Basic Information:

  VIRBase ID:  

VHID00492548

  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-K12-8-5p:  MIMAT0015216          TMEM39A:  NR_073506     

      *It may take a few minutes to display results.

Interactor Information:

	Interactor1	Interactor2
Symbol	kshv-miR-K12-8-5p	TMEM39A
miRBase Accession/Entrez ID	MIMAT0015216	55254
Organism	Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV)	Homo sapiens
Category	miRNA	mRNA
Alias	-	SUSR2

RNA Editing:

Resource	Symbol	Editing Position	Change	Genetic Region
RADAR	TMEM39A	chr3:119166646(-) A-I      intronic chr3:119166649(-) A-I      intronic chr3:119166674(-) A-I      intronic chr3:119164276(-) A-I      intronic chr3:119166675(-) A-I      intronic chr3:119163840(-) A-I      intronic chr3:119175603(-) A-I      intronic chr3:119166666(-) A-I      intronic chr3:119168410(-) A-I      intronic chr3:119166644(-) A-I      intronic chr3:119166640(-) A-I      intronic chr3:119166639(-) A-I      intronic chr3:119166638(-) A-I      intronic chr3:119166583(-) A-I      intronic chr3:119166580(-) A-I      intronic chr3:119166524(-) A-I      intronic chr3:119164284(-) A-I      intronic chr3:119164283(-) A-I      intronic chr3:119162545(-) A-I      intronic chr3:119164240(-) A-I      intronic chr3:119161078(-) A-I      intronic chr3:119161081(-) A-I      intronic chr3:119161082(-) A-I      intronic chr3:119169606(-) A-I      intronic chr3:119169503(-) A-I      intronic chr3:119169489(-) A-I      intronic chr3:119169477(-) A-I      intronic chr3:119169465(-) A-I      intronic chr3:119161156(-) A-I      intronic chr3:119168391(-) A-I      intronic chr3:119168386(-) A-I      intronic chr3:119168334(-) A-I      intronic chr3:119168286(-) A-I      intronic chr3:119168273(-) A-I      intronic chr3:119168164(-) A-I      intronic chr3:119168155(-) A-I      intronic chr3:119158316(-) A-I      intronic chr3:119169582(-) A-I      intronic chr3:119168312(-) A-I      intronic chr3:119164384(-) A-I      intronic chr3:119164305(-) A-I      intronic chr3:119164223(-) A-I      intronic chr3:119163921(-) A-I      intronic chr3:119163832(-) A-I      intronic chr3:119164214(-) A-I      intronic chr3:119168255(-) A-I      intronic chr3:119175982(-) A-I      intronic chr3:119158814(-) A-I      intronic chr3:119163751(-) A-I      intronic chr3:119166596(-) A-I      intronic chr3:119163805(-) A-I      intronic chr3:119166568(-) A-I      intronic chr3:119166672(-) A-I      intronic chr3:119162629(-) A-I      intronic chr3:119169616(-) A-I      intronic chr3:119168264(-) A-I      intronic chr3:119166641(-) A-I      intronic chr3:119158894(-) A-I      intronic chr3:119158703(-) A-I      intronic chr3:119166751(-) A-I      intronic chr3:119158768(-) A-I      intronic chr3:119166667(-) A-I      intronic chr3:119158822(-) A-I      intronic chr3:119158712(-) A-I      intronic chr3:119164249(-) A-I      intronic chr3:119158680(-) A-I      intronic chr3:119166664(-) A-I      intronic chr3:119158648(-) A-I      intronic chr3:119168229(-) A-I      intronic chr3:119158779(-) A-I      intronic chr3:119163749(-) A-I      intronic chr3:119158706(-) A-I      intronic chr3:119164204(-) A-I      intronic chr3:119158833(-) A-I      intronic chr3:119168365(-) A-I      intronic chr3:119168313(-) A-I      intronic chr3:119161025(-) A-I      intronic chr3:119158769(-) A-I      intronic chr3:119168241(-) A-I      intronic chr3:119166593(-) A-I      intronic chr3:119158743(-) A-I      intronic chr3:119163827(-) A-I      intronic chr3:119176012(-) A-I      intronic

