EuRBPDB

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TCGA tumor abbreviations
  • ACCAdrenocortical carcinoma
  • BLCABladder Urothelial Carcinoma
  • BRCABreast invasive carcinoma
  • CESCCervical squamous cell carcinoma and endocervical adenocarcinoma
  • CHOLCholangio carcinoma
  • COADColon adenocarcinoma
  • DLBCLymphoid Neoplasm Diffuse Large B-cell Lymphoma
  • ESCAEsophageal carcinoma
  • GBMGlioblastoma multiforme
  • HNSCHead and Neck squamous cell carcinoma
  • KICHKidney Chromophobe
  • KIRCKidney renal clear cell carcinoma
  • KIRPKidney renal papillary cell carcinoma
  • LAMLAcute Myeloid Leukemia
  • LGGBrain Lower Grade Glioma
  • LIHCLiver hepatocellular carcinoma
  • LUADLung adenocarcinoma
  • LUSCLung squamous cell carcinoma
  • MESOMesothelioma
  • OVOvarian serous cystadenocarcinoma
  • PAADPancreatic adenocarcinoma
  • PCPGPheochromocytoma and Paraganglioma
  • PRADProstate adenocarcinoma
  • READRectum adenocarcinoma
  • SARCSarcoma
  • SKCMSkin Cutaneous Melanoma
  • STADStomach adenocarcinoma
  • TGCTThyroid carcinoma
  • THCAThyroid carcinoma
  • THYMThymoma
  • UCECUterine Corpus Endometrial Carcinoma
  • UCSUterine Carcinosarcoma
  • UVMUveal Melanoma

Note: Click here to get the extension of tumor abbreviations.


  • Cancer Related Information
  • Basic Information

Cancer associated literatures
PIDTitleArticle TimeAuthorDoi
28002801Effect of 3q oncogenes SEC62 and SOX2 on lymphatic metastasis and clinical outcome of head and neck squamous cell carcinomas.Oncotarget2017 Jan 17Bochen Fdoi: 10.18632/oncotarget.13986.
16547154Genomic and expression analysis of the 3q25-q26 amplification unit reveals TLOC1/SEC62 as a probable target gene in prostate cancer.Mol Cancer Res2006 MarJung V-
24304694Targeting cell migration and the endoplasmic reticulum stress response with calmodulin antagonists: a clinically tested small molecule phenocopy of SEC62 gene silencing in human tumor cells.BMC Cancer2013 Dec 5Linxweiler Mdoi: 10.1186/1471-2407-13-574.
22197383Sec62 bridges the gap from 3q amplification to molecular cell biology in non-small cell lung cancer.Am J Pathol2012 FebLinxweiler Mdoi: 10.1016/j.ajpath.2011.10.039

