Basic Information:

  VIRBase ID:  

VHID00486780

  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-K12-1-3p:  MIMAT0015214          SDE2:  NM_152608     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-1-3p	SDE2
miRBase Accession/Entrez ID	MIMAT0015214	163859
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	C1orf55//dJ671D7.1

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	SDE2	chr1:226185301(-) A-I      intronic chr1:226173964(-) A-I      intronic chr1:226174882(-) A-I      intronic chr1:226174883(-) A-I      intronic chr1:226174901(-) A-I      intronic chr1:226181563(-) A-I      intronic chr1:226174850(-) A-I      intronic chr1:226181568(-) A-I      intronic chr1:226181986(-) A-I      intronic chr1:226171349(-) A-I      3'UTR chr1:226171334(-) A-I      3'UTR chr1:226172277(-) A-I      3'UTR chr1:226185665(-) A-I      intronic chr1:226185405(-) A-I      intronic chr1:226185398(-) A-I      intronic chr1:226185321(-) A-I      intronic chr1:226185310(-) A-I      intronic chr1:226185304(-) A-I      intronic chr1:226185299(-) A-I      intronic chr1:226185268(-) A-I      intronic chr1:226185263(-) A-I      intronic chr1:226185693(-) A-I      intronic chr1:226177230(-) A-I      intronic chr1:226182601(-) A-I      intronic chr1:226173847(-) A-I      intronic chr1:226171262(-) A-I      3'UTR chr1:226173908(-) A-I      intronic chr1:226172503(-) A-I      3'UTR chr1:226185766(-) A-I      intronic chr1:226185746(-) A-I      intronic chr1:226173935(-) A-I      intronic chr1:226182659(-) A-I      intronic chr1:226173947(-) A-I      intronic chr1:226182633(-) A-I      intronic chr1:226182709(-) A-I      intronic chr1:226182650(-) A-I      intronic chr1:226185279(-) A-I      intronic chr1:226185392(-) A-I      intronic chr1:226181582(-) A-I      intronic chr1:226185295(-) A-I      intronic chr1:226171340(-) A-I      3'UTR chr1:226182597(-) A-I      intronic chr1:226185427(-) A-I      intronic chr1:226177297(-) A-I      intronic chr1:226185259(-) A-I      intronic chr1:226173819(-) A-I      intronic chr1:226173812(-) A-I      intronic chr1:226172464(-) A-I      3'UTR chr1:226172255(-) A-I      3'UTR chr1:226172322(-) A-I      3'UTR chr1:226180134(-) A-I      NonSyn:Glu->Gly chr1:226185291(-) A-I      intronic chr1:226185745(-) A-I      intronic chr1:226185334(-) A-I      intronic chr1:226185627(-) A-I      intronic chr1:226181673(-) A-I      intronic chr1:226181665(-) A-I      intronic chr1:226181581(-) A-I      intronic chr1:226185374(-) A-I      intronic chr1:226181916(-) A-I      intronic chr1:226185671(-) A-I      intronic chr1:226181608(-) A-I      intronic chr1:226181957(-) A-I      intronic chr1:226181845(-) A-I      intronic chr1:226173867(-) A-I      intronic chr1:226185311(-) A-I      intronic chr1:226171362(-) A-I      3'UTR chr1:226185300(-) A-I      intronic chr1:226171400(-) A-I      3'UTR chr1:226173938(-) A-I      intronic chr1:226173925(-) A-I      intronic chr1:226171826(-) A-I      3'UTR chr1:226185227(-) A-I      intronic chr1:226171280(-) A-I      3'UTR chr1:226185791(-) A-I      intronic chr1:226171865(-) A-I      3'UTR chr1:226185228(-) A-I      intronic chr1:226171341(-) A-I      3'UTR chr1:226185336(-) A-I      intronic chr1:226173960(-) A-I      intronic chr1:226185790(-) A-I      intronic chr1:226173837(-) A-I      intronic chr1:226171378(-) A-I      3'UTR chr1:226173873(-) A-I      intronic chr1:226185161(-) A-I      intronic chr1:226173895(-) A-I      intronic chr1:226173939(-) A-I      intronic chr1:226173850(-) A-I      intronic chr1:226171377(-) A-I      3'UTR chr1:226185597(-) A-I      intronic

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	SDE2	chr1:226172339-226172340(-) m6A 3'UTR       24284625 chr1:226172938-226172939(-) m6A 3'UTR       27773535//22608085 chr1:226173065-226173066(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226173083-226173084(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226173122-226173123(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226173137-226173138(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226173173-226173174(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226173208-226173209(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226175623-226175624(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226175685-226175686(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226175697-226175698(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226175716-226175717(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226175746-226175747(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226175763-226175764(-) m1A CDS       26863196 chr1:226175775-226175776(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226175784-226175785(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226175843-226175844(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226175890-226175891(-) m6A CDS       24284625//24209618//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226175906-226175907(-) m6A CDS       24284625//24209618//24981863//28052920//27773535//27371828//22575960//22608085 chr1:226176066-226176067(-) m6A CDS       24284625//24209618//24981863//27773535//27371828//27773536//22575960//22608085 chr1:226176073-226176074(-) m6A CDS       24284625//24209618//24981863//27773535//27371828//27773536//22575960//22608085 chr1:226178983-226178984(-) m6A CDS       24981863//27773535//27371828//27773536//22575960//22608085 chr1:226180180-226180181(-) m6A CDS       27773535 chr1:226180249-226180250(-) m6A CDS       27773535 chr1:226180617-226180618(-) m6A CDS       27773535 chr1:226180658-226180659(-) m6A CDS       27773535 chr1:226182985-226182986(-) m6A CDS       27773535 chr1:226182991-226182992(-) m6A CDS       27773535

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	SDE2	Chromatin K562 cells     - Cytoplasm Nasopharyngeal carcinoma cells     20498841 Cytosol Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Nucleolus K562 cells     - Nucleoplasm K562 cells     - Nucleus Nasopharyngeal carcinoma cells     20498841 Nucleus K562 cells     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-1-3p
Interactor2: SDE2

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.