Detail Information

Basic Information:


  VIRBase ID:  

HHID00063969

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-99a-3p:           LDB1:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-99a-3p LDB1
miRBase
Accession/Entrez ID		 MIMAT0004511 8861
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - CLIM-2//CLIM2//LDB-1//NLI

ncRNA SNP information:


Resource Symbol SNP ID SNP Position Ref/Alt
miRNASNP-v3 hsa-miR-99a-3p
rs1214222916 chr21:16539147    T/C
rs1419616925 chr21:16539158    T/A
rs763134262 chr21:16539151    A/G
rs766428664 chr21:16539153    G/A
rs774748688 chr21:16539159    G/C
rs950382507 chr21:16539154    G/A
rs1271070422 chr21:16539142    C/T
rs913397001 chr21:16539145    G/A

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR LDB1
chr10:103871486(-) A-I      intronic
chr10:103876103(-) A-I      intronic
chr10:103876076(-) A-I      intronic
chr10:103876205(-) A-I      intronic
chr10:103871348(-) A-I      intronic
chr10:103875986(-) A-I      intronic
chr10:103871508(-) A-I      intronic
chr10:103871499(-) A-I      intronic
chr10:103876067(-) A-I      intronic
chr10:103871496(-) A-I      intronic
chr10:103871525(-) A-I      intronic
chr10:103871354(-) A-I      intronic
chr10:103871425(-) A-I      intronic
chr10:103876211(-) A-I      intronic
chr10:103871442(-) A-I      intronic
chr10:103871594(-) A-I      intronic
chr10:103876063(-) A-I      intronic
chr10:103871500(-) A-I      intronic
chr10:103871602(-) A-I      intronic
chr10:103876077(-) A-I      intronic
chr10:103871440(-) A-I      intronic
chr10:103875981(-) A-I      intronic
chr10:103867832(-) A-I      3'UTR
chr10:103879093(-) A-I      intronic
chr10:103872481(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED LDB1
chr10:103876063(-) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase LDB1
chr10:103867468-103867469(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//27773535//22575960//22608085
chr10:103867588-103867589(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr10:103867603-103867604(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22575960//22608085
chr10:103867713-103867714(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr10:103867718-103867719(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr10:103867766-103867767(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//27773536//22575960//22608085
chr10:103867779-103867780(-) m6A 3'UTR       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//27773536//22575960//22608085
chr10:103867874-103867875(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr10:103867913-103867914(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr10:103867958-103867959(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr10:103867997-103867998(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//26404942//27773535//27371828//27773536//22575960//22608085
chr10:103869182-103869183(-) m6A CDS       24284625//27773535//27371828
chr10:103869215-103869216(-) m6A CDS       24284625//27773535//27371828
chr10:103869402-103869403(-) m6A CDS       24284625//27773535
chr10:103869432-103869433(-) m6A CDS       24284625//27773535
chr10:103874220-103874221(-) m6A 5'UTR//intron       24284625//27773536
chr10:103874268-103874269(-) m6A 5'UTR//intron       24284625//27371828//27773536
chr10:103874306-103874307(-) m6A 5'UTR//intron       27371828//27773536
chr10:103874365-103874366(-) m6A 5'UTR//intron       24209618//25456834//27371828//27773536
chr10:103874447-103874448(-) m6A 5'UTR//intron       24209618//25456834//24981863//27371828//27773536
chr10:103874463-103874464(-) m6A 5'UTR//intron       24209618//25456834//24981863//27371828//27773536
chr10:103874472-103874473(-) m6A 5'UTR//intron       24209618//25456834//24981863//27371828//27773536
chr10:103880111-103880112(-) m6A 5'UTR//exon       24284625//24209618//25456834//24981863//27371828//27773536
chr10:103880126-103880127(-) m6A 5'UTR//exon       24284625//24209618//25456834//24981863//27371828//27773536
chr10:103880162-103880163(-) m6A 5'UTR//exon       24284625//24209618//25456834//24981863//27371828//27773536

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate hsa-miR-99a-3p
Exosome Plasma     23663360
Exosome Breast milk|Cell lines|Epididymal epithelial cells|Osteoblast|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocyte|Saliva|Serum|Urine     -
Microvesicle Fibroblasts|Mesenchymal stem cells     -
Mitochondrion Skeletal muscle myoblasts     21637849
LDB1
Chromatin K562 cells     -
Cytosol K562 cells     -
Exosome Blood     -
Membrane K562 cells     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus K562 cells     -
Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-99a-3p
Interactor2: LDB1

Evidence Support:


Weak-Evidence PAR-CLIP
Support Database ViRBase

References:


PMID 22291592 Target region CDS
Source ViRBase Interactor1 expression None
Tissue or cell line EF3D-AGO2 cells//LCL35 cells//LCL-BAC cells//LCL-BAC-D1 cells//LCL-BAC-D3 cells Interactor2 expression None
Description We identified 7, 827 miRNA-interaction sites in 3, 492 cellular 3'UTRs. 531 of these sites contained seed matches to viral miRNAs.Table S6: High confidence miRNA-interaction sites in 3'UTRs.

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