Detail Information

Basic Information:


  VIRBase ID:  

VHID00463391

  Virus:  

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

  Host:  

Homo sapiens

  Confidence Score:  

0.6787

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      kshv-miR-K12-4-3p:           NFIB:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol kshv-miR-K12-4-3p NFIB
miRBase
Accession/Entrez ID		 MIMAT0002192 4781
Organism Human gammaherpesvirus 8 (Kaposi's sarcoma herpesvirus, KSHV) Homo sapiens
Category miRNA mRNA
Alias - CTF//HMGIC/NFIB//MACID//NF-I/B//NF1-B//NFI-B//NFI-RED//NFIB2//NFIB3

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR NFIB
chr9:14254104(-) A-I      intronic
chr9:14114634(-) A-I      intronic
chr9:14285246(-) A-I      intronic
chr9:14287174(-) A-I      intronic
chr9:14287495(-) A-I      intronic
chr9:14287665(-) A-I      intronic
chr9:14207990(-) A-I      intronic
chr9:14170469(-) A-I      intronic
chr9:14170497(-) A-I      intronic
chr9:14248051(-) A-I      intronic
chr9:14156009(-) A-I      intronic
chr9:14245864(-) A-I      intronic
chr9:14170486(-) A-I      intronic
chr9:14123144(-) A-I      intronic
chr9:14123134(-) A-I      intronic
chr9:14285393(-) A-I      intronic
chr9:14183541(-) A-I      intronic
chr9:14285394(-) A-I      intronic
chr9:14222745(-) A-I      intronic
chr9:14227078(-) A-I      intronic
chr9:14248047(-) A-I      intronic
chr9:14247935(-) A-I      intronic
chr9:14247927(-) A-I      intronic
chr9:14170594(-) A-I      intronic
chr9:14248146(-) A-I      intronic
chr9:14245866(-) A-I      intronic
chr9:14245785(-) A-I      intronic
chr9:14245650(-) A-I      intronic
chr9:14233566(-) A-I      intronic
chr9:14228326(-) A-I      intronic
chr9:14225393(-) A-I      intronic
chr9:14222712(-) A-I      intronic
chr9:14222711(-) A-I      intronic
chr9:14175402(-) A-I      intronic
chr9:14248121(-) A-I      intronic
chr9:14248115(-) A-I      intronic
chr9:14248109(-) A-I      intronic
chr9:14248088(-) A-I      intronic
chr9:14248070(-) A-I      intronic
chr9:14227077(-) A-I      intronic
chr9:14227057(-) A-I      intronic
chr9:14227054(-) A-I      intronic
chr9:14175378(-) A-I      intronic
chr9:14227040(-) A-I      intronic
chr9:14175369(-) A-I      intronic
chr9:14175337(-) A-I      intronic
chr9:14248160(-) A-I      intronic
chr9:14227032(-) A-I      intronic
chr9:14170520(-) A-I      intronic
chr9:14170519(-) A-I      intronic
chr9:14170458(-) A-I      intronic
chr9:14375412(-) A-I      intronic
chr9:14184864(-) A-I      intronic
