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
26760979Overexpression of APOBEC3F in tumor tissues is potentially predictive for poor recurrence-free survival from HBV-related hepatocellular carcinoma.Discov Med2015 DecYang Z-

Differential Expression

Expression in 33 cancers

Mutations
CancerChrPosition Mutation TypedbSNPProtein-change Allele FreqRBD
ACCchr2239052274In_Frame_DelnovelF309del0.05APOBEC_N
BLCAchr2239045042SilentnovelV91V0.63
BLCAchr2239045018Missense_MutationnovelK83N0.4
BLCAchr22390527133'UTRnovel0.28
BRCAchr2239044100IntronNA0.39
BRCAchr2239043031Missense_Mutationrs369091002E38K0.35
BRCAchr22390527493'UTRnovel0.31
CESCchr2239045425Splice_Regionnovel0.42
CESCchr2239044191Intronrs3746806670.42
CESCchr22390528763'UTRnovel0.67
CESCchr2239052306Missense_Mutationrs765588856R319H0.25APOBEC_N
CESCchr2239049556Missense_MutationnovelW233L0.57
COADchr2239043078SilentnovelI53I0.21
COADchr2239045439Missense_MutationnovelC155R0.08
COADchr2239045131Missense_Mutationrs774288237R121H0.57
COADchr2239045073Missense_MutationnovelK102E0.37
COADchr2239049501Missense_Mutationrs761754118E215K0.13
COADchr2239044275Intronnovel0.27
GBMchr2239044989Missense_MutationnovelF74L0.18
GBMchr2239043016Missense_Mutationrs755561552V33I0.23
GBMchr2239043017Missense_MutationnovelV33D0.22
GBMchr2239049459Missense_MutationnovelY201N0.03
GBMchr2239049447Missense_MutationnovelP197A0.07
GBMchr2239043031Missense_Mutationrs369091002E38K0.44
GBMchr2239052095Missense_MutationNAH249N0.21
HNSCchr2239052153Missense_MutationnovelN268S0.07
KIRCchr2239045009SilentNAP80P0.26
KIRCchr22390408755'UTRnovel0.15
KIRPchr22390408795'UTRnovel0.11
LGGchr2239052223SilentnovelL291L0.32
LGGchr2239049574Missense_Mutationrs374582155R239Q0.17
LGGchr2239043007Missense_MutationNAR30W0.18
LUADchr2239049551SilentNAV231V0.14
LUSCchr2239049501Missense_Mutationrs761754118E215K0.23
LUSCchr2239052107Missense_MutationNAC253G0.75
LUSCchr2239045090Silentrs560517594L107L0.25
LUSCchr2239043082Nonsense_Mutationrs773563808R55*0.31
LUSCchr22390409525'UTRnovel0.33
LUSCchr22390527413'UTRnovel0.29
LUSCchr2239045214Missense_Mutationrs566854869D149Y0.78
LUSCchr2239052626Missense_MutationnovelF351L0.14APOBEC_N
PRADchr2239049519Frame_Shift_InsnovelT221Kfs*350.14
PRADchr22390528533'UTRnovel0.63
READchr2239049495Missense_Mutationrs745372879R213W0.42
READchr22390527253'UTRnovel0.36
SARCchr2239044161Intronnovel0.07
SKCMchr2239052666Missense_MutationnovelD365N0.43APOBEC_N
SKCMchr2239049501Missense_Mutationrs761754118E215K0.36
SKCMchr2239044115Intronnovel0.6
SKCMchr22390527693'UTRnovel0.59
SKCMchr2239049532Missense_MutationnovelV225A0.43
