Detail Information

Basic Information:


  VIRBase ID:  

HHID00062677

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-let-7f-2-3p:           TMEM106A:      

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Interactor Information:


Interactor1 Interactor2
Symbol hsa-let-7f-2-3p TMEM106A
miRBase
Accession/Entrez ID		 MIMAT0004487 113277
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - -

ncRNA SNP information:


Resource Symbol SNP ID SNP Position Ref/Alt
miRNASNP-v3 hsa-let-7f-2-3p
rs1556935827 chrX:53557203    C/G
rs1556935837 chrX:53557205    G/A
rs782106021 chrX:53557206    T/C
rs781874809 chrX:53557216    A/G
rs782760005 chrX:53557211    T/C

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR TMEM106A
chr17:41370650(+) A-I      3'UTR
chr17:41370496(+) A-I      3'UTR
chr17:41370502(+) A-I      3'UTR
chr17:41370515(+) A-I      3'UTR
chr17:41370520(+) A-I      3'UTR
chr17:41370521(+) A-I      3'UTR
chr17:41370441(+) A-I      3'UTR
chr17:41370137(+) A-I      3'UTR
chr17:41371551(+) A-I      3'UTR
chr17:41370549(+) A-I      3'UTR
chr17:41370168(+) A-I      3'UTR
chr17:41370470(+) A-I      3'UTR
chr17:41370484(+) A-I      3'UTR
chr17:41370124(+) A-I      3'UTR
chr17:41370625(+) A-I      3'UTR
chr17:41370629(+) A-I      3'UTR
chr17:41370163(+) A-I      3'UTR
chr17:41367100(+) A-I      intronic
chr17:41370112(+) A-I      3'UTR
chr17:41366817(+) A-I      intronic
chr17:41370465(+) A-I      3'UTR
chr17:41370460(+) A-I      3'UTR
chr17:41370433(+) A-I      3'UTR
chr17:41370504(+) A-I      3'UTR
chr17:41371487(+) A-I      3'UTR
chr17:41370416(+) A-I      3'UTR
chr17:41370424(+) A-I      3'UTR
chr17:41371515(+) A-I      3'UTR
chr17:41370179(+) A-I      3'UTR
chr17:41370518(+) A-I      3'UTR
chr17:41370582(+) A-I      3'UTR
chr17:41370448(+) A-I      3'UTR
chr17:41370565(+) A-I      3'UTR
chr17:41370533(+) A-I      3'UTR
chr17:41370165(+) A-I      3'UTR
chr17:41370601(+) A-I      3'UTR
chr17:41371511(+) A-I      3'UTR
chr17:41370519(+) A-I      3'UTR
chr17:41370138(+) A-I      3'UTR
chr17:41370592(+) A-I      3'UTR
chr17:41370503(+) A-I      3'UTR
chr17:41370667(+) A-I      3'UTR
chr17:41370418(+) A-I      3'UTR
chr17:41370608(+) A-I      3'UTR
chr17:41370164(+) A-I      3'UTR
chr17:41370177(+) A-I      3'UTR
chr17:41370595(+) A-I      3'UTR
chr17:41371491(+) A-I      3'UTR
chr17:41370494(+) A-I      3'UTR
chr17:41370089(+) A-I      3'UTR
chr17:41370125(+) A-I      3'UTR
chr17:41370087(+) A-I      3'UTR
chr17:41367269(+) A-I      intronic
chr17:41371497(+) A-I      3'UTR
chr17:41370586(+) A-I      3'UTR
chr17:41366171(+) A-I      intronic
chr17:41366859(+) A-I      intronic
chr17:41370662(+) A-I      3'UTR
chr17:41371525(+) A-I      3'UTR
chr17:41371489(+) A-I      3'UTR
chr17:41370101(+) A-I      3'UTR
chr17:41370569(+) A-I      3'UTR
chr17:41370612(+) A-I      3'UTR
chr17:41370524(+) A-I      3'UTR
chr17:41370640(+) A-I      3'UTR
chr17:41370425(+) A-I      3'UTR
chr17:41371454(+) A-I      3'UTR
chr17:41370630(+) A-I      3'UTR
chr17:41370473(+) A-I      3'UTR
chr17:41371481(+) A-I      3'UTR
chr17:41370093(+) A-I      3'UTR
chr17:41370559(+) A-I      3'UTR
chr17:41370529(+) A-I      3'UTR
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED TMEM106A
chr17:41367270(+) G-A intron -    22484847
chr17:41370087(+) A-G intron -    22484847
chr17:41370164(+) A-G intron -    22484847
chr17:41370179(+) A-G intron -    22484847
chr17:41370416(+) A-G intron -    22484847
chr17:41370418(+) A-G intron -    22484847
chr17:41370424(+) A-G intron -    22484847
chr17:41370433(+) A-G intron -    22484847
chr17:41370460(+) A-G intron -    22484847
chr17:41370465(+) A-G intron -    22484847
chr17:41370504(+) A-G intron -    22484847
chr17:41370518(+) A-G intron -    22484847
chr17:41370524(+) A-G intron -    22484847
chr17:41370529(+) A-G intron -    22484847
chr17:41370533(+) A-G intron -    22484847
chr17:41370565(+) A-G intron -    22484847
chr17:41370569(+) A-G intron -    22484847
chr17:41370592(+) A-G intron -    22484847
chr17:41370601(+) A-G intron -    22484847
chr17:41370608(+) A-G intron -    22484847
chr17:41370630(+) A-G intron -    22484847
chr17:41370667(+) A-G intron -    22484847
chr17:41371491(+) A-G intron -    22484847
chr17:41371497(+) A-G intron -    22484847
chr17:41371515(+) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase TMEM106A
chr17:41364246-41364247(+) m6A 5'UTR//exon//intron       -
chr17:41364402-41364403(+) m6A 5'UTR//exon//intron       -
chr17:41364408-41364409(+) m6A 5'UTR//exon//intron       -
chr17:41365043-41365044(+) m6A 5'UTR//exon//intron       -
chr17:41369767-41369768(+) m6A CDS       -
chr17:41369898-41369899(+) m6A 3'UTR       -
chr17:41370601-41370602(+) m6A 3'UTR       -
chr17:41370669-41370670(+) m6A 3'UTR       -
chr17:41370687-41370688(+) m6A 3'UTR       -
chr17:41371580-41371581(+) m6A 3'UTR       -
chr17:41371795-41371796(+) m6A 3'UTR       24284625
chr17:41371807-41371808(+) m6A 3'UTR       24284625

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate hsa-let-7f-2-3p
Exosome Plasma     23663360
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     -
TMEM106A
Chromatin K562 cells     -
Exosome Blood     -

Interaction Network (The top 100 interactions):


Interactor1: hsa-let-7f-2-3p
Interactor2: TMEM106A

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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