EuRBPDB

  • Home
  • Cancer
  • Family
  • Species
  • RBPredictor
  • Search
  • Download
  • Submit
  • Help
  • Contact
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
BLCAchr2239029369Silentrs779214802P204P0.32
BLCAchr2239025085Missense_Mutationrs773998723E76K0.27
BLCAchr2239029459SilentnovelT234T0.28
BLCAchr2239025554Splice_Regionnovel0.27
BLCAchr2239032278Nonsense_Mutationrs765057107R375*0.48
BLCAchr22390214925'UTRnovel0.25
BRCAchr2239032247Silentrs201378161F364F0.24
BRCAchr2239022873Silentrs780066160N23N0.34
CESCchr2239025624Silentrs755076267F186F0.3
CESCchr2239021534Splice_RegionNAI5I0.21
CESCchr2239031897SilentNAF322F0.4
CESCchr2239025554Splice_Regionnovel0.37
CHOLchr22390324013'UTRnovel0.5
COADchr2239025227Missense_MutationNAH123L0.45
COADchr2239031783SilentNAV284V0.35
COADchr2239029409Missense_MutationNAK218E0.36
COADchr2239022978Silentrs781113384P58P0.34
COADchr22390214755'UTRrs7605953470.41
COADchr2239025180Frame_Shift_DelNAC109Afs*60.35
COADchr22390214585'UTRNA0.48
COADchr2239022878Missense_MutationnovelP25H0.17
COADchr22390323663'UTRrs7595132020.33
DLBCchr2239025638Missense_MutationnovelA191V0.42APOBEC_N
ESCAchr22390323263'UTRnovel0.13
ESCAchr2239025255Silentrs368364402A132A0.41
GBMchr22390323293'UTRnovel0.09
HNSCchr22390214605'UTRnovel0.24
HNSCchr22390324523'UTRnovel0.23
HNSCchr2239025327Silentrs371920813R156R0.47
HNSCchr2239031868Missense_MutationnovelT313A0.17
HNSCchr2239029396Missense_MutationnovelF213L0.19
KIRCchr2239029417SilentNAL220L0.52
LGGchr2239025193Missense_MutationnovelC112R0.12
LGGchr2239025569Missense_MutationnovelC168Y0.08APOBEC_N
LGGchr2239029369Silentrs779214802P204P0.25
LIHCchr2239025636SilentNAY190Y0.37
LIHCchr2239025145SilentNAR96R0.33
LUADchr2239025319Frame_Shift_DelnovelA155Pfs*30.18APOBEC_N
LUADchr2239029492SilentnovelF245F0.12
LUADchr22390324013'UTRnovel0.39
LUADchr2239032300Missense_MutationnovelR382L0.43
LUADchr2239022925Missense_MutationnovelI41L0.22
LUADchr2239025151Missense_MutationNAF98I0.37
LUADchr22390323263'UTRnovel0.11
LUSCchr22390214285'UTRnovel0.16
LUSCchr2239031721Nonsense_MutationnovelE264*0.26
LUSCchr2239031955Missense_Mutationrs376325106K342E0.22
OVchr2239031834Silentrs751024970A301A0.75
OVchr2239022937Missense_MutationnovelR45S0.07
OVchr22390214705'UTRnovel0.08
OVchr2239031723Missense_MutationnovelE264D0.1
PAADchr2239022959Missense_MutationnovelT52I0.17
PRADchr22390323253'UTRnovel0.23
PRADchr2239025241SilentNAL128L0.07
READchr2239025289Missense_Mutationrs749813878R144W0.28APOBEC_N
SKCMchr2239031705SilentNAE258E0.21
SKCMchr2239022874Missense_Mutationrs746961335E24K0.34
