Basic Information
VIS ID
TVIS30002749
Fusion event
HIV-SKAP1 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
chr17
Cytoband
q21.32
Reference genome
GRCh37/hg19
Start
46454883/48377521 (Hg38)
End
46454883/48377521 (Hg38)
Orient
+
Location type
Intronic
Target gene
SKAP1
Nearest miRNA
hsa-mir-10226/Upstream/221010; hsa-mir-10a/Downstream/202317;
Nearest TSS
ENST00000595228/Upstream/31516; ENST00000579972/Downstream/52669;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/269709, chr17-CpG: 27/Downstream/52461
Upstream sequence
aaaaaaattagccatgtgtagtggcttgtacctgtggtcccagctacctaagaggctgaggtgggaggactgctttagcccaggaggttgaggctgcagt
Downstream sequence
gaaccatgattgtgccactacactccagcatgggtgacagagcaagaccctgtctcaaaaaaaaaaaaaaaaattaaataaaaacatttactatggcaca
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate