Detail Information

Basic Information:


  VIRBase ID:  

VHID00385754

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6002

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART20-5p:           SERBP1:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol ebv-miR-BART20-5p SERBP1
miRBase
Accession/Entrez ID		 MIMAT0003719 26135
Organism Human gammaherpesvirus 4 (Epstein-Barr virus, EPV) Homo sapiens
Category miRNA mRNA
Alias - CGI-55//CHD3IP//HABP4L//PAI-RBP1//PAIRBP1

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR SERBP1
chr1:67874735(-) A-I      3'UTR
chr1:67874701(-) A-I      3'UTR
chr1:67874648(-) A-I      3'UTR
chr1:67879599(-) A-I      intronic
chr1:67879649(-) A-I      intronic
chr1:67883229(-) A-I      intronic
chr1:67879250(-) A-I      intronic
chr1:67879519(-) A-I      intronic
chr1:67879586(-) A-I      intronic
chr1:67882875(-) A-I      intronic
chr1:67879605(-) A-I      intronic
chr1:67884398(-) A-I      intronic
chr1:67879653(-) A-I      intronic
chr1:67879686(-) A-I      intronic
chr1:67879710(-) A-I      intronic
chr1:67881953(-) A-I      intronic
chr1:67882685(-) A-I      intronic
chr1:67882732(-) A-I      intronic
chr1:67883199(-) A-I      intronic
chr1:67883688(-) A-I      intronic
chr1:67883719(-) A-I      intronic
chr1:67883721(-) A-I      intronic
chr1:67883735(-) A-I      intronic
chr1:67883744(-) A-I      intronic
chr1:67883787(-) A-I      intronic
chr1:67883828(-) A-I      intronic
chr1:67883851(-) A-I      intronic
chr1:67883865(-) A-I      intronic
chr1:67883877(-) A-I      intronic
chr1:67883912(-) A-I      intronic
chr1:67884373(-) A-I      intronic
chr1:67879115(-) A-I      intronic
chr1:67879127(-) A-I      intronic
chr1:67874854(-) A-I      3'UTR
chr1:67874691(-) A-I      3'UTR
chr1:67874725(-) A-I      3'UTR
chr1:67874907(-) A-I      3'UTR
chr1:67874726(-) A-I      3'UTR
chr1:67879520(-) A-I      intronic
chr1:67883392(-) A-I      intronic
chr1:67884238(-) A-I      intronic
chr1:67881969(-) A-I      intronic
chr1:67883399(-) A-I      intronic
chr1:67888639(-) A-I      intronic
chr1:67883827(-) A-I      intronic
chr1:67883291(-) A-I      intronic
chr1:67884330(-) A-I      intronic
chr1:67883835(-) A-I      intronic
chr1:67879746(-) A-I      intronic
chr1:67879140(-) A-I      intronic
chr1:67874885(-) A-I      3'UTR
chr1:67879754(-) A-I      intronic
chr1:67882781(-) A-I      intronic
chr1:67883467(-) A-I      intronic
chr1:67879689(-) A-I      intronic
chr1:67874864(-) A-I      3'UTR
chr1:67883296(-) A-I      intronic
chr1:67882808(-) A-I      intronic
chr1:67874825(-) A-I      3'UTR
chr1:67883458(-) A-I      intronic
chr1:67883791(-) A-I      intronic
chr1:67883391(-) A-I      intronic
chr1:67882793(-) A-I      intronic
chr1:67883836(-) A-I      intronic
chr1:67874867(-) A-I      3'UTR
chr1:67882836(-) A-I      intronic
chr1:67883751(-) A-I      intronic
chr1:67879249(-) A-I      intronic
chr1:67884356(-) A-I      intronic
chr1:67883796(-) A-I      intronic
chr1:67879696(-) A-I      intronic
chr1:67879595(-) A-I      intronic
chr1:67883726(-) A-I      intronic
chr1:67883797(-) A-I      intronic
chr1:67879691(-) A-I      intronic
chr1:67888718(-) A-I      intronic
chr1:67874696(-) A-I      3'UTR
chr1:67884274(-) A-I      intronic
chr1:67879211(-) A-I      intronic
chr1:67884279(-) A-I      intronic
chr1:67879618(-) A-I      intronic
chr1:67884239(-) A-I      intronic
chr1:67883236(-) A-I      intronic
chr1:67883861(-) A-I      intronic
chr1:67884269(-) A-I      intronic
chr1:67883826(-) A-I      intronic
chr1:67879232(-) A-I      intronic
chr1:67879627(-) A-I      intronic
chr1:67879715(-) A-I      intronic
chr1:67883286(-) A-I      intronic
chr1:67879552(-) A-I      intronic
chr1:67879582(-) A-I      intronic
chr1:67884440(-) A-I      intronic
chr1:67874705(-) A-I      3'UTR
chr1:67879256(-) A-I      intronic
chr1:67874734(-) A-I      3'UTR
chr1:67884342(-) A-I      intronic
chr1:67879209(-) A-I      intronic
chr1:67884276(-) A-I      intronic
chr1:67883890(-) A-I      intronic
chr1:67883938(-) A-I      intronic
chr1:67879626(-) A-I      intronic
chr1:67874697(-) A-I      3'UTR
chr1:67874849(-) A-I      3'UTR
chr1:67879555(-) A-I      intronic
chr1:67883373(-) A-I      intronic
chr1:67879587(-) A-I      intronic
chr1:67874859(-) A-I      3'UTR
chr1:67883475(-) A-I      intronic
chr1:67879745(-) A-I      intronic
chr1:67883374(-) A-I      intronic
chr1:67882809(-) A-I      intronic
chr1:67883473(-) A-I      intronic
chr1:67884320(-) A-I      intronic
chr1:67874689(-) A-I      3'UTR
chr1:67881871(-) A-I      intronic
chr1:67874731(-) A-I      3'UTR
chr1:67882843(-) A-I      intronic
chr1:67889118(-) A-I      intronic
chr1:67884358(-) A-I      intronic
chr1:67882815(-) A-I      intronic
chr1:67879561(-) A-I      intronic
chr1:67883931(-) A-I      intronic
chr1:67882870(-) A-I      intronic
chr1:67879592(-) A-I      intronic
chr1:67884250(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED SERBP1
chr1:67874849(-) A-I exon 3'UTR    15258596
chr1:67874859(-) A-I exon 3'UTR    15258596   //22327324
chr1:67874864(-) A-I exon 3'UTR    15258596
chr1:67874696(-) A-I exon 3'UTR    22327324
chr1:67874697(-) A-I exon 3'UTR    21960545   //22327324
chr1:67883296(-) A-I intron -    22327324
chr1:67874689(-) A-I exon 3'UTR    21960545
chr1:67874731(-) A-I exon 3'UTR    21960545
chr1:67874859(-) A-G exon 3'UTR    21725310   //22484847
chr1:67874689(-) A-G exon 3'UTR    22484847
chr1:67874696(-) A-G exon 3'UTR    22484847
chr1:67874697(-) A-G exon 3'UTR    22484847
chr1:67874705(-) A-G exon 3'UTR    22484847
chr1:67874731(-) A-G exon 3'UTR    22484847
chr1:67874734(-) A-G exon 3'UTR    22484847
chr1:67874825(-) A-G exon 3'UTR    22484847
chr1:67874849(-) A-G exon 3'UTR    22484847
chr1:67874885(-) A-G exon 3'UTR    22484847
chr1:67879211(-) A-G intron -    22484847
chr1:67879249(-) A-G intron -    22484847
chr1:67879592(-) A-G intron -    22484847
chr1:67879627(-) A-G intron -    22484847
chr1:67879745(-) A-G intron -    22484847
chr1:67879746(-) A-G intron -    22484847
chr1:67879754(-) A-G intron -    22484847
chr1:67882781(-) A-G intron -    22484847
chr1:67882793(-) A-G intron -    22484847
chr1:67882815(-) A-G intron -    22484847
chr1:67882836(-) A-G intron -    22484847
chr1:67882843(-) A-G intron -    22484847
chr1:67883198(-) G-A intron -    22484847
chr1:67883296(-) A-G intron -    22484847
chr1:67883751(-) A-G intron -    22484847
chr1:67883791(-) A-G intron -    22484847
chr1:67883796(-) A-G intron -    22484847
chr1:67883797(-) A-G intron -    22484847
chr1:67883826(-) A-G intron -    22484847
chr1:67883890(-) A-G intron -    22484847
chr1:67883938(-) A-G intron -    22484847
chr1:67884250(-) A-G intron -    22484847
chr1:67884274(-) A-G intron -    22484847
chr1:67884276(-) A-G intron -    22484847
chr1:67884279(-) A-G intron -    22484847
chr1:67884320(-) A-G intron -    22484847
chr1:67884330(-) A-G intron -    22484847
chr1:67884342(-) A-G intron -    22484847
chr1:67884356(-) A-G intron -    22484847
chr1:67884358(-) A-G intron -    22484847
chr1:67884454(-) A-T intron -    22484847
chr1:67888650(-) T-G intron -    22484847
chr1:67888651(-) T-A intron -    22484847
chr1:67888653(-) T-G intron -    22484847
chr1:67889071(-) G-C intron -    22484847
chr1:67889118(-) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase SERBP1
chr1:67878731-67878732(-) m6A 3'UTR       24284625//24209618//24981863//28052920//27773535//22575960//22608085
chr1:67878758-67878759(-) m6A 3'UTR       24284625//24209618//24981863//28052920//27773535//22575960//22608085
chr1:67878787-67878788(-) m6A 3'UTR       24284625//24209618//24981863//28052920//27773535//22575960//22608085
chr1:67878853-67878854(-) m6A 3'UTR       24284625//24209618//24981863//28052920//27773535//22575960//22608085
chr1:67878874-67878875(-) m6A 3'UTR       24284625//24209618//24981863//28052920//27773535//27371828//22575960//22608085
chr1:67880856-67880857(-) m6A CDS//exon       24284625//24209618//24981863//27773535//27371828//22575960//22608085
chr1:67880870-67880871(-) m6A CDS//exon       24284625//24209618//24981863//27773535//27371828//22575960//22608085
chr1:67880936-67880937(-) m6A CDS//exon       24284625//24209618//24981863//27773535//27371828//22575960//22608085
chr1:67880996-67880997(-) m6A CDS//exon       24284625//24209618//24981863//27773535//27371828//22575960//22608085
chr1:67885538-67885539(-) m6A exon//intron       27773535
chr1:67885726-67885727(-) m1A CDS//exon       26863196
chr1:67885757-67885758(-) m6A CDS//exon       24981863//28052920//27773535
chr1:67885788-67885789(-) m6A CDS//exon       24981863//28052920//27773535
chr1:67885880-67885881(-) m6A exon//intron       24981863//28052920//27773535
chr1:67885888-67885889(-) m6A exon//intron       24981863//28052920//27773535
chr1:67886184-67886185(-) m6A exon//intron       24981863
chr1:67889894-67889895(-) m6A CDS//exon       24981863
chr1:67889911-67889912(-) m6A CDS//exon       24981863//27773535
chr1:67889928-67889929(-) m6A CDS//exon       24981863//27773535
chr1:67889980-67889981(-) m6A CDS//exon//intron       24981863//27773535
chr1:67890038-67890039(-) m6A exon//intron       24981863//28052920//27773535
chr1:67890061-67890062(-) m6A exon//intron       24981863//28052920//27773535
chr1:67890589-67890590(-) m6A CDS//exon       24981863//27773535//22575960
chr1:67890624-67890625(-) m6A CDS//exon       24209618//24981863//27773535//22575960
chr1:67891900-67891901(-) m6A CDS//exon       24209618//24981863//28052920//27773535//22575960
chr1:67891945-67891946(-) m6A CDS//exon       24209618//24981863//28052920//27773535//22575960
chr1:67891948-67891949(-) m1A CDS//exon       26863196
chr1:67895330-67895331(-) m6A exon//intron       25456834//24981863//27371828//27773536
chr1:67895744-67895745(-) m6A CDS       24209618//25456834//24981863//27371828//27773536//22575960
chr1:67895753-67895754(-) m6A CDS       24209618//25456834//24981863//27371828//27773536//22575960
chr1:67895779-67895780(-) m6A CDS       24209618//25456834//24981863//27371828//27773536//22575960
chr1:67895802-67895803(-) m6A CDS       24209618//25456834//24981863//27773535//27371828//27773536//22575960
chr1:67895876-67895877(-) m6A CDS       24209618//24981863//27773535//27371828//27773536//22575960
chr1:67895906-67895907(-) m6A CDS       24209618//24981863//27773535//27371828//27773536//22575960

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate SERBP1
Chromatin K562 cells     -
Cytoplasm Nasopharyngeal carcinoma cells     20498841
Cytoplasm Nasopharyngeal carcinoma cells     20498841
Cytoplasm Nasopharyngeal carcinoma cells     20498841
Cytoplasm Nasopharyngeal carcinoma cells     20498841
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Cytosol K562 cells     -
Exosome Blood     -
Nucleoplasm K562 cells     -
Nucleus Nasopharyngeal carcinoma cells     20498841
Nucleus Nasopharyngeal carcinoma cells     20498841
Nucleus Nasopharyngeal carcinoma cells     20498841
Nucleus Nasopharyngeal carcinoma cells     20498841
Nucleus HCC cell line (HepG2)     -
Ribosome HEK-293 cells     22199352
Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: ebv-miR-BART20-5p
Interactor2: SERBP1

Evidence Support:


Weak-Evidence PAR-CLIP
Prediction-Evidence miRanda//PARalyzer//Targetscan
Support Database ViRBase//VmiReg

References:


PMID 22100165 Target region 3'UTR
Source ViRBase//VmiReg Interactor1 expression None
Tissue or cell line BC-1 cells Interactor2 expression None
Description Using PAR-CLIP, a technology which allows the direct and transcriptome-wide identification of miRNA targets, we delineate the target sites for all viral and cellular miRNAs expressed in PEL cell lines. The resulting data set revealed that KSHV miRNAs directly target more than 2000 cellular mRNAs, including many involved in pathways relevant to KSHV pathogenesis. Moreover, 58% of these mRNAs are also targeted by EBV miRNAs, via distinct binding sites.Clusters with seed matches to expressed miRNAs were considered candidate target sites. Of the clusters mapping to human 3'UTRs, 69% (BC-1) and 70% (BC-3) had seed matches to expressed miRNAs (Tables S6).Table S6A BC-1 derived 3'UTR clusters with seed matches to expressed miRNAs.

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