SKCMchr2239022949Missense_MutationNAL49F0.44
SKCMchr2239025078SilentNAF73F0.29
SKCMchr2239025078SilentNAF73F0.37
SKCMchr2239022877Missense_MutationNAP25A0.33
SKCMchr2239025255SilentNAA132A0.26
SKCMchr2239031840SilentNAF303F0.11
SKCMchr2239029368Missense_Mutationrs757469920P204L0.44
SKCMchr2239025136Missense_MutationNAP93S0.14
SKCMchr2239025251Missense_Mutationrs776446805S131F0.38APOBEC_N
SKCMchr2239031951Silentrs763859536S340S0.51
STADchr2239022978Silentrs781113384P58P0.24
STADchr2239022937Missense_MutationNAR45C0.15
STADchr22390324543'UTRnovel0.24
STADchr2239025130Nonsense_MutationNAR91*0.27
STADchr2239022936SilentNAG44G0.17
UCECchr2239022835Missense_MutationnovelR11W0.3
UCECchr2239025316Missense_MutationNAA153T0.41APOBEC_N
UCECchr2239025591SilentNAN175N0.39
UCECchr2239025624Silentrs755076267F186F0.38
UCECchr22390324543'UTRnovel0.75
UCECchr2239031757SilentNAL276L0.13
UCECchr2239031883Missense_Mutationrs745893074R318C0.46
UCECchr22390323713'UTRrs7695153350.43
UCECchr2239025208Missense_MutationNAT117A0.26
UCECchr2239031880Missense_MutationnovelA317T0.22
UCECchr22390214295'UTRnovel0.43
UCECchr2239025615Nonsense_MutationNAW183*0.38APOBEC_N
UCECchr2239025624Silentrs755076267F186F0.39
UCECchr22390323563'UTRnovel0.14
UCECchr2239032316Nonstop_Mutationnovel*387Wext*120.39
UCECchr2239022960SilentnovelT52T0.2
UCECchr2239025186SilentnovelC109C0.2
UCECchr2239032278Nonsense_Mutationrs765057107R375*0.46
UCECchr2239029485Missense_MutationnovelA243D0.29
UCECchr2239025094Missense_MutationnovelA79T0.44
UCECchr2239025149Missense_Mutationrs748680344R97H0.5
UCECchr2239025624Silentrs755076267F186F0.49
UCECchr2239025649Missense_Mutationrs746506547R195C0.47APOBEC_N
UCECchr22390324083'UTRnovel0.3
UCECchr2239032286SilentnovelL377L0.21
UCECchr2239022999Silentrs768017264S65S0.14
UCECchr2239025169Missense_MutationnovelV104I0.44
UCECchr2239025641Missense_MutationnovelS192Y0.38APOBEC_N
UCECchr2239025624Silentrs755076267F186F0.47
UCECchr2239032278Nonsense_Mutationrs765057107R375*0.31
UCECchr2239022970Nonsense_MutationnovelR56*0.13
UCECchr2239025627SilentnovelD187D0.31
UCECchr22390324633'UTRnovel0.29
UCECchr2239029423Missense_MutationnovelK222N0.26
UCECchr2239025173Nonsense_MutationnovelS105*0.05
UCECchr2239032201Missense_MutationNAF349C0.28
UCECchr2239029504Silentrs776631266G249G0.28
UCECchr2239032266Nonsense_MutationnovelQ371*0.45
UCECchr2239025650Missense_Mutationrs375389371R195H0.28APOBEC_N
UCECchr2239031761Missense_MutationNAS277Y0.11
UCECchr2239022998Missense_Mutationrs759937585S65L0.33
UCECchr2239025274Missense_Mutationrs61752258R139W0.4APOBEC_N
UCECchr2239025610Missense_MutationnovelP182S0.3APOBEC_N

