Basic Information:

  VIRBase ID:  

VHID00386928

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.6040

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      ebv-miR-BART20-5p:  MIMAT0003719          PRPF38A:  NM_032864     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	ebv-miR-BART20-5p	PRPF38A
miRBase Accession/Entrez ID	MIMAT0003719	84950
Organism	Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	Prp38//PRP38A

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	PRPF38A	chr1:52875099(+) A-I      intronic chr1:52878528(+) A-I      intronic chr1:52871725(+) A-I      intronic chr1:52875063(+) A-I      intronic chr1:52875076(+) A-I      intronic chr1:52871790(+) A-I      intronic chr1:52875058(+) A-I      intronic chr1:52875084(+) A-I      intronic chr1:52878567(+) A-I      intronic chr1:52876310(+) A-I      intronic chr1:52876291(+) A-I      intronic chr1:52876275(+) A-I      intronic chr1:52876273(+) A-I      intronic chr1:52875923(+) A-I      intronic chr1:52875886(+) A-I      intronic chr1:52875269(+) A-I      intronic chr1:52875237(+) A-I      intronic chr1:52873640(+) A-I      intronic chr1:52873464(+) A-I      intronic chr1:52873466(+) A-I      intronic chr1:52873542(+) A-I      intronic chr1:52873549(+) A-I      intronic chr1:52873551(+) A-I      intronic chr1:52873552(+) A-I      intronic chr1:52871761(+) A-I      intronic chr1:52873568(+) A-I      intronic chr1:52873580(+) A-I      intronic chr1:52871899(+) A-I      intronic chr1:52871944(+) A-I      intronic chr1:52871954(+) A-I      intronic chr1:52871740(+) A-I      intronic chr1:52873639(+) A-I      intronic chr1:52873463(+) A-I      intronic chr1:52875121(+) A-I      intronic chr1:52873473(+) A-I      intronic chr1:52872950(+) A-I      intronic chr1:52878553(+) A-I      intronic chr1:52875176(+) A-I      intronic chr1:52875087(+) A-I      intronic chr1:52873774(+) A-I      intronic chr1:52875162(+) A-I      intronic chr1:52876448(+) A-I      intronic chr1:52875204(+) A-I      intronic chr1:52871760(+) A-I      intronic chr1:52873472(+) A-I      intronic chr1:52875163(+) A-I      intronic chr1:52875854(+) A-I      intronic chr1:52875019(+) A-I      intronic chr1:52875006(+) A-I      intronic chr1:52875919(+) A-I      intronic chr1:52875021(+) A-I      intronic chr1:52876402(+) A-I      intronic chr1:52872856(+) A-I      intronic chr1:52875136(+) A-I      intronic chr1:52879253(+) A-I      intronic chr1:52872896(+) A-I      intronic chr1:52879193(+) A-I      intronic chr1:52875073(+) A-I      intronic chr1:52879102(+) A-I      intronic chr1:52871938(+) A-I      intronic chr1:52873338(+) A-I      intronic chr1:52873518(+) A-I      intronic chr1:52875924(+) A-I      intronic chr1:52876357(+) A-I      intronic chr1:52879194(+) A-I      intronic chr1:52873562(+) A-I      intronic chr1:52876354(+) A-I      intronic chr1:52871741(+) A-I      intronic chr1:52875195(+) A-I      intronic chr1:52875122(+) A-I      intronic chr1:52873337(+) A-I      intronic chr1:52878554(+) A-I      intronic chr1:52876303(+) A-I      intronic chr1:52873331(+) A-I      intronic chr1:52876248(+) A-I      intronic chr1:52875895(+) A-I      intronic chr1:52876267(+) A-I      intronic chr1:52875107(+) A-I      intronic chr1:52873608(+) A-I      intronic chr1:52875096(+) A-I      intronic chr1:52876361(+) A-I      intronic chr1:52873544(+) A-I      intronic chr1:52875172(+) A-I      intronic chr1:52879142(+) A-I      intronic chr1:52872770(+) A-I      intronic chr1:52879161(+) A-I      intronic chr1:52873494(+) A-I      intronic chr1:52875232(+) A-I      intronic chr1:52875168(+) A-I      intronic chr1:52875041(+) A-I      intronic chr1:52871686(+) A-I      intronic chr1:52875956(+) A-I      intronic chr1:52876457(+) A-I      intronic chr1:52876278(+) A-I      intronic chr1:52872932(+) A-I      intronic chr1:52876274(+) A-I      intronic chr1:52873605(+) A-I      intronic chr1:52873565(+) A-I      intronic chr1:52871778(+) A-I      intronic chr1:52876243(+) A-I      intronic chr1:52876205(+) A-I      intronic chr1:52876313(+) A-I      intronic chr1:52876383(+) A-I      intronic chr1:52875270(+) A-I      intronic chr1:52873383(+) A-I      intronic chr1:52875123(+) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	PRPF38A	chr1:52875019(+) A-I intron -    22327324 chr1:52875021(+) A-I intron -    22327324 chr1:52875041(+) A-I intron -    22327324 chr1:52875162(+) A-I intron -    22327324 chr1:52875122(+) A-I