Detail Information

Basic Information:


  VIRBase ID:  

HHID00095483

  Virus:  

Human immunodeficiency virus (HIV)

  Host:  

Homo sapiens

  Confidence Score:  

0.4752

  Interaction Type:  

Host-Host interaction

Interactor Information:


Interactor1 Interactor2
Symbol LNC_001057 SMARCE1
miRBase
Accession/Entrez ID		 LNC_001057 6605
Organism Homo sapiens Homo sapiens
Category lncRNA mRNA
Alias - BAF57//CSS5

RNA Editing:


Resource Symbol Editing Position Change Genetic Region
RADAR SMARCE1
chr17:38782440(-) A-I      3'UTR
chr17:38782307(-) A-I      3'UTR
chr17:38790392(-) A-I      intronic

RNA Modification:


Resource Symbol ModificationPosition Type Genomic Context PMID
RMBase SMARCE1
chr17:38784049-38784050(-) m6A 3'UTR       27773535
chr17:38784132-38784133(-) m6A 3'UTR       26404942
chr17:38784156-38784157(-) m6A 3'UTR       26404942
chr17:38784164-38784165(-) m6A 3'UTR       26404942
chr17:38784214-38784215(-) m6A 3'UTR       26404942
chr17:38784240-38784241(-) m6A 3'UTR       26404942
chr17:38784254-38784255(-) m6A 3'UTR       26404942
chr17:38784300-38784301(-) m6A 3'UTR       26404942
chr17:38784839-38784840(-) Y 3'UTR//exon       26075521
chr17:38785128-38785129(-) m6A 3'UTR//CDS//exon       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22575960//22608085
chr17:38785175-38785176(-) m6A 3'UTR//CDS//exon       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22575960//22608085
chr17:38785196-38785197(-) m1A 3'UTR//CDS//exon       26863196
chr17:38785224-38785225(-) m6A 3'UTR//CDS//exon       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22575960//22608085
chr17:38785239-38785240(-) m6A 3'UTR//CDS//exon       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22608085
chr17:38785780-38785781(-) m6A 3'UTR//intron       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22608085
chr17:38785796-38785797(-) m6A 3'UTR//intron       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22608085
chr17:38785816-38785817(-) m6A 3'UTR//intron       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22608085
chr17:38786424-38786425(-) m6A 3'UTR//intron       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22608085
chr17:38786508-38786509(-) m6A CDS//intron       24209618//25456834//24981863//27371828//22608085
chr17:38786968-38786969(-) m6A 3'UTR//CDS//exon       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22608085
chr17:38786982-38786983(-) m6A 3'UTR//CDS//exon       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22608085
chr17:38787023-38787024(-) m6A 3'UTR//CDS//exon       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22608085
chr17:38787110-38787111(-) m6A 3'UTR//CDS//exon       24209618//25456834//24981863//28052920//27773535//27371828//27773536//22608085
chr17:38787852-38787853(-) m6A 3'UTR//CDS//exon       24209618//24981863//28052920//27773535
chr17:38787927-38787928(-) m6A 3'UTR//CDS//exon       24209618//24981863//27773535
chr17:38787939-38787940(-) m6A 3'UTR//CDS//exon       24209618//24981863//27773535
chr17:38787976-38787977(-) m6A exon//intron       24209618//27773535
chr17:38787992-38787993(-) m6A exon//intron       24209618//27773535
chr17:38788023-38788024(-) m6A exon//intron       27773535
chr17:38788053-38788054(-) m6A exon//intron       27773535
chr17:38788564-38788565(-) m6A 3'UTR//CDS//exon       27773535
chr17:38791358-38791359(-) m6A exon//intron       27773535
chr17:38791367-38791368(-) m6A exon//intron       27773535
chr17:38792219-38792220(-) m6A 3'UTR//CDS//exon       24981863//27773535
chr17:38792243-38792244(-) m6A 3'UTR//CDS//exon       24981863//27773535
chr17:38792679-38792680(-) m6A 3'UTR//CDS//exon       24981863//28052920//27773535
chr17:38792770-38792771(-) m6A 3'UTR//CDS//exon       24981863//27773535//27371828
chr17:38792814-38792815(-) m6A exon//intron       24981863//27773535//27371828
chr17:38792841-38792842(-) m6A exon//intron       24981863//27371828
chr17:38793797-38793798(-) m6A 3'UTR//5'UTR//CDS//exon       24981863//27773535
chr17:38793866-38793867(-) m6A exon//intron       27773535
chr17:38793890-38793891(-) m6A exon//intron       27773535
chr17:38798731-38798732(-) m6A CDS//exon//intron       24284625//24981863//27773535
chr17:38800689-38800690(-) m6A 5'UTR//intron       24284625//24981863//27773535
chr17:38801866-38801867(-) m6A 5'UTR//CDS//exon//intron       24284625//24981863//27773535
chr17:38802068-38802069(-) m6A 5'UTR//exon//intron       24284625//24981863//27773535
chr17:38802075-38802076(-) m6A 5'UTR//exon//intron       24284625//24981863//27773535
chr17:38803741-38803742(-) m6A 5'UTR//intron       24284625//24981863//27773535
chr17:38804070-38804071(-) m6A 5'UTR       24981863
chr17:38804345-38804346(-) m6A 5'UTR       27773536
chr17:38804493-38804494(-) m6A 5'UTR       25456834//24981863//27371828//27773536
chr17:38804546-38804547(-) m6A 5'UTR       25456834//24981863//27371828//27773536
chr17:38804576-38804577(-) m6A 5'UTR       25456834//24981863//27371828//22608085
chr17:38804705-38804706(-) m6A 5'UTR       22608085
chr17:38804713-38804714(-) m6A 5'UTR       22608085

RNA Localization:


Resource Symbol Subcellular Localization Tissue or Cell Line PMID
RNALocate SMARCE1
Chromatin K562 cells     -
Cytosol Human myelogenous leukemia cell line (K-562)     21613539
Exosome Blood     -
Nucleolus K562 cells     -
Nucleoplasm K562 cells     -
Nucleus HCC cell line (HepG2)     -
Ribosome Colon cancer cells     24393600

Interaction Network (The top 100 interactions):


Interactor1: LNC_001057
Interactor2: SMARCE1

Evidence Support:


Weak-Evidence RNA-Seq
Support Database ViRBase

References:


PMID 32341894 Target region None
Source ViRBase Interactor1 expression None
Tissue or cell line CD4 T cells Interactor2 expression None
Description Based on previous DE analysis, 1109 DE lncRNAs targeting DE mRNAs were identified In all correlations (Table S6).

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