SKCMchr2239049495Missense_Mutationrs745372879R213W0.46
SKCMchr2239044199Intronnovel0.21
SKCMchr2239052124SilentnovelF258F0.29
SKCMchr22390527843'UTRnovel0.38
SKCMchr2239045495SilentnovelF173F0.42
SKCMchr2239052353Missense_MutationnovelD335N0.35APOBEC_N
SKCMchr2239043036SilentnovelV39V0.13
SKCMchr2239052681Missense_MutationnovelE370K0.3APOBEC_N
SKCMchr2239044980Missense_MutationnovelL71F0.56
SKCMchr2239045504SilentnovelN176N0.33
SKCMchr2239049562Missense_MutationnovelR235K0.77
SKCMchr2239049581Splice_RegionnovelQ241Q0.14
SKCMchr2239043050Missense_MutationnovelP44L0.31
SKCMchr22390528033'UTRnovel0.26
STADchr2239043014Missense_MutationnovelT32I0.21
STADchr2239045114SilentNAL115L0.08
STADchr2239045161Missense_Mutationrs143540233R131Q0.13
THCAchr22390528013'UTRnovel0.14
UCECchr2239052220Missense_MutationNAF290L0.33
UCECchr2239052624Missense_Mutationrs757600612F351L0.31APOBEC_N
UCECchr2239049574Missense_Mutationrs374582155R239Q0.39
UCECchr2239043027SilentnovelC36C0.11
UCECchr2239044968Nonsense_MutationnovelE67*0.43
UCECchr2239049462Missense_MutationnovelF202I0.49
UCECchr2239042976SilentnovelY19Y0.36
UCECchr2239045520Missense_Mutationrs549076724R182C0.44
UCECchr2239052157SilentnovelY269Y0.39
UCECchr22390408445'UTRnovel0.28
UCECchr2239044322Intronnovel0.31
UCECchr2239045450Missense_MutationnovelN158K0.04
UCECchr2239045071Missense_Mutationrs543621665A101V0.22
UCECchr2239044940Splice_SitenovelX58_splice0.17
UCECchr2239042993Missense_MutationNAP25L0.46
UCECchr2239043031Missense_Mutationrs369091002E38K0.11
UCECchr2239044176Intronnovel0.22
UCECchr2239044161Intronnovel0.64
UCECchr2239044142Intronrs7512294260.48
UCECchr2239052099Missense_MutationnovelA250V0.19
UCECchr2239043078Silentrs770058721I53I0.1
UCECchr2239049486Missense_MutationnovelA210T0.29
UCECchr2239049480Missense_MutationnovelR208C0.34
UCECchr22390409365'UTRnovel0.34
UCECchr2239043082Nonsense_Mutationrs773563808R55*0.42
UCECchr2239052177Missense_MutationnovelS276Y0.48
UCECchr2239042959Nonsense_MutationnovelR14*0.38
UCECchr2239052613Missense_MutationnovelD347G0.21APOBEC_N
UCECchr2239043032Missense_MutationnovelE38G0.33
UCECchr2239044267Intronnovel0.37
UCECchr2239049484Missense_MutationnovelK209I0.35
UCECchr2239052639Nonsense_MutationnovelG356*0.41APOBEC_N
UCECchr2239042982Missense_MutationnovelF21L0.41
UCECchr2239049566SilentNAG236G0.27
UCECchr22390528533'UTRnovel0.67
UCECchr2239043059Missense_MutationnovelP47L0.11
UCECchr2239044190Intronrs7511958970.51
UCECchr2239044964Silentrs748570407H65H0.4
UCECchr2239045495SilentnovelF173F0.31
UCECchr2239049480Missense_MutationnovelR208C0.31
UCSchr2239045199Missense_Mutationrs199693357V144M0.4
UCSchr2239045495SilentnovelF173F0.34

