Tcaf2c (TRPM8 channel associated factor 2C) - 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
Advanced Search (OLGA)
Gene: Tcaf2c (TRPM8 channel associated factor 2C) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Tcaf2c
Name: TRPM8 channel associated factor 2C
RGD ID: 1591778
Description: Predicted to enable transmembrane transporter binding activity. Predicted to be involved in positive regulation of protein targeting to membrane. Predicted to be active in plasma membrane. Orthologous to human TCAF2 (TRPM8 channel associated factor 2) and TCAF2C (TRPM8 channel associated factor 2C); INTERACTS WITH endosulfan; tetrachloromethane.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Fam115c; Fam139a; family with sequence similarity 115, member C; family with sequence similarity 139, member A; hypothetical protein LOC680422; LOC312280; LOC680422; TRPM8 channel-associated factor 2
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8472,520,327 - 72,543,150 (-)NCBIGRCr8
mRatBN7.2471,553,700 - 71,567,820 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl471,553,704 - 71,568,433 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0471,208,004 - 71,229,653 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl472,053,434 - 72,074,683 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl471,206,876 - 71,229,575 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04136,840,615 - 136,868,971 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4470,451,524 - 70,472,340 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera466,477,268 - 66,500,095 (-)NCBICelera
Cytogenetic Map4q24NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

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:24029230   PMID:25559186  


Genomics

Variants

.
Variants in Tcaf2c
825 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:135
Count of miRNA genes:113
Interacting mature miRNAs:116
Transcripts:ENSRNOT00000071511
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
1549843Bw53Body weight QTL 530.0001body mass (VT:0001259)body weight gain (CMO:0000420)461697658103194791Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)44043338885433388Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44345797688457976Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)457486946102486946Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)470362013132642728Rat
1549839Bw52Body weight QTL 520.0001body mass (VT:0001259)body weight gain (CMO:0000420)461697658115089733Rat
61336Bp21Blood pressure QTL 214.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45711470578881294Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)42690728575585128Rat
61475Aia2Adjuvant induced arthritis QTL 25.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)43950527573892441Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)44043341485433414Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)42949419581006281Rat
2317577Eae24Experimental allergic encephalomyelitis QTL 24nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)46699318572752834Rat
6909122Insul22Insulin level QTL 224.63blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)42690728575585128Rat
2300179Bmd50Bone mineral density QTL 505.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)460928534105928534Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)444463908148090542Rat
70192BpQTLcluster5Blood pressure QTL cluster 54.183arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)462933508114921294Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)450119848146803430Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)439524264116179656Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
1578657Bss12Bone structure and strength QTL 128.9femur morphology trait (VT:0000559)femoral neck cross-sectional area (CMO:0001697)460220938105220938Rat
1578658Bss13Bone structure and strength QTL 138femur strength trait (VT:0010010)femoral neck polar moment of inertia (CMO:0001670)460220938105220938Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)45664777678882945Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)45664777678882945Rat
6478684Anxrr30Anxiety related response QTL 300.00087defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)462753847107753847Rat
5685012Bmd87Bone mineral density QTL 875.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)45664777678882945Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)45664777678882945Rat
1331807Rf31Renal function QTL 312.988urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)43952426474726312Rat
8552782Vie1Viral induced encephalitis QTL 126.4brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
634311Sach7Saccharin preference QTL 7taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)45711443281266970Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)459948935154902892Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)41081417091360527Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)445456990146803430Rat
6478772Anxrr49Anxiety related response QTL 490.15488defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)462753847107753847Rat
2312569Pur19Proteinuria QTL 193.40.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)46588210796130297Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)436303261103194984Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)444463908148090542Rat
634344Hcar7Hepatocarcinoma resistance QTL 77.8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)470808386115808386Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
8552801Bw143Body weight QTL 1437.3body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)43443048482490359Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
8552807Vie4Viral induced encephalitis QTL 47.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)46293350882490359Rat
619616Bp79Blood pressure QTL 790.0292arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4521460278882945Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
631651Bp124Blood pressure QTL 1243arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)462879517107879517Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)462277855128289560Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
8552809Vie5Viral induced encephalitis QTL 525.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
1558651Swd3Spike wave discharge measurement QTL 34.620.000024brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)45843213392991462Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)456698790126192555Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)464528739157573521Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45711443291360801Rat
6478743Anxrr40Anxiety related response QTL 400.83076defecation behavior trait (VT:0010462)defecation rate (CMO:0000998)462753847107753847Rat
7394826Bw126Body weight QTL 1260.002body mass (VT:0001259)body weight gain (CMO:0000420)46293326987483707Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)432583980114627242Rat
631671Iddm11Insulin dependent diabetes mellitus QTL 113.60.0012blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)45863587778886137Rat


