Tmem30c (transmembrane protein 30C) - Rat Genome Database

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Gene: Tmem30c (transmembrane protein 30C) Mus musculus
Analyze
Symbol: Tmem30c
Name: transmembrane protein 30C
RGD ID: 1314507
MGI Page MGI
Description: Predicted to be involved in phospholipid translocation. Predicted to be located in membrane. Predicted to be active in Golgi apparatus; endoplasmic reticulum; and plasma membrane. Orthologous to human TMEM30CP (transmembrane protein 30C, pseudogene).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 4933401B01Rik; 4933409A18Rik; Cdc50c; cell cycle control protein 50C
RGD Orthologs
Human
Rat
Dog
Pig
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
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
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. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
2. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:15618518   PMID:16141072   PMID:16141073   PMID:17928922   PMID:21873635   PMID:29617656  


Genomics

Comparative Map Data
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
TMEM30CP
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383100,185,824 - 100,194,186 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl3100,185,687 - 100,211,766 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p14 Ensembl3100,185,824 - 100,194,191 (+)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 Map3q12.1NCBI
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
(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
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
1061 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:402
Count of miRNA genes:269
Interacting mature miRNAs:296
Transcripts:ENSMUST00000023434, ENSMUST00000119407, ENSMUST00000120112
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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
27226785Feml12_mfemur length 12, 5 week (mouse)16331786464620363Mouse
26884432Zlq7_mzygomatic length QTL 7, 10 week (mouse)16381786464620363Mouse
1357763Lp1_mlymphocyte proliferation 1 (mouse)Not determined16654297965466552Mouse
26884376Skwq4_mskull length QTL 4, 5 week (mouse)16841786490896888Mouse
1357517Bwtn1_mbody weight at necropsy 1 (mouse)Not determined162001932985600826Mouse
4141179Ipng3_mimprinted postnatal growth 3 (mouse)Not determined2277525257594076Mouse
11059559Lmr12a_mleishmaniasis resistance 12a (mouse)162879281362792952Mouse
11059560Lmr12b_mleishmaniasis resistance 12b (mouse)162879281362792952Mouse
11049571Lmr12c_mleishmaniasis resistance 12c (mouse)162879281362792952Mouse
1300915Lmr12_mleishmaniasis resistance 12 (mouse)Not determined162879281362792952Mouse
1301070Cypr1_mcytokine production 1 (mouse)Not determined163231279566312933Mouse
4142187Arrd3_mage-related retinal degeneration 3 (mouse)Not determined3252290965466552Mouse
1302096Aod1a_mautoimmune ovarian dysgenesis 1a (mouse)Not determined163544664392573008Mouse
26884416Bzwq5_mbi-zygomatic width QTL 5, 5 week (mouse)163732036284696888Mouse
4142112Skts-fp3_mskin tumor susceptibility in FVB and PWK 3 (mouse)Not determined164005388172924385Mouse
11522747Eae41_mexperimental allergic encephalomyelitis susceptibility 41 (mouse)164039913478015472Mouse
1301138Pcd4ts3_mp-glycoprotein positive CD4 T cell subset 3 (mouse)Not determined164059392374594076Mouse
1357778Diobq_mdiet-induced obesity QTL (mouse)Not determined164219781782331174Mouse
4141212Imraq3_mimmune response to AAV2 QTL 3 (mouse)Not determined164438335078383506Mouse
1301719Remslp3_mrapid eye movement sleep 3 (mouse)Not determined164438335078383506Mouse
1558836Dice1b_mdetermination of interleukin 4 commitment 1b (mouse)Not determined164551100072274485Mouse
14928310Manh80_mmandible shape 80 (mouse)164821984182219841Mouse
1301394Eae11_msusceptibility to experimental allergic encephalomyelitis 11 (mouse)Not determined165356189187562035Mouse
14696806Smcl1_msmoke-mediated chord length 1 (mouse)165401530958330871Mouse
1301364Lith14_mlithogenic gene 14 (mouse)Not determined165566184689661961Mouse

