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
27352326Association Between the LIG1 Polymorphisms and Lung Cancer Risk: A Meta-analysis of Case-Control Studies.Cell Biochem Biophys2015 NovLi Ddoi: 10.1007/s12013-015-0619-3.
24084463Human DNA ligase i (ligi) gene and risk of cervical cancer in North Indian women.Exp Oncol2013 SepKaur S-
26125914Relationship between genetic polymorphisms of DNA ligase 1 and non-small cell lung cancer susceptibility and radiosensitivity.Genet Mol Res2015 Jun 26Tian Hdoi: 10.4238/2015.June.26.14.

Differential Expression

Expression in 33 cancers

Mutations
CancerChrPosition Mutation TypedbSNPProtein-change Allele FreqRBD
BLCAchr1948137571Missense_MutationNAS402F0.57
BLCAchr1948139993Silentrs763944587L355L0.18
BLCAchr1948157065Missense_MutationNAD107N0.12
BLCAchr1948121007Intronnovel0.09
BLCAchr1948143914Missense_Mutationrs373988317V276M0.43
BLCAchr1948150085Splice_Regionnovel0.13
BLCAchr1948127279Missense_MutationnovelE668Q0.43
BLCAchr1948139968Splice_Regionnovel0.4
BLCAchr1948143892Missense_Mutationrs574879811P283L0.18
BRCAchr1948140059SilentNAL333L0.24
BRCAchr1948153970Splice_Regionnovel0.34
BRCAchr1948117659Missense_MutationNAI854M0.28
BRCAchr1948137724IntronNA0.18
BRCAchr1948143575SilentnovelR294R0.08
BRCAchr1948137534SilentNAL414L0.19
BRCAchr1948127994SilentNAF616F0.43
BRCAchr1948137666SilentNAR370R0.14
BRCAchr1948149788Missense_MutationNAP251A0.44
CESCchr1948150124Missense_MutationNAP221S0.22
CESCchr1948115671Missense_MutationnovelS913C0.33
CESCchr1948133012Silentrs189517194C565C0.22
CESCchr1948140085Missense_MutationnovelP325S0.15
CESCchr1948127942Missense_MutationNAP634S0.44
CESCchr1948134065Missense_MutationnovelE509K0.49
CESCchr1948115929Missense_MutationNAR874W0.49
CESCchr1948121243Missense_MutationnovelR771Q0.18
CESCchr1948134059Missense_MutationnovelP511S0.07
COADchr1948140068SilentNAV330V0.43
COADchr1948157138Missense_MutationNAK82N0.37
COADchr1948122967Silentrs142775724Y733Y0.16
COADchr1948151368Intronnovel0.69
COADchr1948153881Missense_MutationNAE153K0.44
COADchr1948137608Nonsense_MutationNAQ390*0.13
COADchr1948149822SilentNAV239V0.3
COADchr1948131166Silentrs760499416H577H0.25
COADchr1948150121Missense_Mutationrs750475498R222C0.31
COADchr1948121265Missense_Mutationrs368406296A764T0.39
COADchr1948140013Missense_Mutationrs3730947V349M0.34
COADchr1948154049Intronnovel0.41
COADchr1948121051Intronnovel0.19
COADchr1948137687Splice_RegionnovelG363G0.18
COADchr1948140126Missense_Mutationrs779134053T311M0.38
COADchr1948161370Splice_SitenovelX81_splice0.25
COADchr1948135701Missense_MutationnovelM501T0.3
COADchr1948133011Missense_Mutationrs121434560E566K0.28
COADchr1948115920Nonsense_Mutationrs760305891R877*0.16
COADchr1948153917Missense_MutationNAS141G0.17
COADchr1948151367Intronnovel0.29
COADchr1948153916Missense_MutationnovelS141N0.35
COADchr1948131154Silentrs745572723G581G0.25
COADchr1948137738Intronnovel0.36
ESCAchr1948127301Silentrs774839059F660F0.51
GBMchr1948117703Missense_Mutationrs780457620A840T0.3
GBMchr1948122967Silentrs142775724Y733Y0.43
GBMchr1948127976Silentrs375967541A622A0.21
GBMchr1948133011Missense_Mutationrs121434560E566K0.44
GBMchr1948121129Intronnovel0.21
GBMchr19481656095'UTRrs3681003090.04
HNSCchr1948117709Missense_MutationnovelP838S0.28
HNSCchr1948151258Missense_Mutationrs564476088T183M0.23
HNSCchr1948153996Intronnovel0.27
HNSCchr1948121036Intronnovel0.2
HNSCchr1948143601Splice_SitenovelX286_splice0.38
HNSCchr1948121000Intronnovel0.24
HNSCchr1948140109Missense_Mutationrs752805843R317C0.48
KIRCchr1948131142Missense_MutationNAK585N0.18
KIRPchr1948121042Intronnovel0.53
