Detail Information

Basic Information:


  VIRBase ID:  

HHID00071020

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-1255b-5p:           YTHDC1:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-1255b-5p YTHDC1
miRBase
Accession/Entrez ID		 MIMAT0005945 91746
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - YT521//YT521-B

ncRNA SNP information:


Resource Symbol SNP ID SNP Position Ref/Alt
miRNASNP-v3 hsa-miR-1255b-5p
rs1159375777 chr4:36426410    C/T
rs1214571859 chr4:36426418    G/A
rs1239891775 chr4:36426417    T/G
rs6841938 chr4:36426426    G/A
rs934445568 chr4:36426407    C/T
rs1163338680 chr1:167998678    A/T
rs755372990 chr1:167998677    GA/G
rs931584044 chr1:167998685    T/A
rs963713310 chr1:167998665    C/T
rs1053333800 chr4:36426425    C/T
rs139535532 chr4:36426424    C/A
rs189709980 chr1:167998666    G/A
rs189709980 chr1:167998666    G/C
rs975287373 chr1:167998672    G/A

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR YTHDC1
chr4:69210717(-) A-I      intronic
chr4:69210743(-) A-I      intronic
chr4:69192503(-) A-I      intronic
chr4:69192871(-) A-I      intronic
chr4:69210494(-) A-I      intronic
chr4:69210497(-) A-I      intronic
chr4:69210699(-) A-I      intronic
chr4:69210708(-) A-I      intronic
chr4:69210716(-) A-I      intronic
chr4:69192842(-) A-I      intronic
chr4:69182873(-) A-I      intronic
chr4:69192894(-) A-I      intronic
chr4:69192789(-) A-I      intronic
chr4:69192477(-) A-I      intronic
chr4:69184093(-) A-I      intronic
chr4:69182942(-) A-I      intronic
chr4:69182685(-) A-I      intronic
chr4:69192792(-) A-I      intronic
chr4:69182818(-) A-I      intronic
chr4:69182814(-) A-I      intronic
chr4:69182705(-) A-I      intronic
chr4:69182694(-) A-I      intronic
chr4:69182928(-) A-I      intronic
chr4:69192953(-) A-I      intronic
chr4:69192414(-) A-I      intronic
chr4:69192951(-) A-I      intronic
chr4:69184058(-) A-I      intronic
chr4:69210588(-) A-I      intronic
chr4:69192437(-) A-I      intronic
chr4:69209393(-) A-I      intronic
chr4:69182732(-) A-I      intronic
chr4:69192832(-) A-I      intronic
chr4:69182756(-) A-I      intronic
chr4:69209488(-) A-I      intronic
chr4:69211968(-) A-I      intronic
chr4:69192897(-) A-I      intronic
chr4:69183931(-) A-I      intronic
chr4:69192512(-) A-I      intronic
chr4:69182936(-) A-I      intronic
chr4:69182728(-) A-I      intronic
chr4:69192382(-) A-I      intronic
chr4:69209045(-) A-I      intronic
chr4:69182761(-) A-I      intronic
chr4:69192581(-) A-I      intronic
chr4:69210654(-) A-I      intronic
chr4:69184029(-) A-I      intronic
chr4:69192401(-) A-I      intronic
chr4:69192385(-) A-I      intronic
chr4:69191300(-) A-I      intronic
chr4:69183945(-) A-I      intronic
chr4:69192447(-) A-I      intronic
chr4:69192469(-) A-I      intronic
chr4:69184053(-) A-I      intronic
chr4:69192536(-) A-I      intronic
chr4:69192406(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED YTHDC1
chr4:69201789(-) A-I intron -    15258596
chr4:69201790(-) A-I intron -    15258596
chr4:69201794(-) A-I intron -    15258596

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase YTHDC1
chr4:69178691-69178692(-) m6A 3'UTR       27773535
chr4:69179576-69179577(-) m6A 3'UTR       24981863//26404942//22608085
chr4:69179640-69179641(-) m6A 3'UTR       24981863//26404942//27773535//22608085
chr4:69179649-69179650(-) m6A 3'UTR       24981863//26404942//27773535//22608085
chr4:69179847-69179848(-) m6A CDS       24209618//24981863//28052920//27773535//27371828//22608085
chr4:69179853-69179854(-) m6A CDS       24209618//24981863//28052920//27773535//27371828//22608085
chr4:69179913-69179914(-) m6A CDS       24209618//24981863//28052920//27773535//27371828//22608085
chr4:69179937-69179938(-) m6A CDS       24209618//24981863//28052920//27773535//27371828//22608085
chr4:69179955-69179956(-) m6A CDS       24209618//24981863//28052920//27773535//27371828//22608085
chr4:69179969-69179970(-) m6A CDS       24209618//24981863//28052920//27773535//27371828//22608085
chr4:69181998-69181999(-) m6A CDS//intron       24981863
chr4:69182076-69182077(-) m6A CDS       24981863//26404942//27773535
chr4:69182145-69182146(-) m6A CDS       24981863//26404942//27773535
chr4:69184260-69184261(-) m6A CDS       24981863//27773535
chr4:69184546-69184547(-) m6A CDS       27773535
chr4:69185844-69185845(-) m6A CDS       24981863//27773535
chr4:69185880-69185881(-) m6A CDS       24209618//24981863//27773535
chr4:69188338-69188339(-) m6A exon//intron       24284625//24209618//24981863//28052920//27773535//27371828//22608085
chr4:69188447-69188448(-) m6A exon//intron       24284625//24209618//24981863//28052920//26404942//27773535//27371828//22575960//22608085
chr4:69188486-69188487(-) m6A CDS//exon       24209618//24981863//26404942//27773535//22608085
chr4:69188611-69188612(-) m6A CDS//exon       27773535
chr4:69188624-69188625(-) m6A CDS//exon       27773535
chr4:69189859-69189860(-) m6A CDS//exon       27773535
chr4:69189876-69189877(-) Am CDS//exon       -
chr4:69189883-69189884(-) m6A CDS//exon       27773535
chr4:69189889-69189890(-) m6A CDS//exon       27773535
chr4:69197909-69197910(-) m6A CDS       27773535
chr4:69202860-69202861(-) m6A CDS       24284625//24209618//25456834//24981863//27773535//27371828//22608085
chr4:69202874-69202875(-) m6A CDS       24284625//24209618//25456834//24981863//27773535//27371828//22608085
chr4:69202887-69202888(-) m1A CDS       26863196
chr4:69202965-69202966(-) m1A CDS       26863196
chr4:69202977-69202978(-) m1A CDS       26863196
chr4:69202986-69202987(-) m1A CDS       26863196
chr4:69203007-69203008(-) m1A CDS       26863196
chr4:69203040-69203041(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22608085
chr4:69203074-69203075(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22608085
chr4:69203103-69203104(-) m6A CDS       24284625//24209618//25456834//24981863//28052920//27773535//27371828//22608085
chr4:69203109-69203110(-) m1A CDS       26863196
chr4:69203351-69203352(-) m6A CDS       24981863//26404942//27773535//22608085
chr4:69203376-69203377(-) m6A CDS       24981863//27773535
chr4:69203431-69203432(-) m6A CDS       24981863//27773535
chr4:69203547-69203548(-) m6A CDS       24981863//27773535
chr4:69204022-69204023(-) m6A 5'UTR//CDS       24209618//24981863//27773535
chr4:69204043-69204044(-) m6A 5'UTR//CDS       24209618//24981863//27773535
chr4:69204055-69204056(-) m6A 5'UTR//CDS       24209618//24981863//27773535
chr4:69204094-69204095(-) m6A 5'UTR//CDS       24209618//24981863//27773535//27371828//27773536
chr4:69209789-69209790(-) m6A 5'UTR//intron       24209618//24981863//27773535//27371828//27773536
chr4:69209794-69209795(-) m6A 5'UTR//intron       24209618//24981863//27773535//27371828//27773536
chr4:69215484-69215485(-) m6A 5'UTR       24209618//24981863//27371828//27773536
chr4:69215570-69215571(-) m6A 5'UTR       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22608085

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate hsa-miR-1255b-5p
Exosome Breast milk|Cell lines|Epididymal epithelial cells|Osteoblast|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocyte|Saliva|Serum|Urine     -
Microvesicle Cell lines(GBM46|GBM8|HaCaT|K562|MCF-10A|MCF-7|MGG75)|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocytes     -
Mitochondrion Cell line (HEK-293|HeLa)     22984580
YTHDC1
Cytoplasm Nasopharyngeal carcinoma cells     20498841
Cytoplasm Nasopharyngeal carcinoma cells     20498841
Cytosol HCC cell line (HepG2)     -
Exosome Blood     -
Membrane HCC cell line (HepG2)     -
Nucleoplasm K562 cells     -
Nucleus Nasopharyngeal carcinoma cells     20498841
Nucleus Nasopharyngeal carcinoma cells     20498841
Nucleus HCC cell line (HepG2)|K562 cells     -

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-1255b-5p
Interactor2: YTHDC1

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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