Detail Information

Basic Information:


  VIRBase ID:  

HHID00062668

  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:           USP38:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-let-7f-2-3p USP38
miRBase
Accession/Entrez ID		 MIMAT0004487 84640
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - HP43.8KD

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 USP38
chr4:144117436(+) A-I      intronic
chr4:144127768(+) A-I      intronic
chr4:144127775(+) A-I      intronic
chr4:144115113(+) A-I      intronic
chr4:144113478(+) A-I      intronic
chr4:144113482(+) A-I      intronic
chr4:144113483(+) A-I      intronic
chr4:144113591(+) A-I      intronic
chr4:144113577(+) A-I      intronic
chr4:144114977(+) A-I      intronic
chr4:144115019(+) A-I      intronic
chr4:144115082(+) A-I      intronic
chr4:144115037(+) A-I      intronic
chr4:144115167(+) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED USP38
chr4:144113577(+) A-G intron -    22484847
chr4:144114997(+) A-G intron -    22484847
chr4:144115037(+) A-G intron -    22484847
chr4:144115087(+) G-A intron -    22484847
chr4:144117247(+) C-T intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase USP38
chr4:144106163-144106164(+) m6A 5'UTR       24284625//25456834//24981863//22608085
chr4:144106191-144106192(+) m6A 5'UTR       24284625//25456834//24981863//22608085
chr4:144106216-144106217(+) m6A 5'UTR       24284625//25456834//24981863//22608085
chr4:144106607-144106608(+) m6A CDS       24284625//22575960
chr4:144106680-144106681(+) Gm CDS       -
chr4:144106763-144106764(+) m6A CDS       24284625//25456834//24981863//22575960//22608085
chr4:144106849-144106850(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr4:144106892-144106893(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr4:144106916-144106917(+) m6A CDS       24284625//24209618//25456834//24981863//22575960//22608085
chr4:144134806-144134807(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22608085
chr4:144134851-144134852(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22608085
chr4:144134878-144134879(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22608085
chr4:144134907-144134908(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr4:144134914-144134915(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr4:144134933-144134934(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr4:144135011-144135012(+) m6A 3'UTR//CDS       24284625//24981863//27773535//22575960//22608085
chr4:144135096-144135097(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22608085
chr4:144135157-144135158(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22608085
chr4:144135197-144135198(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22608085
chr4:144135255-144135256(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22608085
chr4:144135268-144135269(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22608085
chr4:144135350-144135351(+) m6A 3'UTR//CDS       24284625//24981863//27773535//22608085
chr4:144135379-144135380(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22608085
chr4:144135399-144135400(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22608085
chr4:144135473-144135474(+) m6A 3'UTR//CDS       24284625//24981863//22608085
chr4:144135584-144135585(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr4:144135613-144135614(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr4:144135734-144135735(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr4:144135831-144135832(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr4:144135944-144135945(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr4:144135972-144135973(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr4:144136017-144136018(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr4:144136034-144136035(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr4:144136053-144136054(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22575960//22608085
chr4:144136076-144136077(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22608085
chr4:144136083-144136084(+) m6A 3'UTR//CDS       24284625//24209618//24981863//27773535//22608085
chr4:144136136-144136137(+) m6A CDS//intron       24284625//24981863//22608085
chr4:144141449-144141450(+) m6A 3'UTR//CDS       22608085
chr4:144141551-144141552(+) m6A 3'UTR//CDS       24209618//24981863//22608085
chr4:144141596-144141597(+) m6A 3'UTR//CDS       24209618//24981863//27773535//22608085
chr4:144141673-144141674(+) m6A 3'UTR       24981863//27773535//22608085
chr4:144141708-144141709(+) m6A 3'UTR       24981863//27773535//22608085
chr4:144141727-144141728(+) m6A 3'UTR       -

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     -
USP38
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Cytosol HeLa-S3 cells     -
Exosome Blood     -
Membrane K562 cells     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: hsa-let-7f-2-3p
Interactor2: USP38

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.

Starting a new search, please wait ...