Copy Number Variations (CNVs)
CancerTypeFreq Q-value
PCPGDEL0.3210.044123
THCADEL0.15630.046486
THYMDEL0.08130.063154

Survival Analysis
CancerP-value Q-value
THYM0.0086

Kaplan-Meier Survival Analysis

MESO0.0058

Kaplan-Meier Survival Analysis

SKCM0.0001

Kaplan-Meier Survival Analysis

LUSC0.018

Kaplan-Meier Survival Analysis

BRCA0.00067

Kaplan-Meier Survival Analysis

COAD0.024

Kaplan-Meier Survival Analysis

PCPG0.024

Kaplan-Meier Survival Analysis

BLCA0.00063

Kaplan-Meier Survival Analysis

CESC0.0001

Kaplan-Meier Survival Analysis

UCEC0.034

Kaplan-Meier Survival Analysis

GBM0.033

Kaplan-Meier Survival Analysis

UVM0.009

Kaplan-Meier Survival Analysis

OV0.027

Kaplan-Meier Survival Analysis

Drugs

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Input Drug :


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Eesembl ID



Cell lines and drugs in GSE70138 or GSE92742

  • Description
  • RBDs
  • RBPome
  • Literatures
  • Expression
  • Transcripts
  • Gene Model
  • Pathways
  • PPI
  • Paralogs
  • Orthologs
  • Gene Ontology
Description
Ensembl ID
ENSG00000128394 (Gene tree)
Gene ID
200316
Gene Symbol
APOBEC3F
Alias
ARP8|BK150C2.4.MRNA|KA6
Full Name
apolipoprotein B mRNA editing enzyme catalytic subunit 3F
Gene Type
protein_coding
Species
Homo_sapiens
Status
confidence
Strand
Plus strand
Length
15,369 bases
Position
chr22:39,040,604-39,055,972
Accession
17356
RBP type
canonical RBP
Summary
This gene is a member of the cytidine deaminase gene family. It is one of seven related genes or pseudogenes 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. It is thought that the proteins may be RNA editing enzymes and have roles in growth or cell cycle control. Alternatively spliced transcript variants encoding different isoforms have been identified. [provided by RefSeq, Jul 2008]
RNA binding domains(RBDs)
Protein IDDomain Pfam IDE-value Domain number Total number
ENSP00000309749APOBEC_NPF08210.111.1e-10412
ENSP00000309749APOBEC_NPF08210.111.1e-10422
ENSP00000309749APOBEC_CPF05240.143.9e-6612
ENSP00000309749APOBEC_CPF05240.143.9e-6622
RNA binding proteome (RBPome)
PIDTitleMethod TimeAuthorDoi
22681889The mRNA-bound proteome and its global occupancy profile on protein-coding transcripts4SURIC & HEK2932012 MayBaltz AGDOI: 10.1016/j.molcel.2012.05.021
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & HEK2932018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004
30528433The Human RNA-Binding Proteome and Its Dynamics during Translational ArrestXRNAX & MCF72018 Dec 6Trendel JDOI: 10.1016/j.cell.2018.11.004

Literatures on RNA binding capacity
PIDTitleArticle TimeAuthorDoi
16887808The anti-HIV-1 editing enzyme APOBEC3G binds HIV-1 RNA and messenger RNAs that shuttle between polysomes and stress granules.J Biol Chem2006 Sep 29Kozak SL-
18067920Interaction with 7SL RNA but not with HIV-1 genomic RNA or P bodies is required for APOBEC3F virion packaging.J Mol Biol2008 Jan 25Wang T-
25590131Promiscuous RNA binding ensures effective encapsidation of APOBEC3 proteins by HIV-1.PLoS Pathog2015 Jan 15Apolonia Ldoi: 10.1371/journal.ppat.1004609
22859935Reduced APOBEC3H variant anti-viral activities are associated with altered RNA binding activities.PLoS One2012Zhen Adoi: 10.1371/journal.pone.0038771
27541140The RNA Binding Specificity of Human APOBEC3 Proteins Resembles That of HIV-1 Nucleocapsid.PLoS Pathog2016 Aug 19York Adoi: 10.1371/journal.ppat.1005833
18495196Distinct viral determinants for the packaging of human cytidine deaminases APOBEC3G and APOBEC3C.Virology2008 Jul 20Wang Tdoi: 10.1016/j.virol.2008.04.012
17609216RNA and DNA binding properties of HIV-1 Vif protein: a fluorescence study.J Biol Chem2007 Sep 7Bernacchi S-
Expression
Transcripts
Transcript IDNameLengthRefSeq ID Protein IDLengthRefSeq IDUniportKB ID
ENST00000308521APOBEC3F-2012694XM_024452178ENSP00000309749373 (aa)XP_024307946Q8IUX4
ENST00000381565APOBEC3F-202616XM_017028643ENSP00000370977101 (aa)XP_016884132Q8IUX4
ENST00000491387APOBEC3F-204570--- (aa)--
ENST00000476513APOBEC3F-203730--- (aa)--
Gene Model
Click here to download ENSG00000128394's gene model file
Pathways
Pathway IDPathway NameSource
hsa05170Human immunodeficiency virus 1 infectionKEGG
Protein-Protein Interaction (PPI)

Clik here to download ENSG00000128394's network

* RBP PPI network refers to all genes directly bind to RBP
Paralogs
Ensembl IDGene SymbolCoverageIdentiy ParalogGene SymbolCoverageIdentiy
ENSG00000128394APOBEC3F10079.032ENSG00000244509APOBEC3C10079.032
ENSG00000128394APOBEC3F6537.594ENSG00000111701APOBEC15337.594
ENSG00000128394APOBEC3F10082.105ENSG00000179750APOBEC3B9959.530
ENSG00000128394APOBEC3F9831.188ENSG00000124701APOBEC28732.323
ENSG00000128394APOBEC3F8836.025ENSG00000100298APOBEC3H9934.759
ENSG00000128394APOBEC3F5798.276ENSG00000239713APOBEC3G9950.390
Orthologs
Ensembl IDGene SymbolCoverageIdentiy OrthologGene SymbolCoverageIdentiy Species
ENSG00000128394APOBEC3F9974.054ENSANAG00000030088-9874.054Aotus_nancymaae
ENSG00000128394APOBEC3F7171.970ENSCJAG00000015317-10071.970Callithrix_jacchus
ENSG00000128394APOBEC3F9948.128ENSCAFG00020002615-9948.128Canis_lupus_dingo
ENSG00000128394APOBEC3F9755.738ENSTSYG00000028254-9955.738Carlito_syrichta
ENSG00000128394APOBEC3F9952.419ENSTSYG00000034260-9952.419Carlito_syrichta
ENSG00000128394APOBEC3F9750.549ENSTSYG00000030036-9950.549Carlito_syrichta
ENSG00000128394APOBEC3F9967.000ENSCCAG00000030932-9067.000Cebus_capucinus
ENSG00000128394APOBEC3F9887.500ENSCATG00000033502-9587.500Cercocebus_atys
ENSG00000128394APOBEC3F10075.269ENSCATG00000043226APOBEC3C10075.269Cercocebus_atys
ENSG00000128394APOBEC3F10081.818ENSCSAG00000006382APOBEC3F10081.818Chlorocebus_sabaeus
ENSG00000128394APOBEC3F10073.656ENSCSAG00000006402APOBEC3C10073.656Chlorocebus_sabaeus
ENSG00000128394APOBEC3F10088.204ENSCANG00000032904-10088.204Colobus_angolensis_palliatus
ENSG00000128394APOBEC3F9886.413ENSCANG00000033269-9986.413Colobus_angolensis_palliatus
ENSG00000128394APOBEC3F10076.882ENSCANG00000039177APOBEC3C10076.882Colobus_angolensis_palliatus
ENSG00000128394APOBEC3F10082.114ENSCANG00000031957-9982.114Colobus_angolensis_palliatus
ENSG00000128394APOBEC3F9634.153ENSDNOG00000044642-9834.153Dasypus_novemcinctus
ENSG00000128394APOBEC3F9946.939ENSEASG00005018641-9646.939Equus_asinus_asinus
ENSG00000128394APOBEC3F9949.730ENSECAG00000006071-10044.536Equus_caballus
ENSG00000128394APOBEC3F10081.720ENSGGOG00000036587-10081.720Gorilla_gorilla
ENSG00000128394APOBEC3F10095.442ENSGGOG00000038678APOBEC3F10095.442Gorilla_gorilla
ENSG00000128394APOBEC3F9946.237ENSHGLG00000017315-9146.237Heterocephalus_glaber_female
ENSG00000128394APOBEC3F9946.237ENSHGLG00100003105-9446.237Heterocephalus_glaber_male
ENSG00000128394APOBEC3F10072.581ENSMFAG00000016792APOBEC3C10072.581Macaca_fascicularis
ENSG00000128394APOBEC3F10087.936ENSMFAG00000004037APOBEC3F10087.936Macaca_fascicularis
ENSG00000128394APOBEC3F10076.738ENSMFAG00000002331-10076.738Macaca_fascicularis
ENSG00000128394APOBEC3F9873.370ENSMMUG00000004018APOBEC3C9573.370Macaca_mulatta
ENSG00000128394APOBEC3F10087.263ENSMMUG00000004017APOBEC3F9987.263Macaca_mulatta
ENSG00000128394APOBEC3F10075.335ENSMNEG00000043316APOBEC3D10075.335Macaca_nemestrina
ENSG00000128394APOBEC3F10072.581ENSMNEG00000045196APOBEC3C10072.581Macaca_nemestrina
ENSG00000128394APOBEC3F10087.668ENSMLEG00000029642APOBEC3F10087.668Mandrillus_leucophaeus
ENSG00000128394APOBEC3F10075.806ENSMLEG00000036992APOBEC3C10075.806Mandrillus_leucophaeus
ENSG00000128394APOBEC3F9955.676ENSMICG00000042615-8955.676Microcebus_murinus
ENSG00000128394APOBEC3F9944.586ENSMLUG00000023676-9944.586Myotis_lucifugus
ENSG00000128394APOBEC3F10071.762ENSNLEG00000035811-10071.762Nomascus_leucogenys
ENSG00000128394APOBEC3F10075.806ENSNLEG00000028392APOBEC3C10075.806Nomascus_leucogenys
ENSG00000128394APOBEC3F9845.055ENSOGAG00000033404-10045.055Otolemur_garnettii