intron -    21960545 chr1:52871741(+) A-G intron -    22484847 chr1:52871778(+) A-G intron -    22484847 chr1:52872770(+) A-G intron -    22484847 chr1:52873494(+) A-G intron -    22484847 chr1:52873565(+) A-G intron -    22484847 chr1:52873605(+) A-G intron -    22484847 chr1:52873608(+) A-G intron -    22484847 chr1:52873774(+) A-G intron -    22484847 chr1:52875019(+) A-G intron -    22484847 chr1:52875021(+) A-G intron -    22484847 chr1:52875041(+) A-G intron -    22484847 chr1:52875096(+) A-G intron -    22484847 chr1:52875107(+) A-G intron -    22484847 chr1:52875121(+) A-G intron -    22484847 chr1:52875122(+) A-G intron -    22484847 chr1:52875123(+) A-G intron -    22484847 chr1:52875136(+) A-G intron -    22484847 chr1:52875162(+) A-G intron -    22484847 chr1:52875163(+) A-G intron -    22484847 chr1:52875168(+) A-G intron -    22484847 chr1:52875172(+) A-G intron -    22484847 chr1:52875895(+) A-G intron -    22484847 chr1:52875919(+) A-G intron -    22484847 chr1:52875924(+) A-G intron -    22484847 chr1:52876205(+) A-G intron -    22484847 chr1:52876243(+) A-G intron -    22484847 chr1:52876248(+) A-G intron -    22484847 chr1:52876267(+) A-G intron -    22484847 chr1:52876278(+) A-G intron -    22484847 chr1:52876303(+) A-G intron -    22484847 chr1:52876313(+) A-G intron -    22484847 chr1:52876354(+) A-G intron -    22484847 chr1:52876357(+) A-G intron -    22484847 chr1:52876402(+) A-G intron -    22484847 chr1:52878553(+) A-G intron -    22484847 chr1:52878554(+) A-G intron -    22484847 chr1:52879102(+) A-G intron -    22484847 chr1:52879142(+) A-G intron -    22484847 chr1:52879161(+) A-G intron -    22484847 chr1:52879193(+) A-G intron -    22484847 chr1:52879194(+) A-G intron -    22484847 chr1:52879253(+) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	PRPF38A	chr1:52870323-52870324(+) m6A 5'UTR//exon       24284625//24981863 chr1:52870365-52870366(+) m6A 5'UTR//exon       24284625//24981863 chr1:52878246-52878247(+) m6A CDS//exon       27773535 chr1:52879596-52879597(+) m6A CDS//exon       27773535 chr1:52879602-52879603(+) m6A CDS//exon       - chr1:52881028-52881029(+) m6A CDS//exon       24284625//25456834//24981863//27773535 chr1:52882365-52882366(+) m6A 3'UTR//exon       24284625//25456834//24981863//27773535//22608085 chr1:52882582-52882583(+) m6A 3'UTR//exon       27773535 chr1:52883198-52883199(+) m6A 3'UTR       24981863 chr1:52883279-52883280(+) m6A 3'UTR       24981863//27773535 chr1:52883300-52883301(+) m6A 3'UTR       24981863//27773535 chr1:52883328-52883329(+) m6A 3'UTR       24981863//27773535 chr1:52883398-52883399(+) m6A 3'UTR       27773535//22608085 chr1:52883441-52883442(+) m6A 3'UTR       24284625//24209618//24981863//27773535//22608085 chr1:52883489-52883490(+) m6A 3'UTR       24284625//24209618//25456834//24981863//27773535//22608085 chr1:52883512-52883513(+) m6A 3'UTR       24284625//24209618//25456834//24981863//27773535//22608085 chr1:52883577-52883578(+) m6A 3'UTR       24284625//24209618//25456834//24981863//27773535//22608085 chr1:52883595-52883596(+) m6A 3'UTR       24284625//24209618//25456834//24981863//27773535//22608085 chr1:52883713-52883714(+) m6A 3'UTR       24284625//24209618//25456834//24981863//22608085 chr1:52883722-52883723(+) m6A 3'UTR       24284625//24209618//25456834//24981863//22608085 chr1:52883780-52883781(+) m6A 3'UTR       24981863//22608085 chr1:52883818-52883819(+) m6A 3'UTR       22608085 chr1:52885242-52885243(+) m6A 3'UTR       24981863//27773535//22608085 chr1:52885249-52885250(+) m6A 3'UTR       24981863//27773535//22608085 chr1:52885335-52885336(+) m6A 3'UTR       24981863//27773535//22608085 chr1:52885343-52885344(+) m6A 3'UTR       24981863//27773535//22608085 chr1:52885350-52885351(+) m6A 3'UTR       24981863//27773535//22608085 chr1:52885700-52885701(+) m6A 3'UTR       24981863

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	PRPF38A	Chromatin K562 cells     - Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Cytosol HCC cell line (HepG2)|K562 cells     - Exosome Blood     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus HCC cell line (HepG2)|K562 cells     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: ebv-miR-BART20-5p
Interactor2: PRPF38A

Evidence Support:

Weak-Evidence	PAR-CLIP
Prediction-Evidence	cRep//miRanda//PARalyzer//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	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.