LGGchr1948162262Missense_MutationnovelK36T0.37
LIHCchr1948153996Intronnovel0.14
LIHCchr1948140015Missense_MutationnovelG348V0.33
LIHCchr1948140016Missense_MutationnovelG348C0.31
LUADchr1948161476Missense_MutationNAS47T0.31
LUADchr1948117725Silentrs373220034P832P0.33
LUADchr1948117727Missense_MutationnovelP832S0.33
LUADchr1948133062SilentnovelR549R0.61
LUADchr1948121126Intronnovel0.08
LUADchr1948117674SilentNAL849L0.28
LUADchr1948153999Intronnovel0.21
LUADchr1948135735Missense_MutationnovelE490K0.1
LUADchr1948127345Missense_MutationNAV646L0.14
LUADchr1948132995Missense_MutationnovelG571V0.55
LUADchr1948120934Intronnovel0.29
LUADchr1948137539Missense_MutationNAR413W0.3
LUADchr1948121155Intronnovel0.17
LUADchr1948150105Missense_Mutationrs760552864T227M0.16
LUADchr1948131165Missense_Mutationrs375683198A578T0.33
LUADchr1948162281Nonsense_MutationNAE30*0.07
LUADchr1948151307Missense_MutationnovelA167S0.25
LUADchr1948120985Intronnovel0.27
LUADchr1948140001Missense_MutationnovelV353F0.52
LUADchr1948150104SilentNAT227T0.52
LUADchr1948149842Splice_SiteNAX233_splice0.1
LUSCchr1948151292Missense_MutationNAE172Q0.16
LUSCchr1948127973SilentnovelV623V0.22
LUSCchr1948115929Missense_MutationNAR874W0.09
LUSCchr1948161460Missense_Mutationrs4987181P52L0.23
LUSCchr1948127922SilentnovelT640T0.2
LUSCchr1948133012Missense_MutationNAC565W0.44
LUSCchr1948151358Intronnovel0.27
LUSCchr1948121114Intronnovel0.39
LUSCchr1948133038Missense_Mutationrs372831646R557C0.23
LUSCchr1948140139Missense_MutationnovelR307G0.18
LUSCchr1948121183Missense_MutationnovelQ791L0.23
OVchr1948121067Intronnovel0.08
OVchr1948151328Missense_MutationNAP160A0.57
OVchr1948133042SilentnovelL555L0.04
OVchr1948128003Frame_Shift_InsnovelT614Ifs*1120.04
OVchr1948135721Silentrs753665588T494T0.2
PAADchr1948151258Missense_Mutationrs564476088T183M0.06
PCPGchr1948117745Missense_MutationnovelI826L0.29
PCPGchr1948143896Missense_MutationnovelK282E0.4
PRADchr1948151282Missense_MutationNAG175E0.22
PRADchr1948117724Missense_Mutationrs747656528D833N0.26
PRADchr1948122960Missense_Mutationrs755197772A736T0.23
READchr1948117775Missense_MutationNAV816M0.29
READchr1948157027Silentrs111516401P119P0.41
SKCMchr1948137080Missense_MutationnovelT420I0.44
SKCMchr1948115920Nonsense_Mutationrs760305891R877*0.36
SKCMchr1948137662Missense_MutationNAE372K0.08
SKCMchr1948127931SilentNAV637V0.36
SKCMchr1948151244SilentnovelL188L0.22
SKCMchr1948151245Silentrs779397848P187P0.22
SKCMchr1948153961Missense_MutationNAK126T0.2
SKCMchr1948150123Missense_MutationNAP221L0.19
SKCMchr1948137673Missense_MutationnovelS368F0.44
SKCMchr1948115716Missense_Mutationrs752573864R898Q0.18
SKCMchr1948121069Intronnovel0.15
SKCMchr1948135779Missense_MutationNAE475V0.22
SKCMchr1948117757Missense_MutationNAP822S0.19
SKCMchr1948115913Missense_MutationNAR879P0.21
SKCMchr1948161461Missense_MutationNAP52S0.1
SKCMchr19481156273'UTRnovel0.14
SKCMchr1948121086Intronnovel0.16
SKCMchr1948153929SilentNAL137L0.53
SKCMchr1948162271Missense_MutationnovelP33L0.51
SKCMchr1948139981SilentNAA359A0.12
SKCMchr1948143574Missense_MutationNAT295A0.14
SKCMchr1948143576Missense_Mutationrs762145736R294Q0.15
SKCMchr1948157093SilentNAT97T0.15
SKCMchr1948157105SilentNAP93P0.3
SKCMchr1948117671SilentnovelS850S0.24
SKCMchr1948117672Missense_MutationnovelS850F0.2
SKCMchr1948137672Silentrs765788847S368S0.27
SKCMchr1948140090Missense_Mutationrs760367725S323L0.22
SKCMchr1948140105Missense_Mutationrs111507847S318F0.36
STADchr1948157022Missense_Mutationrs377155700R121H0.16
STADchr1948117704Silentrs761804615S839S0.33
STADchr1948127963Missense_Mutationrs762816837R627W0.4
STADchr1948135732Missense_MutationNAA491T0.36
