Basic Information
VIS ID
TVIS30000463
Fusion event
HIV-RAPGEF2 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr4
Cytoband
q32.1
Reference genome
GRCh37/hg19
Start
160050755/159129603 (Hg38)
End
160050755/159129603 (Hg38)
Location type
Intronic
Target gene
RAPGEF2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-155-5p ; hsa-mir-1-3p ; hsa-mir-615-3p ; hsa-mir-149-5p ; hsa-mir-29b-2-5p ; hsa-mir-10a-5p ; hsa-mir-10b-5p ; hsa-mir-339-5p ; hsa-mir-659-3p ; hsa-mir-3620-3p ; hsa-mir-5002-5p ; hsa-mir-6748-3p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-8066 ; hsa-mir-4720-5p ; hsa-mir-335-3p ; hsa-mir-3942-3p ; hsa-mir-7152-3p
Nearest miRNA
hsa-mir-12113/Upstream/709; hsa-mir-1305/Downstream/3963971;
Nearest TSS
ENST00000502981/Upstream/25425; ENST00000503328/Downstream/98651;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/25620, chr4-CpG: 71/Downstream/4036706
Nearby gene
MIR3688-1(-709) ;
Upstream sequence
tatggtttattcagttctaacatcaaccttataaagcatgaggtactattatcaatttaccaatgaagaaactgagatgcagggattaagtaatttgctt
Downstream sequence
aagaacaaataactGATTTCAAAGTCCCTATTCTATCCACTCTACTCCCCCTATAATAAGAGCAGGTGTAAATGTCTATGTTGTTGTTAATAAAGACTTT
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
Curate