Tmem30c (transmembrane protein 30C) - Rat Genome Database

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Gene: Tmem30c (transmembrane protein 30C) Rattus norvegicus
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Symbol: Tmem30c
Name: transmembrane protein 30C
RGD ID: 1306090
Description: Predicted to be involved in phospholipid translocation. Predicted to be active in Golgi apparatus; endoplasmic reticulum; and plasma membrane. Orthologous to human TMEM30CP (transmembrane protein 30C, pseudogene); INTERACTS WITH bisphenol A; glyphosate; trichloroethene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: cell cycle control protein 50C; LOC288175; RGD1306090; similar to hypothetical protein FLJ10856
RGD Orthologs
Human
Mouse
Dog
Pig
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81156,708,788 - 56,727,633 (+)NCBIGRCr8
mRatBN7.21143,239,661 - 43,258,506 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1143,241,508 - 43,258,427 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1151,995,893 - 52,014,701 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01144,657,494 - 44,676,304 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01143,786,093 - 43,804,896 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01145,337,502 - 45,356,495 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1145,339,366 - 45,356,473 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01148,533,059 - 48,552,064 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41144,075,646 - 44,094,851 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11144,135,106 - 44,152,275 (+)NCBI
Celera1143,033,923 - 43,052,609 (+)NCBICelera
Cytogenetic Map11q12NCBI
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

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

Genomics

Comparative Map Data
Tmem30c
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81156,708,788 - 56,727,633 (+)NCBIGRCr8
mRatBN7.21143,239,661 - 43,258,506 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1143,241,508 - 43,258,427 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1151,995,893 - 52,014,701 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01144,657,494 - 44,676,304 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01143,786,093 - 43,804,896 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01145,337,502 - 45,356,495 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1145,339,366 - 45,356,473 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01148,533,059 - 48,552,064 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41144,075,646 - 44,094,851 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11144,135,106 - 44,152,275 (+)NCBI
Celera1143,033,923 - 43,052,609 (+)NCBICelera
Cytogenetic Map11q12NCBI
TMEM30CP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383100,185,824 - 100,194,186 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3100,185,824 - 100,194,191 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p14 Ensembl3100,185,687 - 100,211,766 (+)EnsemblGRCh38hg38GRCh38
GRCh37399,904,668 - 99,913,030 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 363101,387,221 - 101,395,784 (+)NCBINCBI36Build 36hg18NCBI36
Celera398,295,272 - 98,303,634 (+)NCBICelera
Cytogenetic Map3q12NCBI
HuRef397,272,830 - 97,281,194 (+)NCBIHuRef
CHM1_1399,867,723 - 99,876,085 (+)NCBICHM1_1
T2T-CHM13v2.03102,891,160 - 102,899,523 (+)NCBIT2T-CHM13v2.0
Tmem30c
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391657,086,502 - 57,122,185 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1657,086,502 - 57,113,228 (-)EnsemblGRCm39 Ensembl
GRCm381657,266,139 - 57,301,904 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1657,266,139 - 57,292,865 (-)EnsemblGRCm38mm10GRCm38
MGSCv371657,266,252 - 57,292,964 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361657,187,497 - 57,214,223 (-)NCBIMGSCv36mm8
Celera1657,592,517 - 57,619,145 (-)NCBICelera
Cytogenetic Map16C1.1NCBI
cM Map1634.22NCBI
TMEM30C
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1336,819,549 - 6,844,240 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha336,975,121 - 6,999,809 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0336,958,100 - 6,982,786 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl336,958,346 - 6,982,784 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1336,846,239 - 6,870,794 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0336,894,040 - 6,918,621 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0337,223,993 - 7,248,554 (+)NCBIUU_Cfam_GSD_1.0
TMEM30C
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.113158,767,127 - 158,789,384 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213168,330,321 - 168,380,355 (+)NCBISscrofa10.2Sscrofa10.2susScr3

Variants

.
Variants in Tmem30c
88 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:111
Count of miRNA genes:95
Interacting mature miRNAs:98
Transcripts:ENSRNOT00000002241
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
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724517Uae18Urinary albumin excretion QTL 183.7urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)111647204744285911Rat
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)112952841860324829Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat


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 39
Low 48 51 6 6 160 6 30 24 6
Below cutoff 17 87 117 87 18 87 25 31 90 98 70 31 15

Sequence


Ensembl Acc Id: ENSRNOT00000002241   ⟹   ENSRNOP00000002241
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1143,241,508 - 43,258,427 (+)Ensembl
Rnor_6.0 Ensembl1145,339,366 - 45,356,473 (+)Ensembl
RefSeq Acc Id: NM_001105889   ⟹   NP_001099359
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81156,708,788 - 56,727,554 (+)NCBI
mRatBN7.21143,239,661 - 43,258,427 (+)NCBI
Rnor_6.01145,337,518 - 45,356,425 (+)NCBI
Rnor_5.01148,533,059 - 48,552,064 (+)NCBI
RGSC_v3.41144,075,646 - 44,094,851 (+)RGD
Celera1143,033,923 - 43,052,609 (+)RGD
Sequence:
RefSeq Acc Id: XM_008768632   ⟹   XP_008766854
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81156,708,801 - 56,727,633 (+)NCBI
mRatBN7.21143,239,772 - 43,258,506 (+)NCBI
Rnor_6.01145,337,679 - 45,356,495 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001099359 (Get FASTA)   NCBI Sequence Viewer  
  XP_008766854 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM11030 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000002241.4
RefSeq Acc Id: NP_001099359   ⟸   NM_001105889
- UniProtKB: D4AAH8 (UniProtKB/TrEMBL),   A6IQM7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008766854   ⟸   XM_008768632
- Peptide Label: isoform X1
- UniProtKB: D4AAH8 (UniProtKB/TrEMBL),   A6IQM7 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000002241   ⟸   ENSRNOT00000002241

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AAH8-F1-model_v2 AlphaFold D4AAH8 1-342 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:1306090 AgrOrtholog
BioCyc Gene G2FUF-21544 BioCyc
Ensembl Genes ENSRNOG00000001644 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000002241.7 UniProtKB/TrEMBL
InterPro DUF284_TM_euk UniProtKB/TrEMBL
KEGG Report rno:288175 UniProtKB/TrEMBL
NCBI Gene 288175 ENTREZGENE
PANTHER DUF284_TM_euk UniProtKB/TrEMBL
  PTHR10926:SF1 UniProtKB/TrEMBL
Pfam CDC50 UniProtKB/TrEMBL
PhenoGen Tmem30c PhenoGen
PIRSF DUF284_TM_euk UniProtKB/TrEMBL
RatGTEx ENSRNOG00000001644 RatGTEx
UniProt A6IQM7 ENTREZGENE, UniProtKB/TrEMBL
  D4AAH8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-07 Tmem30c  transmembrane protein 30C  RGD1306090_predicted  similar to hypothetical protein FLJ10856 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1306090_predicted  similar to hypothetical protein FLJ10856 (predicted)  LOC288175_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC288175_predicted  similar to hypothetical protein FLJ10856 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL