Basic Information
VIS ID
TVIS30011443
Fusion event
HIV-PPA1 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
chr10
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
71985784/70226028 (Hg38)
End
71985784/70226028 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA10C
Target gene
PPA1
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-16-5p ; hsa-mir-361-5p ; hsa-mir-518d-3p ; hsa-mir-200b-5p ; hsa-mir-200a-5p ; hsa-mir-101-5p
Nearest miRNA
hsa-mir-1265/Upstream/2822618; hsa-mir-107/Downstream/1564719;
Nearest TSS
ENST00000439456/Upstream/15778; ENST00000373218/Downstream/4351;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/55197, chr10-CpG: 104/Downstream/6630
Upstream sequence
AGTGACAGAAGTCTATTTGAGAAGCTATCAGAAAGAAATACGATGACCGAAGTTCACACTGTTGTGCCCCTTATTCACTTAGAATTGTGACTTAGCAAAG
Downstream sequence
AAAGACATGACTTACACCAACCCAAAAAACATTTGTTCAACAAATTGTGTTAAGATTCCAAGGGAGATCATTAACTTATTAAAGTAAAGAAATTAAAACA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate