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

Differential Expression

Expression in 33 cancers

Mutations
CancerChrPosition Mutation TypedbSNPProtein-change Allele FreqRBD
ACCchr5177489509SilentnovelT251T0.5
BLCAchr5177483876Silentrs143980931F426F0.54
BLCAchr5177483712Missense_MutationNAE436Q0.17
BRCAchr5177483944Missense_MutationNAD404H0.2
BRCAchr5177496432SilentNAP27P0.38
BRCAchr5177483977Missense_MutationNAE393Q0.31
BRCAchr5177490552Intronnovel0.28
CESCchr5177490331Intronnovel0.4
CESCchr5177488102Missense_MutationnovelP339L0.3
CESCchr5177490892Missense_MutationNAE184K0.49
CESCchr5177491016Missense_Mutationrs376862538E177K0.47
COADchr5177483960Silentrs775765511T398T0.32
COADchr5177488057Intronnovel0.3
COADchr5177483961Missense_Mutationrs550156356T398M0.39
COADchr51774835753'UTRnovel0.36
COADchr5177491895Missense_MutationNAY104N0.44
COADchr5177491076Missense_MutationNAP157S0.08
COADchr5177496455Missense_MutationNAG20W0.29
COADchr5177488144Missense_MutationNAG325V0.2
COADchr5177488209SilentNAP303P0.24
COADchr5177492420SilentNAQ88Q0.2
COADchr51774836213'UTRrs3709653180.33
COADchr5177490500Intronrs7796654970.22
COADchr5177496463Missense_MutationNAR17Q0.23
COADchr5177483876Silentrs143980931F426F0.28
COADchr5177483960Silentrs775765511T398T0.13
COADchr5177484072Missense_Mutationrs535394998R390Q0.48
COADchr5177489886IntronNA0.23
ESCAchr5177483723Missense_MutationnovelQ432P0.83
ESCAchr5177491058Nonsense_Mutationrs748660598Q163*0.19
GBMchr51774836153'UTRnovel0.53
HNSCchr5177489444Frame_Shift_DelNAG273Afs*840.3
HNSCchr5177487978Intronnovel0.3
HNSCchr5177483983Splice_SitenovelX391_splice0.1
KIRCchr5177490544Intronnovel0.27
LGGchr5177491074Silentrs145886743P157P0.35
LIHCchr5177490398Intronnovel0.67
LIHCchr5177483710SilentnovelE436E0.03
LIHCchr5177489600Missense_MutationNAR221H0.34
LUADchr5177491101SilentnovelL148L0.08
LUADchr5177496489SilentNAL8L0.42
LUADchr5177492547Missense_MutationnovelR76L0.23
LUADchr5177489489Missense_MutationnovelR258L0.21
LUADchr5177488217Missense_MutationNAY301N0.58
LUSCchr5177489533SilentnovelL243L0.44
LUSCchr5177484112SilentNAR377R0.59
LUSCchr5177492523Splice_Regionnovel0.66
MESOchr5177491878Missense_MutationnovelS109R0.16
OVchr5177484189Missense_MutationnovelE351G0.13
OVchr5177488180Missense_MutationnovelK313R0.38
OVchr5177484117Missense_MutationnovelR375Q0.43
OVchr5177488056Intronnovel0.18
OVchr5177488091Missense_MutationnovelK343Q0.33
OVchr5177489809Missense_MutationNAP199R0.2
PRADchr5177484073Nonsense_MutationnovelR390*0.34
READchr5177483960Silentrs775765511T398T0.23
SKCMchr5177483915SilentnovelF413F0.26
SKCMchr5177484119SilentnovelI374I0.34
SKCMchr5177487980Intronnovel0.39
SKCMchr5177487998Intronnovel0.73
STADchr5177490891Missense_MutationNAE184A0.22
STADchr5177492647Missense_Mutationrs753547502G43R0.33
STADchr5177492611Missense_MutationnovelG55S0.7
STADchr5177484089Silentrs371472586G384G0.26
STADchr5177492638Missense_MutationNAV46M0.44
STADchr5177488117Missense_MutationNAD334G0.41
STADchr5177484089Silentrs371472586G384G0.34
STADchr5177489470SilentnovelA264A0.58
UCECchr5177490390Intronnovel0.29
UCECchr5177484178Missense_MutationNAA355T0.5
UCECchr5177490480Intronrs7569907170.36
UCECchr5177491035SilentnovelL170L0.27
UCECchr5177490303Intronnovel0.4
UCECchr5177488111Missense_Mutationrs776416794R336H0.33
UCECchr5177488068Splice_Regionrs145315539G350G0.14
UCECchr5177483890Missense_MutationNAH422Y0.47
UCECchr5177491092SilentnovelN151N0.45
UCECchr5177483897Silentrs757905078F419F0.21
UCECchr5177490454Intronnovel0.1
UCECchr5177490501Intronrs7465361100.44
UCECchr5177483728Splice_RegionnovelI430I0.33
UCECchr5177483905Missense_MutationnovelL417M0.45
UCECchr5177490868Splice_SiteNAX191_splice0.36
UCECchr5177490890Missense_MutationnovelE184D0.43
UCECchr5177490394Intronnovel0.17
UCECchr5177492582Silentrs755797490I64I0.11
UCECchr5177490878Missense_MutationnovelK188N0.2
UCECchr5177488112Missense_Mutationrs201493898R336C0.28
UCECchr51774836113'UTRnovel0.33
UCECchr5177490395Intronnovel0.28
UCECchr5177483876Silentrs143980931F426F0.32
UCECchr5177488111Missense_Mutationrs776416794R336H0.49
UCECchr5177484136Missense_MutationnovelA369T0.19

Copy Number Variations (CNVs)
CancerTypeFreq Q-value
KIRCAMP0.59092.1944e-60
KIRPAMP0.11110.069756
KIRPDEL0.03820.11554
LUADAMP0.17440.24967
LUSCDEL0.59280.002071
MESODEL0.11490.20184
PRADAMP0.03050.16448
SKCMAMP0.11990.23703
THCADEL00.23456

Survival Analysis
CancerP-value Q-value
KIRC0.00012

Kaplan-Meier Survival Analysis

STAD0.015

Kaplan-Meier Survival Analysis

SARC0.0071

Kaplan-Meier Survival Analysis

MESO0.00019

Kaplan-Meier Survival Analysis

ACC0.00021

Kaplan-Meier Survival Analysis

UCS0.014

Kaplan-Meier Survival Analysis

HNSC0.021

Kaplan-Meier Survival Analysis

SKCM0.0057

Kaplan-Meier Survival Analysis

LUSC0.038

Kaplan-Meier Survival Analysis

ESCA0.0083

Kaplan-Meier Survival Analysis

KIRP0.00014

Kaplan-Meier Survival Analysis

COAD0.0098

Kaplan-Meier Survival Analysis

BLCA0.042

Kaplan-Meier Survival Analysis

LAML0.0001

Kaplan-Meier Survival Analysis

UCEC0.0011

Kaplan-Meier Survival Analysis

LIHC0.015

Kaplan-Meier Survival Analysis

LGG0.00011

Kaplan-Meier Survival Analysis

LUAD0.0047

Kaplan-Meier Survival Analysis

UVM0.0093

Kaplan-Meier Survival Analysis

Drugs

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Eesembl ID



Cell lines and drugs in GSE70138 or GSE92742

  • Description
  • RBPome
  • Literatures
  • Expression
  • Transcripts
  • Gene Model
  • PPI
  • Gene Ontology
Description
Ensembl ID
ENSG00000196923 (Gene tree)
Gene ID
9260
Gene Symbol
PDLIM7
Alias
ENIGMA
Full Name
PDZ and LIM domain 7
Gene Type
protein_coding
Species
Homo_sapiens
Status
confidence
Strand
Minus strand
Length
14,226 bases
Position
chr5:177,483,394-177,497,619
Accession
22958
RBP type
non-canonical RBP
Summary
The protein encoded by this gene is representative of a family of proteins composed of conserved PDZ and LIM domains. LIM domains are proposed to function in protein-protein recognition in a variety of contexts including gene transcription and development and in cytoskeletal interaction. The LIM domains of this protein bind to protein kinases, whereas the PDZ domain binds to actin filaments. The gene product is involved in the assembly of an actin filament-associated complex essential for transmission of ret/ptc2 mitogenic signaling. The biological function is likely to be that of an adapter, with the PDZ domain localizing the LIM-binding proteins to actin filaments of both skeletal muscle and nonmuscle tissues. Alternative splicing of this gene results in multiple transcript variants. [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

Literatures on RNA binding capacity
PIDTitleArticle TimeAuthorDoi
31026779Deciphering the three-domain architecture in schlafens and the structures and roles of human schlafen12 and serpinB12 in transcriptional regulation.J Mol Graph Model2019 JulChen Jdoi: 10.1016/j.jmgm.2019.04.003
11689659Functional cooperation of Epstein-Barr virus nuclear antigen 2 and the survival motor neuron protein in transactivation of the viral LMP1 promoter.J Virol2001 DecVoss MD-
Expression
Transcripts
Transcript IDNameLengthRefSeq ID Protein IDLengthRefSeq IDUniportKB ID
ENST00000503346PDLIM7-209669--- (aa)--
ENST00000355572PDLIM7-201977-ENSP00000347776222 (aa)-Q9NR12
ENST00000505074PDLIM7-213931-ENSP00000426213287 (aa)-D6RH06
ENST00000503827PDLIM7-210451-ENSP00000422363120 (aa)-H0Y8W6
ENST00000506537PDLIM7-216636-ENSP0000042166490 (aa)-D6RAN1
ENST00000486828PDLIM7-2071904-ENSP00000439157191 (aa)-Q9NR12
ENST00000504318PDLIM7-211597--- (aa)--
ENST00000393551PDLIM7-2051226-ENSP00000377182287 (aa)-Q9NR12
ENST00000463411PDLIM7-2061015--- (aa)--
ENST00000504380PDLIM7-212556--- (aa)--
ENST00000393546PDLIM7-204671-ENSP00000377177195 (aa)-H7BYK4
ENST00000506161PDLIM7-215759-ENSP00000424850173 (aa)-D6RF83
ENST00000493815PDLIM7-2081686-ENSP00000431236153 (aa)-Q9NR12
ENST00000359895PDLIM7-2031567-ENSP00000352964423 (aa)-Q9NR12
ENST00000355841PDLIM7-2021689XM_011534698ENSP00000348099457 (aa)XP_011533000Q9NR12
ENST00000505746PDLIM7-214405--- (aa)--
Gene Model
Click here to download ENSG00000196923's gene model file
Protein-Protein Interaction (PPI)

Clik here to download ENSG00000196923's network

* RBP PPI network refers to all genes directly bind to RBP
Gene Ontology
Go IDGo_termPubmedIDEvidenceCategory
GO:0001503ossification-IEAProcess
GO:0001725stress fiber-IEAComponent
GO:0001726ruffle-IEAComponent
GO:0005515protein binding16189514.16713569.23088713.25036637.25416956.IPIFunction
GO:0005634nucleus-IDAComponent
GO:0005829cytosol-TASComponent
GO:0005913cell-cell adherens junction25468996.IDAComponent
GO:0005925focal adhesion-IDAComponent
GO:0006898receptor-mediated endocytosis7929196.TASProcess
GO:0007411axon guidance-TASProcess
GO:0015629actin cytoskeleton-IDAComponent
GO:0030036actin cytoskeleton organization-IEAProcess
GO:0045669positive regulation of osteoblast differentiation-IEAProcess
GO:0046872metal ion binding-IEAFunction
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