Detail Information

Basic Information:


  VIRBase ID:  

HHID00069735

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-548l:           RAD21:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-548l RAD21
miRBase
Accession/Entrez ID		 MIMAT0005889 5885
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - CDLS4//hHR21//HR21//HRAD21//MCD1//MGS//NXP1//SCC1

ncRNA SNP information:


Resource Symbol SNP ID SNP Position Ref/Alt
miRNASNP-v3 hsa-miR-548l
rs13447640 chr11:94466555    G/A
rs13447640 chr11:94466555    G/T
rs1448088579 chr11:94466547    C/A
rs148377174 chr11:94466545    G/A
rs148377174 chr11:94466545    G/T
rs759436685 chr11:94466554    C/T
rs762603325 chr11:94466558    A/C
rs1289439065 chr11:94466561    AC/A
rs1331201116 chr11:94466562    C/G
rs1410886742 chr11:94466561    A/G

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR RAD21
chr8:117881793(-) A-I      intronic
chr8:117881790(-) A-I      intronic
chr8:117880413(-) A-I      intronic
chr8:117880405(-) A-I      intronic
chr8:117865521(-) A-I      intronic

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase RAD21
chr8:117858650-117858651(-) m6A 3'UTR       24981863
chr8:117858666-117858667(-) m6A 3'UTR       24981863
chr8:117859237-117859238(-) m6A 3'UTR       26404942
chr8:117859789-117859790(-) m6A CDS       27773535
chr8:117859861-117859862(-) m6A CDS       24981863//27773535//27371828
chr8:117859868-117859869(-) m6A CDS       24981863//27773535//27371828
chr8:117859914-117859915(-) m6A CDS       25456834//24981863//28052920//27773535//27371828//27773536//22575960
chr8:117861210-117861211(-) m6A 5'UTR//CDS       25456834//24981863//28052920//27773535//27371828//27773536//22575960
chr8:117861218-117861219(-) m6A 5'UTR//CDS       25456834//24981863//28052920//27773535//27371828//27773536//22575960
chr8:117861242-117861243(-) Am 5'UTR//CDS       -
chr8:117861306-117861307(-) m6A 5'UTR//intron       25456834//24981863//28052920//27773535//27371828//27773536//22575960
chr8:117861644-117861645(-) m6A 5'UTR//intron       24981863
chr8:117861704-117861705(-) m6A 5'UTR//intron       24981863
chr8:117862916-117862917(-) m6A CDS       24981863//28052920
chr8:117862952-117862953(-) m6A CDS       24981863//28052920
chr8:117863090-117863091(-) m6A 5'UTR//intron       24981863
chr8:117864213-117864214(-) m6A 5'UTR//CDS       24981863//27773535
chr8:117864275-117864276(-) m6A 5'UTR//CDS       24981863//27773535
chr8:117864375-117864376(-) m6A 5'UTR//intron       24981863//27773535
chr8:117864822-117864823(-) m6A CDS       27773535
chr8:117869002-117869003(-) m6A CDS       22575960
chr8:117870619-117870620(-) m6A CDS//exon       26404942//22575960
chr8:117875450-117875451(-) Y CDS//exon       25219674
chr8:117886636-117886637(-) m6A 5'UTR//intron       27773536
chr8:117887059-117887060(-) m6A 5'UTR       25456834//24981863
chr8:117887076-117887077(-) m6A 5'UTR       24981863

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate hsa-miR-548l
Exosome Breast milk|Cell lines|Epididymal epithelial cells|Osteoblast|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocyte|Saliva|Serum|Urine     -
Microvesicle Colon cancer cell line (LIM1863)|Fibroblasts|Mesenchymal stem cells     -
RAD21
Chromatin K562 cells     -
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HCC cell line (HepG2)|HeLa-S3 cells     -
Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-548l
Interactor2: RAD21

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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