Markers in Region
D11Bhm20  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map7F1UniSTS
Cytogenetic Map5E2UniSTS
Cytogenetic Map1C3UniSTS
Cytogenetic Map17A3.3UniSTS
Cytogenetic Map19D1UniSTS
Cytogenetic Map13A2-A3UniSTS
Cytogenetic Map11A1UniSTS
Cytogenetic Map5C1UniSTS
Cytogenetic Map12D1UniSTS
Cytogenetic Map8E1UniSTS
Cytogenetic Map4D1UniSTS
Cytogenetic Map7B4UniSTS
Cytogenetic Map3F1UniSTS
Cytogenetic Map7A1UniSTS
Cytogenetic Map4E1UniSTS
Cytogenetic Map10B4UniSTS
Cytogenetic Map2E5UniSTS
Cytogenetic Map14BUniSTS
Cytogenetic Map10C1UniSTS
Cytogenetic Map19C2UniSTS
Cytogenetic Map7A3UniSTS
Cytogenetic Map16C1.1UniSTS
Cytogenetic Map3BUniSTS
Cytogenetic Map13B3UniSTS
Cytogenetic Map15F1UniSTS
Cytogenetic Map5B1UniSTS
Cytogenetic Map2E2UniSTS
Cytogenetic Map8B3.3UniSTS
Cytogenetic Map6F3UniSTS
Cytogenetic Map4C7UniSTS
Cytogenetic Map12F1UniSTS
Cytogenetic Map10A3UniSTS
Cytogenetic Map14D2UniSTS
Cytogenetic Map6A3.3UniSTS
Cytogenetic Map6G3UniSTS
Cytogenetic Map9F2UniSTS
Cytogenetic Map11E2UniSTS
Cytogenetic Map1C1.3UniSTS
Cytogenetic Map13D2UniSTS
Cytogenetic Map11CUniSTS
Cytogenetic Map17B1UniSTS
Cytogenetic Map18B3UniSTS
Cytogenetic Map4E2UniSTS
Cytogenetic MapXA5UniSTS
Cytogenetic Map6A2UniSTS
Cytogenetic Map2H4UniSTS
Cytogenetic Map5FUniSTS
Cytogenetic Map11E1UniSTS
Cytogenetic Map16C4UniSTS
Cytogenetic Map3G1UniSTS
Cytogenetic Map8D2UniSTS
Cytogenetic Map2H2UniSTS
Cytogenetic Map11B5UniSTS
Cytogenetic Map4D3UniSTS
Cytogenetic Map12C3UniSTS
Cytogenetic Map7B1-B2UniSTS
Cytogenetic Map4D2.2UniSTS
Cytogenetic Map11B1.1UniSTS
Cytogenetic Map15B3.1UniSTS
Cytogenetic Map8D3UniSTS
Cytogenetic Map10D2UniSTS
Cytogenetic Map15E3UniSTS
Cytogenetic Map2H1UniSTS
Cytogenetic Map7E3UniSTS
Cytogenetic Map4D2.3UniSTS
Cytogenetic Map10D3UniSTS
Cytogenetic Map12EUniSTS
Cytogenetic Map5G2UniSTS
Cytogenetic Map1H6UniSTS
Cytogenetic Map16A1UniSTS
Cytogenetic Map2A3UniSTS
Cytogenetic Map9A5.2UniSTS
Cytogenetic Map3DUniSTS
Cytogenetic Map6B1UniSTS
Cytogenetic MapXC-DUniSTS
Cytogenetic Map13B1UniSTS
Cytogenetic Map11A3.2UniSTS
Cytogenetic Map8C3UniSTS
Cytogenetic MapXA7.3UniSTS
Cytogenetic Map12A1.1UniSTS
Cytogenetic Map16B4UniSTS
Cytogenetic Map4B3UniSTS
Cytogenetic Map5E5UniSTS
Cytogenetic Map19BUniSTS
cM Map1144.15UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000023434   ⟹   ENSMUSP00000023434
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1657,086,773 - 57,113,214 (-)Ensembl
GRCm38.p6 Ensembl1657,266,410 - 57,292,851 (-)Ensembl
RefSeq Acc Id: ENSMUST00000119407   ⟹   ENSMUSP00000112989
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1657,086,502 - 57,113,228 (-)Ensembl
GRCm38.p6 Ensembl1657,266,139 - 57,292,865 (-)Ensembl
RefSeq Acc Id: ENSMUST00000120112   ⟹   ENSMUSP00000113896
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1657,089,672 - 57,113,214 (-)Ensembl
GRCm38.p6 Ensembl1657,269,309 - 57,292,851 (-)Ensembl
RefSeq Acc Id: NM_027651   ⟹   NP_081927
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391657,086,502 - 57,113,214 (-)NCBI
GRCm381657,266,139 - 57,292,851 (-)NCBI
MGSCv371657,266,252 - 57,292,964 (-)RGD
Celera1657,592,517 - 57,619,145 (-)RGD
cM Map16 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_011246012   ⟹   XP_011244314