Copy Number Variations (CNVs)
CancerTypeFreq Q-value
PCPGDEL0.32720.044123
THCADEL0.15630.046486
THYMDEL0.08130.063154

Survival Analysis
CancerP-value Q-value
KIRC0.0001

Kaplan-Meier Survival Analysis

SARC0.00053

Kaplan-Meier Survival Analysis

ACC0.00026

Kaplan-Meier Survival Analysis

HNSC0.048

Kaplan-Meier Survival Analysis

SKCM0.00013

Kaplan-Meier Survival Analysis

BRCA0.00011

Kaplan-Meier Survival Analysis

BLCA0.00013

Kaplan-Meier Survival Analysis

CESC0.00011

Kaplan-Meier Survival Analysis

UCEC0.0057

Kaplan-Meier Survival Analysis

GBM0.028

Kaplan-Meier Survival Analysis

THCA0.042

Kaplan-Meier Survival Analysis

UVM0.00014

Kaplan-Meier Survival Analysis

  • Description
  • RBDs
  • RBPome
  • Expression
  • Transcripts
  • Gene Model
  • Pathways
  • PPI
  • Orthologs
  • Gene Ontology
Description
Ensembl ID
ENSG00000243811 (Gene tree)
Gene ID
140564
Gene Symbol
APOBEC3D
Alias
ARP6|APOBEC3DE|APOBEC3E
Full Name
apolipoprotein B mRNA editing enzyme catalytic subunit 3D
Gene Type
protein_coding
Species
Homo_sapiens
Status
confidence
Strand
Plus strand
Length
12,164 bases
Position
chr22:39,021,113-39,033,276
Accession
17354
RBP type
canonical RBP
Summary
This gene is a member of the cytidine deaminase gene family. It is one of a group of related genes found in a cluster, thought to result from gene duplication, on chromosome 22. Members of the cluster encode proteins that are structurally and functionally related to the C to U RNA-editing cytidine deaminase APOBEC1 and inhibit retroviruses, such as HIV, by deaminating cytosine residues in nascent retroviral cDNA. [provided by RefSeq, Jul 2008]
RNA binding domains(RBDs)
Protein IDDomain Pfam IDE-value Domain number Total number
ENSP00000216099APOBEC_NPF08210.116.2e-9812
ENSP00000216099APOBEC_NPF08210.116.2e-9822
ENSP00000480718APOBEC_NPF08210.116.7e-5411
ENSP00000388017APOBEC_NPF08210.118.5e-5011
ENSP00000216099APOBEC_CPF05240.141.2e-6012
ENSP00000216099APOBEC_CPF05240.141.2e-6022
ENSP00000480718APOBEC_CPF05240.144.5e-3111
ENSP00000388017APOBEC_CPF05240.145.3e-3111
RNA binding proteome (RBPome)
PIDTitleMethod TimeAuthorDoi
30352994Discovery of RNA-binding proteins and characterization of their dynamic responses by enhanced RNA interactome captureRIC & Jurkat2018 Oct 23Perez-Perri JIDOI:10.1038/s41467-018-06557-8
Expression
Transcripts
Transcript IDNameLengthRefSeq ID Protein IDLengthRefSeq IDUniportKB ID
ENST00000622217APOBEC3D-203591-ENSP00000480718190 (aa)-A0A087WX48
ENST00000216099APOBEC3D-2012528XM_017028596ENSP00000216099386 (aa)XP_016884085Q96AK3
ENST00000427494APOBEC3D-2021961XM_005261337ENSP00000388017202 (aa)XP_005261394Q6ICH2
Gene Model
Click here to download ENSG00000243811's gene model file
Pathways
Pathway IDPathway NameSource
hsa05170Human immunodeficiency virus 1 infectionKEGG
Protein-Protein Interaction (PPI)

