Detail Information

Basic Information:


  VIRBase ID:  

HHID00075827

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-miR-196a-1-3p:           SEC22C:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-miR-196a-1-3p SEC22C
miRBase
Accession/Entrez ID		 MIMAT0037307 9117
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - SEC22L3

ncRNA SNP information:


Resource Symbol SNP ID SNP Position Ref/Alt
miRNASNP-v3 hsa-miR-196a-1-3p
rs1312793718 chr17:48632506    A/G
rs1408763134 chr17:48632499    G/A
rs186449583 chr17:48632497    G/A
rs751860800 chr17:48632495    TC/T
rs373603936 chr17:48632514    T/C
rs374872332 chr17:48632510    T/C
rs556956624 chr17:48632513    T/C
rs759524926 chr17:48632507    ATGT/A

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR SEC22C
chr3:42607910(-) A-I      intronic
chr3:42608547(-) A-I      intronic
chr3:42608049(-) A-I      intronic
chr3:42607925(-) A-I      intronic
chr3:42596656(-) A-I      intronic
chr3:42596885(-) A-I      intronic
chr3:42596914(-) A-I      intronic
chr3:42596933(-) A-I      intronic
chr3:42608581(-) A-I      intronic
chr3:42614949(-) A-I      intronic
chr3:42614934(-) A-I      intronic
chr3:42614917(-) A-I      intronic
chr3:42606428(-) A-I      intronic
chr3:42608004(-) A-I      intronic
chr3:42596946(-) A-I      intronic
chr3:42608343(-) A-I      intronic
chr3:42608604(-) A-I      intronic
chr3:42608606(-) A-I      intronic
chr3:42608667(-) A-I      intronic
chr3:42606449(-) A-I      intronic
chr3:42596881(-) A-I      intronic
chr3:42609890(-) A-I      intronic
chr3:42608330(-) A-I      intronic
chr3:42617410(-) A-I      intronic
chr3:42596870(-) A-I      intronic
chr3:42608461(-) A-I      intronic
chr3:42606347(-) A-I      intronic
chr3:42596954(-) A-I      intronic
chr3:42608324(-) A-I      intronic
chr3:42607912(-) A-I      intronic
chr3:42608599(-) A-I      intronic
chr3:42608071(-) A-I      intronic
chr3:42610075(-) A-I      intronic
chr3:42600099(-) A-I      intronic
chr3:42602405(-) A-I      intronic
chr3:42608621(-) A-I      intronic
chr3:42592564(-) A-I      intronic
chr3:42596878(-) A-I      intronic
chr3:42600116(-) A-I      intronic
chr3:42596973(-) A-I      intronic
chr3:42608541(-) A-I      intronic
chr3:42601996(-) A-I      intronic
chr3:42607979(-) A-I      intronic
chr3:42608636(-) A-I      intronic
chr3:42608683(-) A-I      intronic
chr3:42616462(-) A-I      intronic
chr3:42596894(-) A-I      intronic
chr3:42608562(-) A-I      intronic
chr3:42596690(-) A-I      intronic
chr3:42608591(-) A-I      intronic
chr3:42596977(-) A-I      intronic
chr3:42596648(-) A-I      intronic
chr3:42596015(-) A-I      intronic
chr3:42596001(-) A-I      intronic
chr3:42606388(-) A-I      intronic
chr3:42606290(-) A-I      intronic
chr3:42596727(-) A-I      intronic
chr3:42601997(-) A-I      intronic
chr3:42608598(-) A-I      intronic
chr3:42602404(-) A-I      intronic
chr3:42601906(-) A-I      intronic
chr3:42616604(-) A-I      intronic
chr3:42608563(-) A-I      intronic
chr3:42609878(-) A-I      intronic
chr3:42608661(-) A-I      intronic
chr3:42608534(-) A-I      intronic
chr3:42614563(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED SEC22C
chr3:42595856(-) T-C intron -    22484847
chr3:42596648(-) A-G intron -    22484847
chr3:42596881(-) A-G intron -    22484847
chr3:42596973(-) A-G intron -    22484847
chr3:42596977(-) A-G intron -    22484847
chr3:42602405(-) A-G intron -    22484847
chr3:42606431(-) A-G intron -    22484847
chr3:42608071(-) A-G intron -    22484847
chr3:42608251(-) A-G intron -    22484847
chr3:42608323(-) A-G intron -    22484847
chr3:42608324(-) A-G intron -    22484847
chr3:42608554(-) A-G intron -    22484847
chr3:42608591(-) A-G intron -    22484847
chr3:42608599(-) A-G intron -    22484847
chr3:42608622(-) A-G intron -    22484847
chr3:42608666(-) A-G intron -    22484847
chr3:42609878(-) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase SEC22C
chr3:42591990-42591991(-) m6A 3'UTR//intron       24981863//22608085
chr3:42592048-42592049(-) m6A 3'UTR//intron       22608085
chr3:42592072-42592073(-) m6A 3'UTR//intron       27773535//22608085
chr3:42592099-42592100(-) m6A 3'UTR//intron       27773535
chr3:42592648-42592649(-) m6A 3'UTR//intron       27773535
chr3:42592719-42592720(-) m6A 3'UTR//intron       24981863//27773535
chr3:42592802-42592803(-) m6A 3'UTR//intron       27773535
chr3:42592808-42592809(-) m6A 3'UTR//intron       27773535
chr3:42594065-42594066(-) m6A 3'UTR//intron       24981863//22608085
chr3:42594135-42594136(-) m6A 3'UTR//intron       24981863//27773535//22608085
chr3:42594157-42594158(-) m6A 3'UTR//intron       24981863//27773535//22608085
chr3:42594409-42594410(-) m6A 3'UTR//intron       27773535
chr3:42594498-42594499(-) m6A 3'UTR//intron       24284625//24209618//24981863//27773535//22608085
chr3:42594598-42594599(-) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085
chr3:42594619-42594620(-) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085
chr3:42594627-42594628(-) m6A 3'UTR//intron       24284625//24209618//25456834//24981863//27773535//27371828//22575960//22608085
chr3:42594839-42594840(-) m6A CDS//intron       24284625//24981863//22608085
chr3:42594906-42594907(-) m6A CDS//intron       -
chr3:42623475-42623476(-) m6A 5'UTR//exon//intron       24981863
chr3:42623692-42623693(-) m6A 5'UTR//intron       24981863

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate SEC22C
Chromatin K562 cells     -
Cytosol K562 cells     -
Endoplasmic reticulum Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Membrane K562 cells     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HeLa-S3 cells|K562 cells     -
Ribosome HEK-293 cells     22199352

Interaction Network (The top 100 interactions):


Interactor1: hsa-miR-196a-1-3p
Interactor2: SEC22C

Evidence Support:


Weak-Evidence PAR-CLIP
Support Database ViRBase

References:


PMID 22291592 Target region 3'UTR
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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