Detail Information

Basic Information:


  VIRBase ID:  

VHID00482697

  Virus:  

Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6002

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      kshv-miR-K12-11-5p:           HECA:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol kshv-miR-K12-11-5p HECA
miRBase
Accession/Entrez ID		 MIMAT0015213 51696
Organism Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV) Homo sapiens
Category miRNA mRNA
Alias - dJ225E12.1//HDC//HDCL//HHDC

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR HECA
chr6:139462990(+) A-I      intronic
chr6:139462914(+) A-I      intronic
chr6:139461947(+) A-I      intronic
chr6:139479236(+) A-I      intronic
chr6:139477556(+) A-I      intronic
chr6:139477544(+) A-I      intronic
chr6:139477537(+) A-I      intronic
chr6:139463965(+) A-I      intronic
chr6:139468587(+) A-I      intronic
chr6:139464887(+) A-I      intronic
chr6:139477479(+) A-I      intronic
chr6:139464822(+) A-I      intronic
chr6:139463806(+) A-I      intronic
chr6:139464877(+) A-I      intronic
chr6:139468563(+) A-I      intronic
chr6:139474653(+) A-I      intronic
chr6:139477581(+) A-I      intronic
chr6:139468507(+) A-I      intronic
chr6:139468521(+) A-I      intronic
chr6:139464812(+) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED HECA
chr6:139463270(+) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase HECA
chr6:139456412-139456413(+) m6A 5'UTR       24209618
chr6:139456549-139456550(+) m6A CDS       24209618//27371828
chr6:139456570-139456571(+) m6A CDS       24209618//27371828
chr6:139487468-139487469(+) m6A CDS       24209618
chr6:139487633-139487634(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr6:139487641-139487642(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr6:139487711-139487712(+) m6A CDS       24284625//24209618//25456834//24981863//26404942//27371828//22575960//22608085
chr6:139487717-139487718(+) m6A CDS       24284625//24209618//25456834//24981863//26404942//27371828//22575960//22608085
chr6:139487777-139487778(+) m6A CDS       24284625//24209618//25456834//24981863//26404942//27371828//22575960//22608085
chr6:139487885-139487886(+) m6A CDS       24284625//24209618//25456834//24981863//27371828//22608085
chr6:139487894-139487895(+) m6A CDS       24284625//24209618//25456834//24981863//27371828//22608085
chr6:139488153-139488154(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr6:139488191-139488192(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr6:139488201-139488202(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr6:139488233-139488234(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr6:139488284-139488285(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr6:139488338-139488339(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr6:139488375-139488376(+) m6A CDS       24284625//24209618//25456834//24981863//22608085
chr6:139488397-139488398(+) m6A CDS       24284625//24209618//25456834//24981863//22608085
chr6:139488420-139488421(+) m6A CDS       24284625//24209618//25456834//24981863//22608085
chr6:139495525-139495526(+) m6A CDS       24284625//24209618//25456834//24981863//22608085
chr6:139495554-139495555(+) m6A CDS       -
chr6:139500156-139500157(+) m6A 3'UTR       26404942
chr6:139500211-139500212(+) m6A 3'UTR       26404942
chr6:139500249-139500250(+) m6A 3'UTR       26404942
chr6:139500265-139500266(+) m6A 3'UTR       26404942
chr6:139500591-139500592(+) m6A 3'UTR       26404942
chr6:139500641-139500642(+) m6A 3'UTR       26404942
chr6:139501402-139501403(+) m6A 3'UTR       26404942
chr6:139501410-139501411(+) m6A 3'UTR       26404942
chr6:139501423-139501424(+) m6A 3'UTR       26404942

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate HECA
Cytoplasm Nasopharyngeal carcinoma cells     20498841
Exosome Blood     -
Nucleoplasm K562 cells     -
Nucleus Nasopharyngeal carcinoma cells     20498841
Nucleus HeLa-S3 cells     -
Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: kshv-miR-K12-11-5p
Interactor2: HECA

Evidence Support:


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

References:


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