ENSG00000128394APOBEC3F9943.048ENSOGAG00000030300-9943.048Otolemur_garnettii
ENSG00000128394APOBEC3F9945.431ENSOGAG00000032498-9945.431Otolemur_garnettii
ENSG00000128394APOBEC3F10084.409ENSPPAG00000028218-10084.409Pan_paniscus
ENSG00000128394APOBEC3F10079.032ENSPPAG00000014118APOBEC3C10079.032Pan_paniscus
ENSG00000128394APOBEC3F9850.811ENSPPRG00000003726-9850.811Panthera_pardus
ENSG00000128394APOBEC3F10096.515ENSPTRG00000014385APOBEC3C10096.515Pan_troglodytes
ENSG00000128394APOBEC3F10083.871ENSPTRG00000041588APOBEC3D10083.871Pan_troglodytes
ENSG00000128394APOBEC3F10086.863ENSPANG00000010775APOBEC3F10086.863Papio_anubis
ENSG00000128394APOBEC3F10075.269ENSPPYG00000011832APOBEC3C10075.269Pongo_abelii
ENSG00000128394APOBEC3F6858.140ENSPCOG00000022067-9858.140Propithecus_coquereli
ENSG00000128394APOBEC3F6759.200ENSPCOG00000018072-9559.200Propithecus_coquereli
ENSG00000128394APOBEC3F8149.593ENSPVAG00000009461-7149.593Pteropus_vampyrus
ENSG00000128394APOBEC3F10082.842ENSRBIG00000042297-10087.898Rhinopithecus_bieti
ENSG00000128394APOBEC3F10088.398ENSRBIG00000030323-10088.398Rhinopithecus_bieti
ENSG00000128394APOBEC3F10080.435ENSRBIG00000030834-10080.435Rhinopithecus_bieti
ENSG00000128394APOBEC3F10080.978ENSRROG00000028557-10080.978Rhinopithecus_roxellana
ENSG00000128394APOBEC3F10082.842ENSRROG00000029996-10082.842Rhinopithecus_roxellana
ENSG00000128394APOBEC3F10087.936ENSRROG00000029045APOBEC3C10087.936Rhinopithecus_roxellana
ENSG00000128394APOBEC3F10071.242ENSSBOG00000032780-10071.242Saimiri_boliviensis_boliviensis
ENSG00000128394APOBEC3F8946.961ENSUAMG00000004433-9946.961Ursus_americanus
ENSG00000128394APOBEC3F9347.826ENSUMAG00000014441-8647.826Ursus_maritimus
ENSG00000128394APOBEC3F7751.678ENSVVUG00000014628-9151.370Vulpes_vulpes
Gene Ontology
Go IDGo_termPubmedIDEvidenceCategory
GO:0000932P-body21873635.IBAComponent
GO:0000932P-body16699599.22915799.IDAComponent
GO:0002230positive regulation of defense response to virus by host17121840.IDAProcess
GO:0003723RNA binding22681889.HDAFunction
GO:0003723RNA binding21873635.IBAFunction
GO:0003723RNA binding11863358.IDAFunction
GO:0004126cytidine deaminase activity21873635.IBAFunction
GO:0004126cytidine deaminase activity17121840.IDAFunction
GO:0005515protein binding16699599.22915799.IPIFunction
GO:0005634nucleus21873635.IBAComponent
GO:0005737cytoplasm21873635.IBAComponent
GO:0005737cytoplasm16527742.16699599.21835787.IDAComponent
GO:0008270zinc ion binding11863358.IDAFunction
GO:0009972cytidine deamination-IEAProcess
GO:0010529negative regulation of transposition21873635.IBAProcess
GO:0010529negative regulation of transposition16527742.20062055.IDAProcess
GO:0016553base conversion or substitution editing17121840.IDAProcess
GO:0016554cytidine to uridine editing21873635.IBAProcess
GO:0030895apolipoprotein B mRNA editing enzyme complex17121840.TASComponent
GO:0042802identical protein binding23685212.IPIFunction
GO:0045071negative regulation of viral genome replication16378963.17121840.IDAProcess
GO:0045087innate immune response17121840.IDAProcess
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 intermediate17121840.21835787.IDAProcess
GO:0048525negative regulation of viral process17121840.IDAProcess
GO:0051607defense response to virus21873635.IBAProcess
GO:0051607defense response to virus21835787.22915799.IDAProcess
GO:0070383DNA cytosine deamination21873635.IBAProcess
GO:0070383DNA cytosine deamination21835787.IDAProcess
GO:0080111DNA demethylation21873635.IBAProcess
GO:0080111DNA demethylation21496894.IDAProcess
GO:1990904ribonucleoprotein complex16699599.IDAComponent
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