Basic Information
VIS ID
TVIS30006862
Fusion event
HIV-PHKB 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
chr16
Cytoband
q12.1
Reference genome
GRCh37/hg19
Start
47500105/47466194 (Hg38)
End
47500105/47466194 (Hg38)
Orient
-
Location type
Intronic
Target gene
PHKB
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-484 ; hsa-mir-6882-3p ; hsa-mir-4312 ; hsa-mir-100-3p ; hsa-mir-4258 ; hsa-mir-1265
Nearest miRNA
hsa-mir-1225/Upstream/13302521; hsa-mir-11401/Downstream/2826422;
Nearest TSS
ENST00000527434/Upstream/2045; ENST00000570047/Downstream/33562;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/4898, chr16-CpG: 31/Downstream/778227
Upstream sequence
TAGTGTGAATCCTGTATTTCTGTGTGTGCATACTTGAGTTGTGCTGTTACTACTAATGTACTAGTATTTGCTGTGGTTGAAAGAAATTTGTTTTGACTGC
Downstream sequence
TTAAACTAAAAGAGGGATCTAGATATTCAGGTTTTTCTTTAAAGACCCTTGGAGTCAAATGTACAAAACCAAGAATTTATAAAGAAATTCAACAGCCAAA
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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