STADchr1948121230Silentrs556985324Y775Y0.28
STADchr1948151368Intronnovel0.17
STADchr1948115695Missense_MutationnovelN905S0.22
STADchr1948133012Silentrs189517194C565C0.4
STADchr1948150104Silentrs201868704T227T0.11
STADchr1948151330Missense_MutationNAT159N0.36
STADchr1948121276Missense_MutationNAV760A0.17
STADchr1948157108Silentrs761326605P92P0.47
STADchr1948121013Intronnovel0.26
STADchr1948153946Missense_Mutationrs368320718R131Q0.22
STADchr1948137549Silentrs142732689R409R0.27
STADchr1948123211Silentrs769895197I704I0.26
STADchr1948133038Missense_Mutationrs372831646R557C0.28
STADchr1948143553Missense_MutationNAV302M0.29
UCECchr1948123288Missense_Mutationrs531348489R679W0.43
UCECchr1948115898Missense_Mutationrs201176712P884L0.36
UCECchr1948127955Missense_MutationNAK629N0.36
UCECchr1948120972Intronnovel0.3
UCECchr1948121237Missense_MutationnovelG773D0.17
UCECchr1948127981Missense_MutationNAE621K0.33
UCECchr1948133072SilentnovelA545A0.43
UCECchr1948137029Nonsense_MutationNAS437*0.35
UCECchr1948132987Missense_MutationnovelA574T0.42
UCECchr1948117780Missense_MutationnovelA814V0.15
UCECchr19481155103'UTRnovel0.73
UCECchr1948137078Missense_MutationNAA421S0.46
UCECchr1948122975Missense_MutationNAA731T0.28
UCECchr1948150209Missense_MutationNAK192N0.31
UCECchr1948115682Silentrs41546017E909E0.4
UCECchr1948137644Missense_MutationnovelD378N0.34
UCECchr1948161430Missense_MutationnovelR62Q0.31
UCECchr1948131165Missense_Mutationrs375683198A578T0.47
UCECchr1948123201Missense_Mutationrs140087554A708T0.22
UCECchr1948150202Missense_MutationnovelT195A0.07
UCECchr1948150203Missense_MutationNAE194D0.22
UCECchr1948151344Splice_Regionnovel0.08
UCECchr1948150104Silentrs201868704T227T0.36
UCECchr1948151302Missense_MutationNAE168D0.36
UCECchr1948121030Intronnovel0.25
UCECchr1948123212Missense_MutationnovelI704T0.39
UCECchr1948117736Missense_Mutationrs770718097A829T0.5
UCECchr1948149835Frame_Shift_InsnovelR235Pfs*240.27
UCECchr1948143930Missense_MutationnovelK270N0.65
UCECchr1948120929Intronnovel0.43
UCECchr1948121295Missense_MutationnovelG754S0.56
UCECchr1948153944Missense_MutationNAT132A0.52
UCECchr1948140138Missense_MutationNAR307Q0.45
UCECchr19481155103'UTRnovel0.4
UCECchr1948120948Intronnovel0.33
UCECchr19481155583'UTRnovel0.31
UCECchr1948137689Splice_SitenovelX363_splice0.28
UCECchr1948161503Missense_MutationnovelA38T0.35
UCECchr1948149836Frame_Shift_DelNAR235Gfs*90.54
UCECchr1948150203Missense_MutationNAE194D0.19
UCECchr1948117664Missense_MutationnovelP853S0.4
UCECchr1948149815Nonsense_MutationnovelE242*0.25
UCECchr1948137013SilentnovelI442I0.23
UCECchr1948127300Missense_Mutationrs753568865D661N0.53
UCECchr1948121203SilentNAD784D0.37
UCECchr1948123271Missense_MutationNAE684D0.44
UCECchr1948121004Intronnovel0.17
UCECchr19481154793'UTRnovel0.45
UCECchr1948119180Missense_MutationnovelG799D0.32
UCECchr1948121225Missense_Mutationrs761317989G777D0.18
UCECchr19481155673'UTRnovel0.47
UCECchr1948117700Missense_MutationnovelV841M0.45
UCECchr1948143950Missense_MutationnovelS264P0.38
UCECchr1948121007Intronnovel0.17
UCECchr1948127990Missense_MutationnovelL618M0.11
UCECchr1948151298Missense_MutationNAA170T0.5
UCECchr1948133037Missense_Mutationrs746737248R557H0.21
UCECchr1948117752Silentrs761859667Y823Y0.27
UCECchr1948135724SilentNAK493K0.13
UCECchr1948115667SilentnovelD914D0.15
UCECchr1948157019Missense_Mutationrs368094694R122H0.45
UCECchr1948157045SilentnovelS113S0.44
UCECchr1948121238Missense_Mutationrs751418904G773S0.27
UCECchr1948137616Missense_Mutationrs777331327R387H0.38
UCECchr1948133011Missense_Mutationrs121434560E566K0.29
UCSchr1948120972Intronnovel0.39