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
Low 11 84 129 61 59 61 64 112 111 41
Below cutoff 57 84 84 84 21 30 180 27 21

Sequence


Ensembl Acc Id: ENSRNOT00000050392   ⟹   ENSRNOP00000050765
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl471,554,835 - 71,568,397 (-)Ensembl
Rnor_6.0 Ensembl471,208,323 - 71,227,872 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000071511   ⟹   ENSRNOP00000066957
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl471,553,704 - 71,568,397 (-)Ensembl
Rnor_6.0 Ensembl472,053,434 - 72,074,683 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000076650   ⟹   ENSRNOP00000068235
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl471,553,704 - 71,568,397 (-)Ensembl
Rnor_6.0 Ensembl471,206,876 - 71,229,575 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000098090   ⟹   ENSRNOP00000096650
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl471,553,704 - 71,568,433 (-)Ensembl
RefSeq Acc Id: XM_063286945   ⟹   XP_063143015
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8472,520,327 - 72,543,150 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001418920 (Get FASTA)   NCBI Sequence Viewer  
  XP_063143015 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000050765.4
  ENSRNOP00000066957.3
  ENSRNOP00000068235.2
  ENSRNOP00000096650.1
Ensembl Acc Id: ENSRNOP00000066957   ⟸   ENSRNOT00000071511
Ensembl Acc Id: ENSRNOP00000068235   ⟸   ENSRNOT00000076650
Ensembl Acc Id: ENSRNOP00000050765   ⟸   ENSRNOT00000050392
Ensembl Acc Id: ENSRNOP00000096650   ⟸   ENSRNOT00000098090
RefSeq Acc Id: XP_063143015   ⟸   XM_063286945
- UniProtKB: M0RBL7 (UniProtKB/TrEMBL)
Protein Domains
Peptidase M60

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0RBL7-F1-model_v2 AlphaFold M0RBL7 1-858 view protein structure
AF-D3ZEW3-F1-model_v2 AlphaFold D3ZEW3 1-919 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:1591778 AgrOrtholog
Ensembl Genes ENSRNOG00000030222 Ensembl
  ENSRNOG00000050703 Ensembl
  ENSRNOG00000066894 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000050392.4 UniProtKB/TrEMBL
  ENSRNOT00000071511.3 UniProtKB/TrEMBL
  ENSRNOT00000076650.3 UniProtKB/TrEMBL
  ENSRNOT00000098090.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.390.30 UniProtKB/TrEMBL
  Peptidase M60, enhancin-like domain 2 UniProtKB/TrEMBL
InterPro Class_I_gatase-like UniProtKB/TrEMBL
  M60-like_N UniProtKB/TrEMBL
  pep_M60_3 UniProtKB/TrEMBL
  Peptidase_M60_dom UniProtKB/TrEMBL
  TCAF UniProtKB/TrEMBL
NCBI Gene Tcaf2c ENTREZGENE
PANTHER EXPERIMENTAL AUTOIMMUNE PROSTATITIS ANTIGEN 2-RELATED UniProtKB/TrEMBL
  TRPM8 CHANNEL-ASSOCIATED FACTOR 2 UniProtKB/TrEMBL
Pfam M60-like UniProtKB/TrEMBL
  M60-like_N UniProtKB/TrEMBL
PhenoGen Tcaf2c PhenoGen
PROSITE PEPTIDASE_M60 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000030222 RatGTEx
  ENSRNOG00000050703 RatGTEx
  ENSRNOG00000066894 RatGTEx
SMART M60-like UniProtKB/TrEMBL
Superfamily-SCOP SSF52317 UniProtKB/TrEMBL
UniProt A0A096MJR7_RAT UniProtKB/TrEMBL
  A0A8I6AM73_RAT UniProtKB/TrEMBL
  D3ZEW3_RAT UniProtKB/TrEMBL
  M0RBL7 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-09-30 Tcaf2c  TRPM8 channel associated factor 2C  Fam115c  family with sequence similarity 115, member C  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-10-10 Fam115c  family with sequence similarity 115, member C  Fam139a  family with sequence similarity 139, member A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-05 Fam139a  family with sequence similarity 139, member A  LOC680422  hypothetical protein LOC680422  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC680422  hypothetical protein LOC680422  RGD1304806_predicted  similar to hypothetical protein MGC7793 (predicted)  Data merged from RGD:1304806 1643240 APPROVED
2006-11-20 LOC680422  hypothetical protein LOC680422      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-01-20 RGD1304806_predicted  similar to hypothetical protein MGC7793 (predicted)  LOC312280_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC312280_predicted  similar to hypothetical protein MGC7793 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL