Detail Information

Basic Information:


  VIRBase ID:  

VHID00365712

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6061

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART16:           CC2D1B:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol ebv-miR-BART16 CC2D1B
miRBase
Accession/Entrez ID		 MIMAT0003714 200014
Organism Human gammaherpesvirus 4 (Epstein-Barr virus, EPV) Homo sapiens
Category miRNA mRNA
Alias - Lgd1

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR CC2D1B
chr1:52816588(-) A-I      3'UTR
chr1:52817424(-) A-I      3'UTR
chr1:52816613(-) A-I      3'UTR
chr1:52816595(-) A-I      3'UTR
chr1:52816632(-) A-I      3'UTR
chr1:52829416(-) A-I      intronic
chr1:52829020(-) A-I      intronic
chr1:52828967(-) A-I      intronic
chr1:52829526(-) A-I      intronic
chr1:52829451(-) A-I      intronic
chr1:52829420(-) A-I      intronic
chr1:52816478(-) A-I      3'UTR
chr1:52817550(-) A-I      3'UTR
chr1:52816455(-) A-I      3'UTR
chr1:52816620(-) A-I      3'UTR
chr1:52816675(-) A-I      3'UTR
chr1:52817328(-) A-I      3'UTR
chr1:52817407(-) A-I      3'UTR
chr1:52817554(-) A-I      3'UTR
chr1:52817373(-) A-I      3'UTR
chr1:52817552(-) A-I      3'UTR
chr1:52816510(-) A-I      3'UTR
chr1:52816665(-) A-I      3'UTR
chr1:52817393(-) A-I      3'UTR
chr1:52816622(-) A-I      3'UTR
chr1:52817314(-) A-I      3'UTR
chr1:52816451(-) A-I      3'UTR
chr1:52817292(-) A-I      3'UTR
chr1:52817456(-) A-I      3'UTR
chr1:52816674(-) A-I      3'UTR
chr1:52816523(-) A-I      3'UTR
chr1:52816642(-) A-I      3'UTR
chr1:52816582(-) A-I      3'UTR
chr1:52817428(-) A-I      3'UTR
chr1:52816614(-) A-I      3'UTR
chr1:52816591(-) A-I      3'UTR
chr1:52817434(-) A-I      3'UTR
chr1:52816700(-) A-I      3'UTR
chr1:52816592(-) A-I      3'UTR
chr1:52816638(-) A-I      3'UTR
chr1:52817376(-) A-I      3'UTR
chr1:52817534(-) A-I      3'UTR
chr1:52816708(-) A-I      3'UTR
chr1:52828877(-) A-I      intronic
chr1:52816637(-) A-I      3'UTR
chr1:52817447(-) A-I      3'UTR
chr1:52817504(-) A-I      3'UTR
chr1:52817473(-) A-I      3'UTR
chr1:52817332(-) A-I      3'UTR
chr1:52817313(-) A-I      3'UTR
chr1:52817444(-) A-I      3'UTR
chr1:52817301(-) A-I      3'UTR
chr1:52817390(-) A-I      3'UTR
chr1:52816555(-) A-I      3'UTR
chr1:52817487(-) A-I      3'UTR
chr1:52817408(-) A-I      3'UTR
chr1:52816506(-) A-I      3'UTR
chr1:52816470(-) A-I      3'UTR
chr1:52816612(-) A-I      3'UTR
chr1:52816623(-) A-I      3'UTR
chr1:52817399(-) A-I      3'UTR
chr1:52816597(-) A-I      3'UTR
chr1:52817432(-) A-I      3'UTR
chr1:52816515(-) A-I      3'UTR
chr1:52830491(-) A-I      intronic
chr1:52816598(-) A-I      3'UTR
chr1:52816692(-) A-I      3'UTR
chr1:52816596(-) A-I      3'UTR
chr1:52816646(-) A-I      3'UTR
chr1:52817323(-) A-I      3'UTR
chr1:52816585(-) A-I      3'UTR
chr1:52817493(-) A-I      3'UTR
chr1:52816546(-) A-I      3'UTR
chr1:52817364(-) A-I      3'UTR
chr1:52816556(-) A-I      3'UTR
chr1:52817480(-) A-I      3'UTR
chr1:52816503(-) A-I      3'UTR
chr1:52816691(-) A-I      3'UTR
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED CC2D1B
chr1:52816470(-) A-I exon 3'UTR    15342557
chr1:52816503(-) A-I exon 3'UTR    15342557
chr1:52816510(-) A-I exon 3'UTR    15342557
chr1:52816555(-) A-I exon 3'UTR    15342557
chr1:52816556(-) A-I exon 3'UTR    15342557
chr1:52816591(-) A-I exon 3'UTR    15342557   //22327324
chr1:52816592(-) A-I exon 3'UTR    15342557
chr1:52816612(-) A-I exon 3'UTR    15342557
chr1:52816622(-) A-I exon 3'UTR    15342557
chr1:52816623(-) A-I exon 3'UTR    15342557
chr1:52816637(-) A-I exon 3'UTR    15342557
chr1:52816638(-) A-I exon 3'UTR    15342557
chr1:52816646(-) A-I exon 3'UTR    15342557
chr1:52816674(-) A-I exon 3'UTR    15342557
chr1:52817323(-) A-I exon 3'UTR    15342557
chr1:52817364(-) A-I exon 3'UTR    15342557
chr1:52817376(-) A-I exon 3'UTR    15342557
chr1:52817390(-) A-I exon 3'UTR    15342557
chr1:52817393(-) A-I exon 3'UTR    15342557
chr1:52817399(-) A-I exon 3'UTR    15342557
chr1:52817408(-) A-I exon 3'UTR    15342557   //15258596
chr1:52817428(-) A-I exon 3'UTR    15342557   //15258596
chr1:52817434(-) A-I exon 3'UTR    15342557   //15258596   //22327324
chr1:52817447(-) A-I exon 3'UTR    15342557
chr1:52817473(-) A-I exon 3'UTR    15342557
chr1:52817480(-) A-I exon 3'UTR    15342557
chr1:52817487(-) A-I exon 3'UTR    15342557
chr1:52817493(-) A-I exon 3'UTR    15342557
chr1:52817504(-) A-I exon 3'UTR    15342557
chr1:52817534(-) A-I exon 3'UTR    15342557   //15258596   //21960545
chr1:52816582(-) A-I exon 3'UTR    22327324
chr1:52816506(-) A-G exon 3'UTR    22484847
chr1:52816510(-) A-G exon 3'UTR    22484847
chr1:52816556(-) A-G exon 3'UTR    22484847
chr1:52816582(-) A-G exon 3'UTR    22484847
chr1:52816585(-) A-G exon 3'UTR    22484847
chr1:52816591(-) A-G exon 3'UTR    22484847
chr1:52816612(-) A-G exon 3'UTR    22484847
chr1:52816622(-) A-G exon 3'UTR    22484847
chr1:52816638(-) A-G exon 3'UTR    22484847
chr1:52816642(-) A-G exon 3'UTR    22484847
chr1:52816691(-) A-G exon 3'UTR    22484847
chr1:52817373(-) A-G exon 3'UTR    22484847
chr1:52817376(-) A-G exon 3'UTR    22484847
chr1:52817390(-) A-G exon 3'UTR    22484847
chr1:52817393(-) A-G exon 3'UTR    22484847
chr1:52817399(-) A-G exon 3'UTR    22484847
chr1:52817419(-) T-C exon 3'UTR    22484847
chr1:52817428(-) A-G exon 3'UTR    22484847
chr1:52817434(-) A-G exon 3'UTR    22484847
chr1:52817436(-) T-C exon 3'UTR    22484847
chr1:52817473(-) A-G exon 3'UTR    22484847
chr1:52817480(-) A-G exon 3'UTR    22484847
chr1:52817534(-) A-G exon 3'UTR    22484847
chr1:52828877(-) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase CC2D1B
chr1:52816287-52816288(-) m6A 3'UTR//intron       24981863
chr1:52816408-52816409(-) m6A 3'UTR//intron       27773535
chr1:52816431-52816432(-) m6A 3'UTR//intron       27773535
chr1:52816444-52816445(-) m6A 3'UTR//intron       27773535
chr1:52818201-52818202(-) m6A 3'UTR//intron       24981863//27773535
chr1:52818245-52818246(-) m6A 3'UTR//exon//intron       24284625//24981863//27773535//27371828//22608085
chr1:52818340-52818341(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//27773535//27371828//22608085
chr1:52818416-52818417(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr1:52818482-52818483(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085
chr1:52818500-52818501(-) m6A 3'UTR//exon//intron       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085
chr1:52818635-52818636(-) m6A 3'UTR//exon//intron       24284625//24209618//24981863//27773535//22608085
chr1:52818703-52818704(-) m6A 3'UTR//exon//intron       24284625//24209618//24981863//27773535//27371828
chr1:52818777-52818778(-) m6A 3'UTR//exon//intron       24284625//24981863//27773535//27371828
chr1:52818926-52818927(-) m6A 3'UTR//exon//intron       24284625
chr1:52819221-52819222(-) m6A CDS//exon//intron       27371828
chr1:52820053-52820054(-) m6A exon//intron       25456834//24981863//27371828
chr1:52820086-52820087(-) m6A exon//intron       25456834//24981863//27371828
chr1:52820574-52820575(-) m6A CDS//exon       27773535
chr1:52820586-52820587(-) m6A CDS//exon       27773535
chr1:52820591-52820592(-) m6A CDS//exon       27773535
chr1:52821077-52821078(-) m6A CDS//exon       27773535
chr1:52821083-52821084(-) m6A CDS//exon       27773535
chr1:52821099-52821100(-) m6A CDS//exon       27773535
chr1:52821119-52821120(-) m6A CDS//exon       27773535
chr1:52821459-52821460(-) m6A CDS//exon       27371828
chr1:52821503-52821504(-) m6A CDS//exon       27371828
chr1:52821864-52821865(-) m6A CDS//exon       27371828
chr1:52821873-52821874(-) m6A CDS//exon       27371828
chr1:52821943-52821944(-) m6A CDS//exon       27773535//27773536
chr1:52821953-52821954(-) m6A CDS//exon       27773535//27773536
chr1:52822062-52822063(-) m6A CDS//exon       27773535
chr1:52823335-52823336(-) m6A CDS//exon       24284625
chr1:52823534-52823535(-) m6A CDS//exon       24284625
chr1:52823606-52823607(-) m6A exon//intron       24284625
chr1:52823645-52823646(-) m6A exon//intron       24284625
chr1:52824050-52824051(-) m6A CDS//exon       27773536
chr1:52824777-52824778(-) m6A CDS//exon       27773536
chr1:52824808-52824809(-) m6A CDS//exon       27773536
chr1:52825407-52825408(-) m6A CDS//exon       24284625//27371828
chr1:52825485-52825486(-) m6A CDS//exon       24284625//27371828//27773536
chr1:52825491-52825492(-) m6A CDS//exon       24284625//27371828//27773536
chr1:52825497-52825498(-) m6A CDS//exon//intron       24284625//27371828//27773536
chr1:52825534-52825535(-) m6A CDS//exon//intron       24284625//27773535//27371828//27773536
chr1:52825778-52825779(-) m6A CDS//exon       24284625//27773535//27371828//27773536
chr1:52825800-52825801(-) m6A CDS//exon       24284625//27773535//27371828//27773536
chr1:52826494-52826495(-) m6A exon//intron       27773536
chr1:52826508-52826509(-) m6A exon//intron       27773536
chr1:52826538-52826539(-) m6A exon//intron       27773536
chr1:52826680-52826681(-) m6A CDS//exon       24284625//24209618//27773535//27371828
chr1:52826693-52826694(-) m6A CDS//exon       24284625//24209618//27773535//27371828
chr1:52826700-52826701(-) m6A CDS//exon       24284625//24209618//25456834//24981863//27773535//27371828
chr1:52826767-52826768(-) m6A CDS//exon       24284625//24209618//25456834//24981863//27773535//27371828//27773536
chr1:52827248-52827249(-) m6A CDS//exon       24284625//24209618//25456834//24981863//27773535//27371828//27773536
chr1:52828306-52828307(-) m6A CDS//exon       24284625//24209618//27773535//27371828//27773536
chr1:52828347-52828348(-) m6A CDS//exon       24284625//24209618//27773535//27371828//27773536
chr1:52828386-52828387(-) m6A CDS//exon       24284625//24209618//27773535//27371828//27773536
chr1:52830274-52830275(-) m6A CDS//exon       24284625//27773535//27371828//27773536

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate CC2D1B
Chromatin K562 cells     -
Cytoplasm Nasopharyngeal carcinoma cells     20498841
Cytosol HCC cell line (HepG2)|K562 cells     -
Exosome Blood     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus Nasopharyngeal carcinoma cells     20498841
Nucleus HCC cell line (HepG2)|K562 cells     -
Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: ebv-miR-BART16
Interactor2: CC2D1B

Evidence Support:


Weak-Evidence PAR-CLIP
Prediction-Evidence cRep//miRanda//PARalyzer//PITA//Rep//Targetscan
Support Database RepTar//ViRBase//VIRmiRNA//VmiReg

References:


PMID 22100165 Target region 3'UTR
Source RepTar//ViRBase//VIRmiRNA//VmiReg Interactor1 expression None
Tissue or cell line BC-1 cells Interactor2 expression Downregulation
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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