Copy Number Variations (CNVs)
CancerTypeFreq Q-value
CESCDEL0.09490.027508
KIRPDEL0.04860.054726
LUADDEL0.25781.5526e-05
LUSCDEL0.21361.1877e-06
OVDEL0.47842.441e-17
PAADDEL0.0870.035089
READDEL0.09090.23023
TGCTDEL0.28670.0046229
UCSDEL0.23210.12448

Survival Analysis
CancerP-value Q-value
THYM0.0047

Kaplan-Meier Survival Analysis

KIRC0.011

Kaplan-Meier Survival Analysis

STAD0.046

Kaplan-Meier Survival Analysis

SARC0.0039

Kaplan-Meier Survival Analysis

MESO0.00012

Kaplan-Meier Survival Analysis

ACC0.00014

Kaplan-Meier Survival Analysis

HNSC0.02

Kaplan-Meier Survival Analysis

SKCM0.001

Kaplan-Meier Survival Analysis

PRAD0.0034

Kaplan-Meier Survival Analysis

PCPG0.048

Kaplan-Meier Survival Analysis

BLCA0.023

Kaplan-Meier Survival Analysis

CESC0.00049

Kaplan-Meier Survival Analysis

READ0.018

Kaplan-Meier Survival Analysis

KICH0.022

Kaplan-Meier Survival Analysis

LIHC0.011

Kaplan-Meier Survival Analysis

THCA0.047

Kaplan-Meier Survival Analysis

LUAD0.05

Kaplan-Meier Survival Analysis

UVM0.03

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
  • PPI
  • Gene Ontology
Description
Ensembl ID
ENSG00000105486 (Gene tree)
Gene ID
3978
Gene Symbol
LIG1
Alias
N
Full Name
DNA ligase 1
Gene Type
protein_coding
Species
Homo_sapiens
Status
putative
Strand
Minus strand
Length
55,160 bases
Position
chr19:48,115,444-48,170,603
Accession
6598
RBP type
non-canonical RBP
Summary
This gene encodes a member of the ATP-dependent DNA ligase protein family. The encoded protein functions in DNA replication, recombination, and the base excision repair process. Mutations in this gene that lead to DNA ligase I deficiency result in immunodeficiency and increased sensitivity to DNA-damaging agents. Disruption of this gene may also be associated with a variety of cancers. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jan 2014]
RNA binding proteome (RBPome)
PIDTitleMethod TimeAuthorDoi
29431736Capturing the interactome of newly transcribed RNAPolyT-RICK & Hela2018 Feb 12Bao XDOI: 10.1038/nmeth.4595
29431736Capturing the interactome of newly transcribed RNARICK & Hela2018 Feb 12Bao XDOI: 10.1038/nmeth.4595
Expression
Transcripts
Transcript IDNameLengthRefSeq ID Protein IDLengthRefSeq IDUniportKB ID
ENST00000542460LIG1-2041527-ENSP00000445928415 (aa)-B4E135
ENST00000595758LIG1-208606--- (aa)--
ENST00000596457LIG1-211792--- (aa)--
ENST00000536218LIG1-2033179-ENSP00000441531851 (aa)-F5GZ28
ENST00000427526LIG1-2023027-ENSP00000442841888 (aa)-P18858
ENST00000596104LIG1-209531--- (aa)--
ENST00000593425LIG1-205575-ENSP00000469638145 (aa)-M0QY71