Resource	Symbol	Editing Position	Change	SeqReg	exReg	PMID
DARNED	TMEM39A	chr3:119163832(-) A-I intron -    22327324 chr3:119166600(-) A-I intron -    22327324 chr3:119166751(-) A-I intron -    22327324 chr3:119166753(-) A-I intron -    22327324 chr3:119169616(-) A-I intron -    22327324 chr3:119163805(-) A-I intron -    21960545 chr3:119154426(-) T-A intron -    22484847 chr3:119158170(-) T-C intron -    22484847 chr3:119158279(-) A-G intron -    22484847 chr3:119158281(-) T-C intron -    22484847 chr3:119158681(-) A-G intron -    22484847 chr3:119158768(-) A-G intron -    22484847 chr3:119158779(-) A-G intron -    22484847 chr3:119158814(-) A-G intron -    22484847 chr3:119158822(-) A-G intron -    22484847 chr3:119158833(-) A-G intron -    22484847 chr3:119158894(-) A-G intron -    22484847 chr3:119163749(-) A-G intron -    22484847 chr3:119163827(-) A-G intron -    22484847 chr3:119163832(-) A-G intron -    22484847 chr3:119163841(-) A-G intron -    22484847 chr3:119163845(-) A-G intron -    22484847 chr3:119164214(-) A-G intron -    22484847 chr3:119164223(-) A-G intron -    22484847 chr3:119166540(-) A-G intron -    22484847 chr3:119166557(-) A-G intron -    22484847 chr3:119166568(-) A-G intron -    22484847 chr3:119166600(-) A-G intron -    22484847 chr3:119166653(-) A-G intron -    22484847 chr3:119166664(-) A-G intron -    22484847 chr3:119166667(-) A-G intron -    22484847 chr3:119166672(-) A-G intron -    22484847 chr3:119166690(-) A-G intron -    22484847 chr3:119166751(-) A-G intron -    22484847 chr3:119166753(-) A-G intron -    22484847 chr3:119168146(-) A-G intron -    22484847 chr3:119168176(-) A-G intron -    22484847 chr3:119168229(-) A-G intron -    22484847 chr3:119168241(-) A-G intron -    22484847 chr3:119168255(-) A-G intron -    22484847 chr3:119168264(-) A-G intron -    22484847 chr3:119168309(-) A-G intron -    22484847 chr3:119168312(-) A-G intron -    22484847 chr3:119168313(-) A-G intron -    22484847 chr3:119168390(-) A-G intron -    22484847 chr3:119168429(-) A-G intron -    22484847 chr3:119169557(-) A-G intron -    22484847 chr3:119169582(-) A-G intron -    22484847 chr3:119169593(-) A-G intron -    22484847 chr3:119169616(-) A-G intron -    22484847 chr3:119169673(-) G-T intron -    22484847 chr3:119175523(-) T-C intron -    22484847 chr3:119176012(-) A-G intron -    22484847

RNA Modification:

Resource	Symbol	ModificationPosition	Type	Genomic Context	PMID
RMBase	TMEM39A	chr3:119149057-119149058(-) m6A 3'UTR       27773535 chr3:119149130-119149131(-) m6A 3'UTR       27773535 chr3:119149207-119149208(-) m6A 3'UTR       27773535 chr3:119150355-119150356(-) Y 3'UTR       26075521 chr3:119150802-119150803(-) m6A 3'UTR       24284625//24981863//22608085 chr3:119150831-119150832(-) m6A 3'UTR//CDS       24284625//24981863//27773535//22608085 chr3:119150842-119150843(-) m6A 3'UTR//CDS       24284625//24981863//27773535//22608085 chr3:119150891-119150892(-) m6A 3'UTR//CDS       24284625//24981863//27773535//22608085 chr3:119150902-119150903(-) m6A 3'UTR//CDS       24284625//24981863//27773535//22608085 chr3:119150957-119150958(-) m6A 3'UTR//CDS       24284625//24981863//27773535//22608085 chr3:119155478-119155479(-) m6A exon//intron       27773535 chr3:119155492-119155493(-) m6A exon//intron       27773535 chr3:119155542-119155543(-) m6A exon//intron       27773535 chr3:119156722-119156723(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//28052920//26404942//27773535//27371828//22608085 chr3:119156775-119156776(-) m6A 3'UTR//CDS//exon       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085 chr3:119156809-119156810(-) m6A 3'UTR//CDS//exon       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085 chr3:119156884-119156885(-) m6A 3'UTR//CDS//exon       24284625//25456834//24981863//27371828//22608085 chr3:119165521-119165522(-) m6A exon//intron       24284625 chr3:119182340-119182341(-) m6A 5'UTR//exon//intron       27773536 chr3:119182384-119182385(-) m6A 5'UTR//exon//intron       24981863//27773536 chr3:119182509-119182510(-) m6A 5'UTR//intron       24981863

RNA Localization:

Resource	Symbol	Subcellular Localization	Tissue or Cell Line	PMID
RNALocate	TMEM39A	Chromatin K562 cells     - Cytosol K562 cells     - Endoplasmic reticulum Human myelogenous leukemia cell line (K-562)     21613539 Exosome Blood     - Nucleoplasm K562 cells     - Nucleus K562 cells     - Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):

Interactor1: kshv-miR-K12-8-5p
Interactor2: TMEM39A

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.