Detail Information

Basic Information:


  VIRBase ID:  

VHID00510708

  Virus:  

Human herpesvirus 5 strain AD169

  Host:  

Homo sapiens

  Confidence Score:  

0.7903

  Interaction Type:  

Virus-Host interaction

  Predicted Binding:

 

      hcmv-miR-US25-1-5p:           SDF4:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hcmv-miR-US25-1-5p SDF4
miRBase
Accession/Entrez ID		 MIMAT0001581 51150
Organism Human herpesvirus 5 strain AD169 Homo sapiens
Category miRNA mRNA
Alias - Cab45//SDF-4

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR SDF4
chr1:1160217(-) A-I      intronic
chr1:1160164(-) A-I      intronic
chr1:1160034(-) A-I      intronic
chr1:1156882(-) A-I      intronic
chr1:1160172(-) A-I      intronic
chr1:1159932(-) A-I      intronic
chr1:1157467(-) A-I      intronic
chr1:1156878(-) A-I      intronic
chr1:1156897(-) A-I      intronic
chr1:1159798(-) A-I      intronic
chr1:1157235(-) A-I      intronic
chr1:1156910(-) A-I      intronic
chr1:1160098(-) A-I      intronic
chr1:1156906(-) A-I      intronic
chr1:1157460(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED SDF4
chr1:1156882(-) A-I intron -    22327324
chr1:1157460(-) A-I intron -    22327324
chr1:1157960(-) A-I intron -    21960545
chr1:1156897(-) A-G intron -    22484847
chr1:1156910(-) A-G intron -    22484847
chr1:1159798(-) A-G intron -    22484847
chr1:1160098(-) A-G intron -    22484847
chr1:1157460(-) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase SDF4
chr1:1152462-1152463(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//28052920//27773535//27773536//22575960//22608085
chr1:1152489-1152490(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//28052920//27773535//27773536//22575960//22608085
chr1:1152512-1152513(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//28052920//27773535//27773536//22575960//22608085
chr1:1152558-1152559(-) m6A 3'UTR//exon       24284625//24209618//25456834//24981863//28052920//27773535//27773536//22575960//22608085
chr1:1152808-1152809(-) m6A 3'UTR//exon       24284625//24209618//24981863//27371828//27773536//22575960
chr1:1152922-1152923(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//27773535//27371828//27773536//22575960
chr1:1152988-1152989(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//27773535//27371828//27773536
chr1:1152994-1152995(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//27773535//27371828//27773536
chr1:1153057-1153058(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//27773535//27371828//27773536
chr1:1153907-1153908(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//26404942//27773535//27371828//27773536
chr1:1153931-1153932(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//26404942//27773535//27371828//27773536
chr1:1153946-1153947(-) m6A 3'UTR//CDS//exon       24284625//24209618//24981863//26404942//27773535//27371828//27773536
chr1:1154012-1154013(-) m6A CDS//exon       24284625//27773535//27371828//27773536//22575960
chr1:1154106-1154107(-) m6A exon//intron       24284625//27773535//27371828//27773536//22575960
chr1:1154113-1154114(-) m6A exon//intron       24284625//27773535//27371828//27773536//22575960
chr1:1154153-1154154(-) m6A CDS//exon       24284625//27773535//27371828//27773536//22575960
chr1:1154246-1154247(-) m6A CDS//exon       24284625//25456834//27773535//27371828//27773536//22575960
chr1:1154261-1154262(-) m6A CDS//exon       24284625//25456834//28052920//27773535//27371828//27773536//22575960
chr1:1154279-1154280(-) m6A CDS//exon       24284625//25456834//28052920//27773535//27371828//27773536//22575960
chr1:1154288-1154289(-) m6A CDS//exon       24284625//25456834//28052920//27773535//27371828//27773536//22575960
chr1:1154369-1154370(-) m6A CDS//exon//intron       24284625//25456834//24981863//27773535//27371828//27773536
chr1:1155062-1155063(-) m6A exon//intron       -
chr1:1155097-1155098(-) m6A exon//intron       -
chr1:1155159-1155160(-) m6A exon//intron       -
chr1:1158642-1158643(-) m6A CDS       24284625//24981863//27773535//22575960
chr1:1159225-1159226(-) m6A CDS       24284625//24981863//27773535//27371828//27773536//22575960
chr1:1159244-1159245(-) m6A CDS       24284625//24981863//27773535//27371828//27773536//22575960
chr1:1159336-1159337(-) m6A CDS       24284625//24981863//27773535//27371828//27773536//22575960
chr1:1162653-1162654(-) m6A exon//intron       24284625//24981863//27773535//27371828//27773536//22575960
chr1:1163916-1163917(-) m6A CDS//exon       24284625//25456834//24981863//26404942//27773535//27371828//27773536//22575960//22608085
chr1:1163994-1163995(-) m6A CDS//exon       24284625//25456834//24981863//26404942//27773535//27371828//27773536//22575960//22608085
chr1:1164241-1164242(-) m6A 5'UTR//exon       24284625//25456834//27773535//27371828//27773536//22575960
chr1:1164285-1164286(-) m6A 5'UTR//exon       24284625//25456834//24981863//27773535//27371828//27773536//22575960
chr1:1167274-1167275(-) m6A 5'UTR//exon       24284625//25456834//24981863//27773535//27371828//27773536

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate SDF4
Chromatin K562 cells     -
Cytosol K562 cells     -
Exosome Blood     -
Membrane HCC cell line (HepG2)     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HeLa-S3 cells|K562 cells     -
Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: hcmv-miR-US25-1-5p
Interactor2: SDF4

Evidence Support:


Strong-Evidence RISC-IP
Prediction-Evidence miRanda//RNAHybrid
Support Database ViRBase//VmiReg

References:


PMID 20585629 Target region 5'UTR
Source ViRBase//VmiReg Interactor1 expression None
Tissue or cell line HEK293 cells Interactor2 expression None
Description Here, we identify cellular transcript targets of one of the most highly expressed HCMV encoded miRNAs, miR-US25-1, using a recently developed biochemical approach called RISC immunoprecipitation. Strikingly, the majority of identified transcripts contained miR-US25-1 target sites within the 5'UTR rather than the 3'UTR.

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