Clik here to download ENSG00000243811's network

* RBP PPI network refers to all genes directly bind to RBP
Orthologs
Ensembl IDGene SymbolCoverageIdentiy OrthologGene SymbolCoverageIdentiy Species
ENSG00000243811APOBEC3D10068.947ENSANAG00000030088-9967.358Aotus_nancymaae
ENSG00000243811APOBEC3D6968.182ENSCJAG00000015317-10068.182Callithrix_jacchus
ENSG00000243811APOBEC3D9947.594ENSCAFG00020002615-9947.594Canis_lupus_dingo
ENSG00000243811APOBEC3D9751.913ENSTSYG00000028254-9951.913Carlito_syrichta
ENSG00000243811APOBEC3D10051.323ENSTSYG00000034260-9751.323Carlito_syrichta
ENSG00000243811APOBEC3D9848.634ENSTSYG00000030036-9948.634Carlito_syrichta
ENSG00000243811APOBEC3D9866.129ENSCCAG00000030932-9063.000Cebus_capucinus
ENSG00000243811APOBEC3D9876.630ENSCATG00000033502-10074.731Cercocebus_atys
ENSG00000243811APOBEC3D10072.632ENSCATG00000043226APOBEC3C10072.632Cercocebus_atys
ENSG00000243811APOBEC3D10072.632ENSCSAG00000006402APOBEC3C10072.632Chlorocebus_sabaeus
ENSG00000243811APOBEC3D10078.495ENSCSAG00000006382APOBEC3F10078.495Chlorocebus_sabaeus
ENSG00000243811APOBEC3D10076.344ENSCANG00000033269-9978.261Colobus_angolensis_palliatus
ENSG00000243811APOBEC3D10073.684ENSCANG00000039177APOBEC3C10073.684Colobus_angolensis_palliatus
ENSG00000243811APOBEC3D10078.495ENSCANG00000032904-10078.495Colobus_angolensis_palliatus
ENSG00000243811APOBEC3D10075.806ENSCANG00000031957-10075.806Colobus_angolensis_palliatus
ENSG00000243811APOBEC3D9738.830ENSDNOG00000044642-9938.830Dasypus_novemcinctus
ENSG00000243811APOBEC3D10046.341ENSEASG00005018641-10046.341Equus_asinus_asinus
ENSG00000243811APOBEC3D9947.027ENSECAG00000006071-10046.237Equus_caballus
ENSG00000243811APOBEC3D10088.421ENSGGOG00000036587-10088.421Gorilla_gorilla
ENSG00000243811APOBEC3D10087.097ENSGGOG00000038678APOBEC3F10087.097Gorilla_gorilla
ENSG00000243811APOBEC3D9845.213ENSHGLG00000017315-9142.119Heterocephalus_glaber_female
ENSG00000243811APOBEC3D9845.213ENSHGLG00100003105-9445.213Heterocephalus_glaber_male
ENSG00000243811APOBEC3D10076.882ENSMFAG00000002331-10076.882Macaca_fascicularis
ENSG00000243811APOBEC3D10073.158ENSMFAG00000016792APOBEC3C10073.158Macaca_fascicularis
ENSG00000243811APOBEC3D10075.806ENSMFAG00000004037APOBEC3F10075.806Macaca_fascicularis
ENSG00000243811APOBEC3D9972.432ENSMMUG00000004018APOBEC3C9572.826Macaca_mulatta
ENSG00000243811APOBEC3D10077.419ENSMMUG00000004017APOBEC3F10077.419Macaca_mulatta
ENSG00000243811APOBEC3D10073.684ENSMNEG00000045196APOBEC3C10073.684Macaca_nemestrina
ENSG00000243811APOBEC3D10077.215ENSMNEG00000043316APOBEC3D10077.215Macaca_nemestrina
ENSG00000243811APOBEC3D10073.158ENSMLEG00000036992APOBEC3C10073.158Mandrillus_leucophaeus
ENSG00000243811APOBEC3D10077.957ENSMLEG00000029642APOBEC3F10077.957Mandrillus_leucophaeus
ENSG00000243811APOBEC3D9952.128ENSMICG00000042615-8952.128Microcebus_murinus
ENSG00000243811APOBEC3D9744.503ENSMLUG00000023676-9944.503Myotis_lucifugus
ENSG00000243811APOBEC3D10077.720ENSNLEG00000035811-10077.720Nomascus_leucogenys
ENSG00000243811APOBEC3D10074.211ENSNLEG00000028392APOBEC3C10074.211Nomascus_leucogenys
ENSG00000243811APOBEC3D9844.134ENSOGAG00000033404-10044.134Otolemur_garnettii