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391657,086,753 - 57,118,317 (-)NCBI
GRCm381657,266,390 - 57,293,184 (-)NCBI
Sequence:
RefSeq Acc Id: XM_011246014   ⟹   XP_011244316
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391657,086,753 - 57,118,317 (-)NCBI
GRCm381657,266,390 - 57,293,184 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017317134   ⟹   XP_017172623
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391657,086,753 - 57,118,317 (-)NCBI
GRCm381657,266,390 - 57,293,185 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030249283   ⟹   XP_030105143
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391657,086,753 - 57,122,185 (-)NCBI
GRCm381657,266,390 - 57,301,904 (-)NCBI
Sequence:
RefSeq Acc Id: XM_030249284   ⟹   XP_030105144
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391657,086,753 - 57,114,337 (-)NCBI
GRCm381657,266,390 - 57,293,181 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_081927   ⟸   NM_027651
- UniProtKB: A9C447 (UniProtKB/Swiss-Prot),   Q9D4D7 (UniProtKB/Swiss-Prot),   A9C448 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011244314   ⟸   XM_011246012
- Peptide Label: isoform X1
- UniProtKB: A9C447 (UniProtKB/Swiss-Prot),   Q9D4D7 (UniProtKB/Swiss-Prot),   A9C448 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_011244316   ⟸   XM_011246014
- Peptide Label: isoform X1
- UniProtKB: A9C447 (UniProtKB/Swiss-Prot),   Q9D4D7 (UniProtKB/Swiss-Prot),   A9C448 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017172623   ⟸   XM_017317134
- Peptide Label: isoform X2
- UniProtKB: A9C448 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_030105143   ⟸   XM_030249283
- Peptide Label: isoform X3
RefSeq Acc Id: XP_030105144   ⟸   XM_030249284
- Peptide Label: isoform X4
RefSeq Acc Id: ENSMUSP00000112989   ⟸   ENSMUST00000119407
RefSeq Acc Id: ENSMUSP00000113896   ⟸   ENSMUST00000120112
RefSeq Acc Id: ENSMUSP00000023434   ⟸   ENSMUST00000023434

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9D4D7-F1-model_v2 AlphaFold Q9D4D7 1-342 view protein structure

Promoters
RGD ID:8686404
Promoter ID:EPDNEW_M21232
Type:multiple initiation site
Name:Tmem30c_1
Description:Mus musculus transmembrane protein 30C , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381657,292,851 - 57,292,911EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1918277 AgrOrtholog
Ensembl Genes ENSMUSG00000022753 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000023434.15 UniProtKB/Swiss-Prot
  ENSMUST00000119407 ENTREZGENE
  ENSMUST00000119407.8 UniProtKB/Swiss-Prot
  ENSMUST00000120112.2 UniProtKB/TrEMBL
InterPro CDC50/LEM3_fam UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:71027 UniProtKB/Swiss-Prot
MGD MGI:1918277 ENTREZGENE
NCBI Gene 71027 ENTREZGENE
PANTHER PTHR10926 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR10926:SF1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CDC50 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tmem30c PhenoGen
PIRSF DUF284_TM_euk UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A9C447 ENTREZGENE
  A9C448 ENTREZGENE, UniProtKB/TrEMBL
  CC50C_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A9C447 UniProtKB/Swiss-Prot