Detail Information

Basic Information:


  VIRBase ID:  

HHID00065623

  Virus:  

Human gammaherpesvirus 4 (Epstein-Barr virus, EPV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

  Predicted Binding:

 

      hsa-let-7g-3p:           RAB5C:      

      *It may take a few minutes to display results.

Interactor Information:


Interactor1 Interactor2
Symbol hsa-let-7g-3p RAB5C
miRBase
Accession/Entrez ID		 MIMAT0004584 5878
Organism Homo sapiens Homo sapiens
Category miRNA mRNA
Alias - L1880//RAB5CL//RAB5L//RABL

ncRNA SNP information:


Resource Symbol SNP ID SNP Position Ref/Alt
miRNASNP-v3 hsa-let-7g-3p
rs1022640944 chr3:52268290    G/A
rs1166657040 chr3:52268299    A/G
rs1356748432 chr3:52268293    C/G

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR RAB5C
chr17:40292985(-) A-I      intronic
chr17:40292920(-) A-I      intronic
chr17:40291668(-) A-I      intronic
chr17:40291649(-) A-I      intronic
chr17:40291642(-) A-I      intronic
chr17:40289770(-) A-I      intronic
chr17:40289748(-) A-I      intronic
chr17:40295982(-) A-I      intronic
chr17:40289739(-) A-I      intronic
chr17:40286569(-) A-I      intronic
chr17:40286568(-) A-I      intronic
chr17:40279982(-) A-I      intronic
chr17:40279930(-) A-I      intronic
chr17:40279886(-) A-I      intronic
chr17:40279869(-) A-I      intronic
chr17:40296782(-) A-I      intronic
chr17:40289742(-) A-I      intronic
chr17:40302071(-) A-I      intronic
chr17:40295915(-) A-I      intronic
chr17:40295901(-) A-I      intronic
chr17:40295873(-) A-I      intronic
chr17:40296028(-) A-I      intronic
chr17:40296022(-) A-I      intronic
chr17:40295437(-) A-I      intronic
chr17:40295554(-) A-I      intronic
chr17:40296788(-) A-I      intronic
chr17:40296823(-) A-I      intronic
chr17:40297671(-) A-I      intronic
chr17:40297953(-) A-I      intronic
chr17:40298049(-) A-I      intronic
chr17:40296642(-) A-I      intronic
chr17:40296702(-) A-I      intronic
chr17:40298098(-) A-I      intronic
chr17:40302063(-) A-I      intronic
chr17:40302070(-) A-I      intronic
chr17:40302096(-) A-I      intronic
chr17:40302265(-) A-I      intronic
chr17:40302778(-) A-I      intronic
chr17:40302839(-) A-I      intronic
chr17:40303196(-) A-I      intronic
chr17:40303307(-) A-I      intronic
chr17:40296703(-) A-I      intronic
chr17:40296712(-) A-I      intronic
chr17:40295420(-) A-I      intronic
chr17:40296589(-) A-I      intronic
chr17:40289853(-) A-I      5'UTR
chr17:40298860(-) A-I      intronic
chr17:40300085(-) A-I      intronic
chr17:40295876(-) A-I      intronic
chr17:40286556(-) A-I      intronic
chr17:40287072(-) A-I      intronic
chr17:40302414(-) A-I      intronic
chr17:40302216(-) A-I      intronic
chr17:40297963(-) A-I      intronic
chr17:40298835(-) A-I      intronic
chr17:40297681(-) A-I      intronic
chr17:40291528(-) A-I      intronic
chr17:40296690(-) A-I      intronic
chr17:40298002(-) A-I      intronic
chr17:40297609(-) A-I      intronic
chr17:40280002(-) A-I      intronic
chr17:40293003(-) A-I      intronic
chr17:40302176(-) A-I      intronic
chr17:40303333(-) A-I      intronic
chr17:40302259(-) A-I      intronic
chr17:40297922(-) A-I      intronic
chr17:40295555(-) A-I      intronic
chr17:40295942(-) A-I      intronic
chr17:40286538(-) A-I      intronic
chr17:40302134(-) A-I      intronic
chr17:40279817(-) A-I      intronic
chr17:40284693(-) A-I      intronic
chr17:40295900(-) A-I      intronic
chr17:40298120(-) A-I      intronic
chr17:40302273(-) A-I      intronic
chr17:40295941(-) A-I      intronic
chr17:40302041(-) A-I      intronic
chr17:40299011(-) A-I      intronic
chr17:40296059(-) A-I      intronic
chr17:40278646(-) A-I      intronic
chr17:40296095(-) A-I      intronic
chr17:40298052(-) A-I      intronic
chr17:40302067(-) A-I      intronic
chr17:40298834(-) A-I      intronic
chr17:40302040(-) A-I      intronic
chr17:40300311(-) A-I      intronic
chr17:40296898(-) A-I      intronic
chr17:40297921(-) A-I      intronic
chr17:40295981(-) A-I      intronic
chr17:40302107(-) A-I      intronic
chr17:40302135(-) A-I      intronic
chr17:40303198(-) A-I      intronic
chr17:40295531(-) A-I      intronic
chr17:40295598(-) A-I      intronic
chr17:40302619(-) A-I      intronic
chr17:40291658(-) A-I      intronic
chr17:40287107(-) A-I      intronic
chr17:40286532(-) A-I      intronic
chr17:40286513(-) A-I      intronic
chr17:40297894(-) A-I      intronic
chr17:40296012(-) A-I      intronic
chr17:40287071(-) A-I      intronic
chr17:40280015(-) A-I      intronic
chr17:40297911(-) A-I      intronic
chr17:40279953(-) A-I      intronic
chr17:40296020(-) A-I      intronic
chr17:40295973(-) A-I      intronic
chr17:40295986(-) A-I      intronic
chr17:40287119(-) A-I      intronic
chr17:40298056(-) A-I      intronic
chr17:40297639(-) A-I      intronic
chr17:40297973(-) A-I      intronic
chr17:40296077(-) A-I      intronic
chr17:40297655(-) A-I      intronic
chr17:40295957(-) A-I      intronic
chr17:40296030(-) A-I      intronic
chr17:40297577(-) A-I      intronic
chr17:40278603(-) A-I      intronic
chr17:40298043(-) A-I      intronic
chr17:40297949(-) A-I      intronic
chr17:40287315(-) A-I      intronic
chr17:40302178(-) A-I      intronic
chr17:40303265(-) A-I      intronic
chr17:40286543(-) A-I      intronic
chr17:40302616(-) A-I      intronic
chr17:40297727(-) A-I      intronic
chr17:40291543(-) A-I      intronic
chr17:40296093(-) A-I      intronic
chr17:40302175(-) A-I      intronic
chr17:40298062(-) A-I      intronic
chr17:40297962(-) A-I      intronic
chr17:40302768(-) A-I      intronic
chr17:40291616(-) A-I      intronic
chr17:40303290(-) A-I      intronic
chr17:40291511(-) A-I      intronic
chr17:40302106(-) A-I      intronic
chr17:40295932(-) A-I      intronic
chr17:40303360(-) A-I      intronic
chr17:40279976(-) A-I      intronic
chr17:40287700(-) A-I      intronic
Resource Symbol Editing Position Change SeqReg exReg PMID
DARNED RAB5C
chr17:40286513(-) A-G intron -    22484847
chr17:40302134(-) A-G intron -    22484847
chr17:40302768(-) A-G intron -    22484847

