Basic Information
VIS ID
TVIS30002751
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
46482405/48405043 (Hg38)
End
46482405/48405043 (Hg38)
Orient
-
Location type
Intronic
Target gene
SKAP1
Nearest miRNA
hsa-mir-10226/Upstream/248532; hsa-mir-10a/Downstream/174795;
Nearest TSS
ENST00000595228/Upstream/59038; ENST00000579972/Downstream/25147;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/297231, chr17-CpG: 27/Downstream/24939
Upstream sequence
atagaattaaagaaactattattaaaaggccaaaggtggtaatttcatttgatgtaaagtacaatccacaatagatatgacctgttatgtgctaagtaac
Downstream sequence
gcactaaaatacataCAATGAAAACTGTGAGAGAAGCAGAAATTACTAAAAAAAACATTTTAATGTTACTACTAGTCTTGGATAGATGAAGTAGACAAAA
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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