Basic Information
VIS ID
TVIS30011058
Fusion event
HIV-PTDSS1 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
chr8
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
97280496/96268268 (Hg38)
End
97280496/96268268 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA8B
Target gene
PTDSS1
miRNAs that regulate target gene
hsa-mir-877-5p ; hsa-mir-1229-3p ; hsa-mir-466 ; hsa-mir-627-3p ; hsa-mir-942-5p ; hsa-mir-1304-3p ; hsa-mir-4643 ; hsa-mir-4789-3p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p
Nearest miRNA
hsa-mir-12123/Upstream/1195272; hsa-mir-10400/Downstream/2125377;
Nearest TSS
ENST00000518652/Upstream/6301; ENST00000518776/Downstream/15329;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/5729, chr8-CpG: 160/Downstream/225251
Upstream sequence
TTCTTTTCCTTTAGTTGATGTCTCACCCATAATTCTTAACAAGGATCATAACTTTCTATAAAATAGATGAATGTGGTATTAAAGATAATACCTAAGCTAC
Downstream sequence
TTAACATTGGTCTACCATGTAACCTGGGATTAAACTTTTTATTGGGAGAGATGATCCTTAAACAGTGACTCATCTAAACATGAACCTATAGGTCTTTATT
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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