ENSG00000243811APOBEC3D9943.284ENSOGAG00000030300-9942.553Otolemur_garnettii
ENSG00000243811APOBEC3D9847.312ENSOGAG00000032498-9947.312Otolemur_garnettii
ENSG00000243811APOBEC3D10090.526ENSPPAG00000028218-10090.526Pan_paniscus
ENSG00000243811APOBEC3D10078.947ENSPPAG00000014118APOBEC3C10078.947Pan_paniscus
ENSG00000243811APOBEC3D9947.027ENSPPRG00000003726-9847.027Panthera_pardus
ENSG00000243811APOBEC3D10092.079ENSPTRG00000041588APOBEC3D10092.079Pan_troglodytes
ENSG00000243811APOBEC3D10087.097ENSPTRG00000014385APOBEC3C10087.097Pan_troglodytes
ENSG00000243811APOBEC3D10076.344ENSPANG00000010775APOBEC3F10076.344Papio_anubis
ENSG00000243811APOBEC3D10077.368ENSPPYG00000011832APOBEC3C10077.368Pongo_abelii
ENSG00000243811APOBEC3D6853.488ENSPCOG00000022067-9853.488Propithecus_coquereli
ENSG00000243811APOBEC3D6654.762ENSPCOG00000018072-9554.762Propithecus_coquereli
ENSG00000243811APOBEC3D9444.715ENSPVAG00000009461-7144.715Pteropus_vampyrus
ENSG00000243811APOBEC3D9879.570ENSRBIG00000030323-10079.570Rhinopithecus_bieti
ENSG00000243811APOBEC3D10078.261ENSRBIG00000030834-10078.261Rhinopithecus_bieti
ENSG00000243811APOBEC3D10077.778ENSRBIG00000042297-10077.778Rhinopithecus_bieti
ENSG00000243811APOBEC3D10077.778ENSRROG00000029996-10077.778Rhinopithecus_roxellana
ENSG00000243811APOBEC3D10077.419ENSRROG00000029045APOBEC3C10077.419Rhinopithecus_roxellana
ENSG00000243811APOBEC3D10077.717ENSRROG00000028557-10077.717Rhinopithecus_roxellana
ENSG00000243811APOBEC3D10068.421ENSSBOG00000032780-10068.421Saimiri_boliviensis_boliviensis
ENSG00000243811APOBEC3D9643.407ENSUAMG00000004433-10043.407Ursus_americanus
ENSG00000243811APOBEC3D9744.324ENSUMAG00000014441-8644.324Ursus_maritimus
ENSG00000243811APOBEC3D7951.007ENSVVUG00000014628-9450.746Vulpes_vulpes
Gene Ontology
Go IDGo_termPubmedIDEvidenceCategory
GO:0000932P-body21873635.IBAComponent
GO:0000932P-body22915799.IDAComponent
GO:0003723RNA binding21873635.IBAFunction
GO:0004126cytidine deaminase activity21873635.IBAFunction
GO:0005634nucleus21873635.IBAComponent
GO:0005737cytoplasm21873635.IBAComponent
GO:0005737cytoplasm21835787.IDAComponent
GO:0008270zinc ion binding-IEAFunction
GO:0009972cytidine deamination-IEAProcess
GO:0010529negative regulation of transposition21873635.IBAProcess
GO:0010529negative regulation of transposition20062055.IDAProcess
GO:0016554cytidine to uridine editing21873635.IBAProcess
GO:0045087innate immune response-IEAProcess
GO:0045869negative regulation of single stranded viral RNA replication via double stranded DNA intermediate21873635.IBAProcess
GO:0045869negative regulation of single stranded viral RNA replication via double stranded DNA intermediate21835787.IDAProcess
GO:0051607defense response to virus21873635.IBAProcess
GO:0051607defense response to virus21835787.IDAProcess
GO:0070383DNA cytosine deamination21873635.IBAProcess
GO:0070383DNA cytosine deamination21835787.IDAProcess
GO:0080111DNA demethylation21873635.IBAProcess
To top

Copyright © , Bioinformatics Center, Sun Yat-sen Memorial Hospital, Sun Yat-sen University, China. All Rights Reserved.

Any comment and suggestion, please contact us