Basic Information
VIS ID
TVIS30009789
Fusion event
HIV-HSDL2 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
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr9
Cytoband
q32
Reference genome
GRCh37/hg19
Start
115177817/112415537 (Hg38)
End
115177817/112415537 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA9E
Target gene
HSDL2
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-328-3p ; hsa-mir-3121-3p ; hsa-mir-577
Nearest miRNA
hsa-let-7a-1/Upstream/483368; hsa-mir-12126/Downstream/1793897;
Nearest TSS
ENST00000422679/Upstream/1535; ENST00000374244/Downstream/69089;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/35179, chr9-CpG: 135/Downstream/70911
Upstream sequence
aggagagaactgagcattagaatgctatacaattttcccagggtcacacaatgaaggggcagaagcagaatttgaaccctggtctgtctgacttgaacac
Downstream sequence
tcatgttatttaccactgtgcTGACCGACAAGTATATTAACTATCTCTGAAAATTACATATGTGTGTTAGGGAGGCAGAATTTGGGATGGTTGTGGTTGC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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