chr9:14228362(-) A-I      intronic
chr9:14375485(-) A-I      intronic
chr9:14375400(-) A-I      intronic
chr9:14147808(-) A-I      intronic
chr9:14248408(-) A-I      intronic
chr9:14226425(-) A-I      intronic
chr9:14375475(-) A-I      intronic
chr9:14375431(-) A-I      intronic
chr9:14248060(-) A-I      intronic
chr9:14248134(-) A-I      intronic
chr9:14375574(-) A-I      intronic
chr9:14230076(-) A-I      intronic
chr9:14287560(-) A-I      intronic
chr9:14229937(-) A-I      intronic
chr9:14287640(-) A-I      intronic
chr9:14375575(-) A-I      intronic
chr9:14375626(-) A-I      intronic
chr9:14248010(-) A-I      intronic
chr9:14175249(-) A-I      intronic
chr9:14248543(-) A-I      intronic
chr9:14376141(-) A-I      intronic
chr9:14375605(-) A-I      intronic
chr9:14375600(-) A-I      intronic
chr9:14287508(-) A-I      intronic
chr9:14375610(-) A-I      intronic
chr9:14287599(-) A-I      intronic
chr9:14374784(-) A-I      intronic
chr9:14248132(-) A-I      intronic
chr9:14375492(-) A-I      intronic
chr9:14248372(-) A-I      intronic
chr9:14248024(-) A-I      intronic
chr9:14285315(-) A-I      intronic
chr9:14248043(-) A-I      intronic
chr9:14229938(-) A-I      intronic
chr9:14158027(-) A-I      intronic
chr9:14253608(-) A-I      intronic
chr9:14248112(-) A-I      intronic
chr9:14183683(-) A-I      intronic
chr9:14287490(-) A-I      intronic
chr9:14287542(-) A-I      intronic
chr9:14285325(-) A-I      intronic
chr9:14266558(-) A-I      intronic
chr9:14248053(-) A-I      intronic
chr9:14228292(-) A-I      intronic
chr9:14248107(-) A-I      intronic
chr9:14248029(-) A-I      intronic
chr9:14245703(-) A-I      intronic
chr9:14248056(-) A-I      intronic
chr9:14287603(-) A-I      intronic
chr9:14184785(-) A-I      intronic
chr9:14248496(-) A-I      intronic
chr9:14376128(-) A-I      intronic
chr9:14228266(-) A-I      intronic
chr9:14285182(-) A-I      intronic
chr9:14245789(-) A-I      intronic
chr9:14248108(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED NFIB
chr9:14375400(-) A-I intron -    22028664
chr9:14375412(-) A-I intron -    22028664
chr9:14375431(-) A-I intron -    22028664
chr9:14375475(-) A-I intron -    22028664
chr9:14375485(-) A-I intron -    22028664
chr9:14375492(-) A-I intron -    22028664
chr9:14375574(-) A-I intron -    22028664
chr9:14375575(-) A-I intron -    22028664
chr9:14375600(-) A-I intron -    22028664
chr9:14375605(-) A-I intron -    22028664
chr9:14375610(-) A-I intron -    22028664
chr9:14375626(-) A-I intron -    22028664

