICHM1_1
T2T-CHM13v2.01672,359,915 - 72,491,037 (-)NCBIT2T-CHM13v2.0
Cmtm4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398105,074,823 - 105,122,439 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8105,074,823 - 105,122,439 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm388104,348,191 - 104,395,807 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8104,348,191 - 104,395,807 (-)Ensemblmm10GRCm38
MGSCv378106,878,416 - 106,919,596 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv368107,243,645 - 107,284,825 (-)NCBIMGSCv36mm8
Celera8108,585,611 - 108,626,807 (-)NCBICelera
Cytogenetic Map8D3NCBI
cM Map853.04NCBI
Cmtm4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543323,189,925 - 23,245,728 (-)Ensembl
ChiLan1.0NW_00495543323,189,925 - 23,245,722 (-)NCBIChiLan1.0ChiLan1.0
CMTM4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21876,082,700 - 76,199,500 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11681,995,126 - 82,111,888 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01646,898,177 - 47,014,892 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11666,032,392 - 66,116,527 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1666,034,896 - 66,116,531 (-)EnsemblpanPan2panpan1.1
CMTM4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1582,643,032 - 82,660,415 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl582,643,088 - 82,653,344 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha582,576,922 - 82,648,859 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0583,025,138 - 83,097,169 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl583,024,879 - 83,092,088 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1582,848,259 - 82,920,186 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0582,535,108 - 82,607,227 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0583,173,695 - 83,245,701 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cmtm4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934942,627,114 - 42,653,071 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647516,943,340 - 16,950,999 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647516,936,003 - 16,952,418 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CMTM4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl627,320,364 - 27,391,471 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1627,319,074 - 27,391,478 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CMTM4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1552,313,253 - 52,393,715 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl552,320,532 - 52,393,532 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604723,517,911 - 23,601,301 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cmtm4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474619,768,943 - 19,824,173 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462474619,769,097 - 19,830,224 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Cmtm4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11712,636,343 - 12,680,309 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Cmtm4
73 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:304
Count of miRNA genes:194
Interacting mature miRNAs:215
Transcripts:ENSRNOT00000014749
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
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131969901Rat
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124694445Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127361636Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat

Markers in Region
UniSTS:224441  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.219615,513 - 615,620 (+)MAPPERmRatBN7.2
Rnor_6.019823,825 - 823,931NCBIRnor6.0
Rnor_5.019822,161 - 822,267UniSTSRnor5.0
RGSC_v3.419572,380 - 572,486UniSTSRGSC3.4
Celera19611,453 - 611,559UniSTS
Cytogenetic Map19p14UniSTS


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 67 160 91 90 59 92 59 6 354 192 11 139 79 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000014749   ⟹   ENSRNOP00000014749
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl19582,621 - 677,816 (+)Ensembl
mRatBN7.2 Ensembl19576,203 - 616,109 (+)Ensembl
Rnor_6.0 Ensembl19784,618 - 824,420 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000154371   ⟹   ENSRNOP00000099240
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl19582,621 - 625,454 (+)Ensembl
RefSeq Acc Id: NM_001172151   ⟹   NP_001165622
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr819582,642 - 622,546 (+)NCBI
mRatBN7.219576,203 - 616,109 (+)NCBI
Rnor_6.019784,618 - 824,420 (+)NCBI
Rnor_5.019783,437 - 822,756 (+)NCBI
Celera19572,245 - 612,048 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001165622 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000014749.4
  ENSRNOP00000099240
  ENSRNOP00000099240.1
RefSeq Acc Id: NP_001165622   ⟸   NM_001172151
- UniProtKB: D4A110 (UniProtKB/TrEMBL),   A6JXV9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000014749   ⟸   ENSRNOT00000014749
Ensembl Acc Id: ENSRNOP00000099240   ⟸   ENSRNOT00000154371
Protein Domains
MARVEL

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A110-F1-model_v2 AlphaFold D4A110 1-208 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:1565098 AgrOrtholog
BioCyc Gene G2FUF-6642 BioCyc
Ensembl Genes ENSRNOG00000011009 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000014749.7 UniProtKB/TrEMBL
  ENSRNOT00000154371 ENTREZGENE
  ENSRNOT00000154371.1 UniProtKB/TrEMBL
InterPro Marvel UniProtKB/TrEMBL
  MARVEL-CKLF_proteins UniProtKB/TrEMBL
KEGG Report rno:498902 UniProtKB/TrEMBL
NCBI Gene 498902 ENTREZGENE
PANTHER CKLF-LIKE MARVEL TRANSMEMBRANE DOMAIN-CONTAINING PROTEIN 4 UniProtKB/TrEMBL
  MARVEL-CONTAINING POTENTIAL LIPID RAFT-ASSOCIATED PROTEIN UniProtKB/TrEMBL
Pfam MARVEL UniProtKB/TrEMBL
PhenoGen Cmtm4 PhenoGen
PROSITE MARVEL UniProtKB/TrEMBL
RatGTEx ENSRNOG00000011009 RatGTEx
UniProt A0ABK0L8K2_RAT UniProtKB/TrEMBL
  A6JXV9 ENTREZGENE, UniProtKB/TrEMBL
  D4A110 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-06 Cmtm4  CKLF-like MARVEL transmembrane domain containing 4  RGD1565098_predicted  similar to chemokine-like factor super family 4 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 RGD1565098_predicted  similar to chemokine-like factor super family 4 (predicted)  LOC681504  similar to chemokine-like factor super family 4  Data merged from RGD:1594128 1643240 APPROVED
2006-11-20 LOC681504  similar to chemokine-like factor super family 4      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-03-07 RGD1565098_predicted  similar to chemokine-like factor super family 4 (predicted)  LOC498902  similar to chemokine-like factor super family 4  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC498902  similar to chemokine-like factor super family 4      Symbol and Name status set to provisional 70820 PROVISIONAL