ENST00000594759LIG1-2074102-ENSP00000471380800 (aa)-M0R0Q7
ENST00000599322LIG1-218620--- (aa)--
ENST00000600055LIG1-219602--- (aa)--
ENST00000597901LIG1-215565--- (aa)--
ENST00000598938LIG1-216377-ENSP0000047208528 (aa)-M0R1S4
ENST00000263274LIG1-2013384XM_024451513ENSP00000263274919 (aa)XP_024307281P18858
ENST00000597146LIG1-214589--- (aa)--
ENST00000601091LIG1-2203957-ENSP00000471836801 (aa)-P18858
ENST00000599165LIG1-217570--- (aa)--
ENST00000596672LIG1-213792-ENSP0000047233136 (aa)-M0R254
ENST00000596332LIG1-210584--- (aa)--
ENST00000594067LIG1-2062697--- (aa)--
ENST00000613670LIG1-2213949-ENSP00000483027801 (aa)-P18858
ENST00000596549LIG1-212580-ENSP00000471861149 (aa)-M0R1G7
Gene Model
Click here to download ENSG00000105486's gene model file
Pathways
Pathway IDPathway NameSource
hsa03030DNA replicationKEGG
hsa03410Base excision repairKEGG
hsa03420Nucleotide excision repairKEGG
hsa03430Mismatch repairKEGG
Phenotypes
ensgIDTraitpValuePubmed ID
ENSG00000105486Platelet Function Tests1.1009500E-005-
ENSG00000105486Platelet Function Tests1.1009500E-005-
Protein-Protein Interaction (PPI)

Clik here to download ENSG00000105486's network

* RBP PPI network refers to all genes directly bind to RBP
Gene Ontology
Go IDGo_termPubmedIDEvidenceCategory
GO:0003677DNA binding-IEAFunction
GO:0003909DNA ligase activity9809069.IDAFunction
GO:0003909DNA ligase activity15871698.IMPFunction
GO:0003909DNA ligase activity-TASFunction
GO:0003910DNA ligase (ATP) activity21873635.IBAFunction
GO:0005524ATP binding-IEAFunction
GO:0005634nucleus21873635.IBAComponent
GO:0005654nucleoplasm-IDAComponent
GO:0005654nucleoplasm-TASComponent
GO:0005737cytoplasm21873635.IBAComponent
GO:0005739mitochondrion21873635.IBAComponent
GO:0006266DNA ligation-TASProcess
GO:0006273lagging strand elongation21873635.IBAProcess
GO:0006281DNA repair8696349.TASProcess
GO:0006283transcription-coupled nucleotide-excision repair-TASProcess
GO:0006284base-excision repair19589734.IDAProcess
GO:0006297nucleotide-excision repair, DNA gap filling-TASProcess
GO:0006298mismatch repair-TASProcess
GO:0009653anatomical structure morphogenesis8696349.TASProcess
GO:0033151V(D)J recombination9809069.IDAProcess
GO:0043231intracellular membrane-bounded organelle-IDAComponent
GO:0046872metal ion binding-IEAFunction
GO:0051103DNA ligation involved in DNA repair-IEAProcess
GO:0051301cell division-IEAProcess
GO:0071897DNA biosynthetic process-IEAProcess
GO:1903461Okazaki fragment processing involved in mitotic DNA replication21873635.IBAProcess
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