Expression in 33 cancers

Mutations
CancerChrPosition Mutation TypedbSNPProtein-change Allele FreqRBD
BLCAchr3169988310SilentNAL227L0.2
BLCAchr3169992914Missense_MutationnovelD351N0.27
BLCAchr3169992613SilentnovelL250L0.11
BLCAchr3169976949Missense_MutationnovelS50L0.39
BLCAchr3169976976Nonsense_MutationnovelS59*0.21
BRCAchr3169966829Missense_MutationNAE3K0.26
BRCAchr3169975644Missense_MutationnovelA25T0.24
BRCAchr3169982857Missense_MutationnovelK134N0.16
CESCchr3169992999Missense_Mutationrs748038777C379Y0.06
CESCchr31699666885'FlankNA0.45
CESCchr3169966829Missense_MutationNAE3K0.41
CESCchr31699933263'UTRnovel0.47
COADchr3169982876Frame_Shift_Delrs754536169D144Mfs*580.33
COADchr3169983200Frame_Shift_DelNAK167Nfs*350.06
COADchr3169985860Missense_MutationNAI202N0.18
COADchr3169988357Missense_MutationNAV243A0.37
COADchr3169992833Frame_Shift_InsnovelK324Rfs*230.08
COADchr3169992834Nonsense_MutationnovelV325Kfs*40.08
ESCAchr31699931703'UTRnovel0.11
ESCAchr31699938353'UTRnovel0.16
ESCAchr31699932993'UTRnovel0.08
GBMchr3169977021Missense_MutationNAT74N0.45
HNSCchr3169982812In_Frame_InsnovelK119_E120insTGM0.13
HNSCchr3169985821Missense_MutationnovelY189C0.18
KIRCchr3169976964Missense_MutationnovelC55F0.3
KIRCchr3169993020Missense_MutationnovelE386A0.07
KIRPchr3169988337SilentNAA236A0.27
KIRPchr3169983212Missense_MutationnovelL170V0.31
LAMLchr31699944453'UTRnovel1
LAMLchr3169992867Frame_Shift_InsnovelE338Rfs*90.15
LIHCchr31699664975'Flanknovel0.17
LIHCchr31699666665'Flanknovel0.42
LUADchr3169992806Missense_MutationNAS315R0.27
LUADchr3169975649Missense_MutationNAK26N0.33
LUADchr3169992878Missense_Mutationrs762601555R339W0.13
LUADchr3169976985Missense_MutationnovelA62V0.25
LUSCchr3169982778Missense_MutationnovelK108T0.27
OVchr3169975641Missense_MutationNAV24L0.12
OVchr3169975709Nonsense_MutationnovelY46*0.05
OVchr3169992883Missense_MutationnovelH340Q0.1
OVchr3169975619Missense_MutationnovelE16D0.06
PAADchr3169992985SilentnovelQ374Q0.06
PRADchr3169993061Frame_Shift_Insnovel*400F0.25
PRADchr3169993063Nonstop_Mutationnovel*400Yext*30.25
SARCchr31699965693'UTRnovel0.56
SKCMchr3169992698Missense_MutationNAR279G0.33
SKCMchr3169982736Missense_MutationNAA94V0.09
SKCMchr3169982746SilentNAV97V0.36
STADchr3169992962Missense_MutationNAT367A0.14
THCAchr3169992835Frame_Shift_InsnovelV325Nfs*240.07
THCAchr3169992836Missense_MutationnovelV325L0.02
THCAchr3169976976Missense_MutationnovelS59L0.31
THYMchr31699666165'Flanknovel0.19
UCECchr3169982833Missense_MutationNAK126N0.15
UCECchr3169992918Missense_Mutationrs146483233R352Q0.09
UCECchr3169966839Missense_MutationNAR6K0.55
UCECchr3169983208Missense_MutationNAF168L0.49
UCECchr3169992611Missense_MutationNAL250I0.39
UCECchr31699931203'UTRnovel0.4
UCECchr31699931213'UTRnovel0.4
UCECchr3169976995SilentNAK65K0.28
UCECchr3169982880Missense_MutationnovelK142R0.17
UCECchr31699933163'UTRnovel0.46
UCECchr31699931583'UTRnovel0.15
UCECchr31699938103'UTRnovel0.51
UCECchr31699932063'UTRrs5740961490.32
UCECchr31699962533'UTRnovel0.46
UCECchr3169992655Missense_MutationnovelF264L0.11
UCECchr3169988359Missense_MutationnovelA244S0.35
UCECchr31699666895'Flanknovel0.29
UCECchr31699944453'UTRnovel0.32
UCECchr31699932073'UTRrs1140206080.25
UCECchr3169992698Missense_MutationNAR279G0.1
UCECchr31699937423'UTRnovel0.14

Copy Number Variations (CNVs)
CancerTypeFreq Q-value
BLCAAMP0.44850.0018563
CESCAMP0.74242.3522e-34
ESCAAMP0.64672.8915e-20
KIRCAMP0.12122.0306e-05
KIRPAMP0.32290.15981
LUADAMP0.24221.027e-07
PAADAMP0.13040.16151
PRADAMP0.1242.4906e-06
SARCDEL0.17120.0086757
TGCTAMP0.24677.0307e-05

