Basic Information
VIS ID
TVIS30000437
Fusion event
HIV-SCAP 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
chr3
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
47480085/47438595 (Hg38)
End
47480085/47438595 (Hg38)
Orient
-
Location type
Intronic
Target gene
SCAP
miRNAs that regulate target gene
hsa-mir-93-3p ; hsa-mir-484 ; hsa-mir-181b-5p ; hsa-mir-10a-5p
Nearest miRNA
hsa-mir-12127/Upstream/2576614; hsa-let-7g/Downstream/410960;
Nearest TSS
ENST00000440867/Upstream/9569; ENST00000472718/Downstream/4497;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/20058, chr3-CpG: 44/Downstream/36912
Upstream sequence
aataaacttgctttcacttAAAAAAAAGTTAATTTAggctgggcacggtggctcacgcctgtaatcccagcactttgggaggccgaggtgggtgggtcac
Downstream sequence
gtgaggtcaggagttcaagaccagcctggccaacatggtgaaaccccgtctttactaaaaaaacaaaaattggccggacgcggtggcacacgcctgtaat
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.
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