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase NFIB
chr9:14082684-14082685(-) m6A 3'UTR       24981863//27773535
chr9:14082695-14082696(-) m6A 3'UTR       24981863//27773535
chr9:14082716-14082717(-) m6A 3'UTR       24981863//27773535
chr9:14082832-14082833(-) m6A 3'UTR       27773535
chr9:14082846-14082847(-) m6A 3'UTR       27773535
chr9:14087448-14087449(-) m6A 3'UTR       24981863//27773535
chr9:14087545-14087546(-) m6A 3'UTR       24981863//27773535
chr9:14087554-14087555(-) m6A 3'UTR       24981863//27773535
chr9:14088023-14088024(-) m6A 3'UTR       24284625//24209618//24981863//27773535//22608085
chr9:14088069-14088070(-) m6A 3'UTR       24284625//24209618//25456834//24981863//27773535//22608085
chr9:14088090-14088091(-) m6A 3'UTR       24284625//24209618//25456834//24981863//27773535//22608085
chr9:14088116-14088117(-) m6A 3'UTR       24284625//25456834//24981863//27773535//22608085
chr9:14088121-14088122(-) m6A 3'UTR       24284625//25456834//24981863//27773535//22608085
chr9:14088126-14088127(-) m6A 3'UTR       24284625//25456834//24981863//27773535//22608085
chr9:14088183-14088184(-) m6A 3'UTR       24284625//25456834//24981863//27773535//22608085
chr9:14088206-14088207(-) m6A 3'UTR//CDS       24284625//24981863//27773535//22608085
chr9:14088225-14088226(-) m6A 3'UTR//CDS       24284625//24981863//27773535//22608085
chr9:14088238-14088239(-) m6A 3'UTR//CDS       24284625//24981863//27773535//22608085
chr9:14088278-14088279(-) m6A 3'UTR//CDS       24284625//24981863//27773535
chr9:14102490-14102491(-) m6A CDS//intron       24284625//27773535
chr9:14113022-14113023(-) m6A CDS//intron       27773535
chr9:14113036-14113037(-) m6A CDS//intron       27773535
chr9:14116228-14116229(-) m6A CDS//intron       27773535
chr9:14120446-14120447(-) m6A CDS       24284625//24981863//27773535
chr9:14120481-14120482(-) m6A CDS       24284625//24981863//27773535
chr9:14120608-14120609(-) m6A CDS       24284625//24981863//27773535
chr9:14125685-14125686(-) m6A CDS       24284625//24981863//27773535
chr9:14146708-14146709(-) m6A CDS       27773535
chr9:14150188-14150189(-) m6A CDS       27773535
chr9:14150246-14150247(-) m6A 5'UTR//CDS       27773535
chr9:14155842-14155843(-) m6A 5'UTR//CDS       27773535
chr9:14307073-14307074(-) m6A CDS       24981863//27773535
chr9:14307175-14307176(-) m6A CDS       24981863//27773535//22575960//22608085
chr9:14307277-14307278(-) m6A CDS       24284625//24209618//24981863//26404942//27773535//22575960//22608085
chr9:14307312-14307313(-) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr9:14307342-14307343(-) m6A CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr9:14307970-14307971(-) m6A 5'UTR//intron       24284625//24209618
chr9:14307996-14307997(-) m6A 5'UTR//intron       24284625//24209618
chr9:14313666-14313667(-) m6A 5'UTR//intron       24284625//24209618//25456834//24981863//22575960//22608085
chr9:14313693-14313694(-) m6A 5'UTR//intron       24284625//24209618//25456834//24981863//22575960//22608085
chr9:14313734-14313735(-) Tm 5'UTR//intron       -
chr9:14313755-14313756(-) m6A 5'UTR//intron       24284625//24209618//25456834//24981863//22575960//22608085
chr9:14313822-14313823(-) m6A 5'UTR//intron       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr9:14313834-14313835(-) m6A 5'UTR//intron       24284625//24209618//25456834//24981863//27773535//22575960//22608085
chr9:14313886-14313887(-) m6A 5'UTR//intron       24284625//24209618//24981863//27773535
chr9:14314029-14314030(-) m6A 5'UTR//intron       24284625//24981863
chr9:14314557-14314558(-) m6A 5'UTR//intron       24284625//24981863//27773535
chr9:14321977-14321978(-) m6A 5'UTR//intron       24284625//24981863
chr9:14322116-14322117(-) m6A 5'UTR//intron       24284625//25456834//27773535//22575960
chr9:14322156-14322157(-) m6A 5'UTR//intron       24284625//25456834//24981863//27773535//22575960
chr9:14322192-14322193(-) m6A 5'UTR//intron       24284625//25456834//24981863//27773535//22575960
chr9:14322219-14322220(-) m6A 5'UTR//intron       24284625//25456834//24981863//27773535//22575960
chr9:14322261-14322262(-) m6A 5'UTR//intron       24284625//25456834//27773535

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate NFIB
Chromatin K562 cells     -
Exosome Blood     -
Insoluble cytoplasm HCC cell line (HepG2)     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus Colon cancer cells     24393600
Nucleus HeLa-S3 cells     -

Related Drug Information:


Resource Symbol Drug Name PubChem ID
RNAactDrug kshv-miR-K12-4-3p
Panobinostat       6918837
Nilotinib       644241
Irinotecan       60838
Topotecan       60700
l-685,458       5479543
Palbociclib       5330286
Dovitinib       135398510
Crizotinib       11626560
Nvp-aew541       11476171
Pha-665752       10461815

Interaction Network (The top 100 interactions):


Interactor1: kshv-miR-K12-4-3p
Interactor2: NFIB

Evidence Support:


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

References:


[1]PMID 17381317 Target region 3'UTR
Source RepTar//ViRBase Interactor1 expression None
Tissue or cell line BC-3 cells//BCBL-1 cells Interactor2 expression None
Description Recovery of previously experimentally verified targets of KSHV miRNAs by Ago-HITS-CLIP.
[2]PMID 22100165 Target region 3'UTR
Source RepTar//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.

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