Survival Analysis
CancerP-value Q-value
KIRC0.00011

Kaplan-Meier Survival Analysis

STAD0.033

Kaplan-Meier Survival Analysis

HNSC0.00082

Kaplan-Meier Survival Analysis

SKCM0.0001

Kaplan-Meier Survival Analysis

PAAD0.033

Kaplan-Meier Survival Analysis

UCEC0.046

Kaplan-Meier Survival Analysis

LGG0.0042

Kaplan-Meier Survival Analysis

OV0.031

Kaplan-Meier Survival Analysis

Drugs

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Eesembl ID



Cell lines and drugs in GSE70138 or GSE92742

  • Description
  • RBPome
  • Expression
  • Transcripts
  • Gene Model
  • Pathways
  • Phenotypes
  • GWAS
  • PPI
  • Orthologs
  • Gene Ontology
Description
Ensembl ID
ENSG00000008952 (Gene tree)
Gene ID
7095
Gene Symbol
SEC62
Alias
Dtrp1|HTP1|TLOC1
Full Name
SEC62 homolog, preprotein translocation factor
Gene Type
protein_coding
Species
Homo_sapiens
Status
putative
Strand
Plus strand
Length
31,739 bases
Position
chr3:169,966,635-169,998,373
Accession
11846
RBP type
non-canonical RBP
Summary
The Sec61 complex is the central component of the protein translocation apparatus of the endoplasmic reticulum (ER) membrane. The protein encoded by this gene and SEC63 protein are found to be associated with ribosome-free SEC61 complex. It is speculated that Sec61-Sec62-Sec63 may perform post-translational protein translocation into the ER. The Sec61-Sec62-Sec63 complex might also perform the backward transport of ER proteins that are subject to the ubiquitin-proteasome-dependent degradation pathway. The encoded protein is an integral membrane protein located in the rough ER. [provided by RefSeq, Jul 2008]
RNA binding proteome (RBPome)
PIDTitleMethod TimeAuthorDoi
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & HEK2932019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & MCF10A2019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
30607034Comprehensive identification of RNA protein interactions in any organism using orthogonal organic phase separation (OOPS)OOPS & U2OS2019 Jan 3Queiroz RMLDOI: 10.1038/s41587-018-0001-2
27453046Comprehensive Identification of RNA-Binding Domains in Human CellsRIC & Hela2016 Aug 18Castello ADOI: 10.1016/j.molcel.2016.06.029
Expression
Transcripts
Transcript IDNameLengthRefSeq ID Protein IDLengthRefSeq IDUniportKB ID
ENST00000481435SEC62-208627--- (aa)--
ENST00000461933SEC62-203363--- (aa)--
ENST00000470355SEC62-206370--- (aa)--
ENST00000469515SEC62-204785-ENSP00000418342101 (aa)-F8WCJ7
ENST00000480708SEC62-2071430-ENSP00000420331399 (aa)-Q99442
ENST00000460513SEC62-202641-ENSP0000041931985 (aa)-F8WF48
ENST00000497277SEC62-210525--- (aa)--
ENST00000469890SEC62-205822--- (aa)--
ENST00000337002SEC62-2016568XM_011513114ENSP00000337688399 (aa)XP_011511416Q99442
ENST00000487736SEC62-209508-ENSP0000042030447 (aa)-F8WDG8
Gene Model
Click here to download ENSG00000008952's gene model file
Pathways
Pathway IDPathway NameSource
hsa03060Protein exportKEGG
hsa04141Protein processing in endoplasmic reticulumKEGG
Phenotypes
ensgIDTraitpValuePubmed ID
ENSG00000008952Blood Pressure1.1010000E-005-
ENSG00000008952Emotions2E-627089181
GWAS
ensgIDSNPChromosomePositionSNP-risk TraitPubmedID95% CIOr or BEAT EFO ID
ENSG00000008952rs172173703169990503ASubjective well-being27089181[0.18-0.43] unit increase0.30127034EFO_0007869
Protein-Protein Interaction (PPI)

Clik here to download ENSG00000008952's network

* RBP PPI network refers to all genes directly bind to RBP
Orthologs identified by RBPome
Ensembl IDGene SymbolCoverageIdentiy OrthologGene SymbolCoverageIdentiy Species
ENSG00000008952SEC629997.619ENSMUSG00000027706Sec6210092.481Mus_musculus
Gene Ontology
Go IDGo_termPubmedIDEvidenceCategory
GO:0005783endoplasmic reticulum21873635.IBAComponent
GO:0005789endoplasmic reticulum membrane-TASComponent
GO:0005791rough endoplasmic reticulum-ISSComponent
GO:0005829cytosol-TASComponent
GO:0006613cotranslational protein targeting to membrane9020021.TASProcess
GO:0006620posttranslational protein targeting to endoplasmic reticulum membrane22375059.IMPProcess
GO:0008565protein transporter activity21873635.IBAFunction
GO:0016020membrane21873635.IBAComponent
GO:0016020membrane22375059.IDAComponent
GO:0016021integral component of membrane9020021.TASComponent
GO:0030176integral component of endoplasmic reticulum membrane-IEAComponent
GO:0031204posttranslational protein targeting to membrane, translocation21873635.IBAProcess
GO:0031204posttranslational protein targeting to membrane, translocation29719251.IMPProcess
GO:0038023signaling receptor activity9020021.TASFunction
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