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase RAB5C
chr17:40277213-40277214(-) m6A 3'UTR       26404942//27773535
chr17:40277251-40277252(-) m6A 3'UTR       26404942//27773535
chr17:40277837-40277838(-) m6A CDS       24284625//24981863//26404942//27773535//27371828//27773536
chr17:40277849-40277850(-) m6A CDS       24284625//24981863//26404942//27773535//27371828//27773536
chr17:40277861-40277862(-) m6A CDS       24284625//24981863//26404942//27773535//27371828//27773536
chr17:40278808-40278809(-) m6A CDS       24981863//26404942//27773535//27371828//27773536
chr17:40278820-40278821(-) m6A CDS       24981863//26404942//27773535//27371828//27773536
chr17:40280309-40280310(-) m6A CDS       24981863//26404942//27773535//27371828//27773536
chr17:40280378-40280379(-) m6A CDS       24981863//26404942//27773535//27371828
chr17:40280747-40280748(-) m6A CDS//exon       27773535
chr17:40280757-40280758(-) m6A CDS//exon       27773535
chr17:40280800-40280801(-) m6A CDS//exon       27773535
chr17:40282388-40282389(-) m6A CDS//exon       26404942//27773535
chr17:40282470-40282471(-) m6A CDS//exon       24284625//26404942//27773535//22575960
chr17:40282484-40282485(-) m6A CDS//exon       24284625//26404942//27773535//22575960
chr17:40282540-40282541(-) m6A 5'UTR//CDS//exon       24284625//24981863//26404942//22575960
chr17:40283629-40283630(-) m6A 5'UTR//CDS//intron       24284625//24981863//27371828
chr17:40283704-40283705(-) m6A 5'UTR//intron       24284625//24981863//27371828
chr17:40283727-40283728(-) m6A 5'UTR//intron       24284625//24981863//27371828
chr17:40283733-40283734(-) m6A 5'UTR//intron       24284625//24981863//27371828
chr17:40288499-40288500(-) m6A 5'UTR//intron       24209618
chr17:40289785-40289786(-) m6A 5'UTR//intron       24209618
chr17:40306983-40306984(-) m6A 5'UTR//exon       24209618//25456834//24981863//26404942//27773536

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate hsa-let-7g-3p
Exosome Breast milk     22211110
Exosome Brain tissue     23382797
Exosome Plasma     23663360
Exosome Serum     24683445
Exosome Breast milk|Cell lines|Epididymal epithelial cells|Osteoblast|Plasma|Primary glioblastoma neurosphere cells|Primary keratinocyte|Saliva|Serum|Urine     -
Microvesicle Cerebrospinal fluid     24797360
Microvesicle Colon cancer cell line (LIM1863)|Mesenchymal stem cells     -
RAB5C
Chromatin K562 cells     -
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Cytosol HeLa-S3 cells     -
Exosome Blood     -
Insoluble cytoplasm HCC cell line (HepG2)     -
Membrane HCC cell line (HepG2)|K562 cells     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HeLa-S3 cells     -
Ribosome HEK-293 cells     22199352
Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: hsa-let-7g-3p
Interactor2: RAB5C

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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