Basic Information
VIS ID
TVIS30004684
Fusion event
HIV-PIK3C3 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
chr18
Cytoband
q12.3
Reference genome
GRCh37/hg19
Start
39663275/42083311 (Hg38)
End
39663275/42083311 (Hg38)
Orient
-
Location type
Intronic
Target gene
PIK3C3
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-149-5p ; hsa-mir-3978 ; hsa-mir-4709-3p ; hsa-mir-6124 ; hsa-mir-3148 ; hsa-mir-4699-5p ; hsa-mir-4635 ; hsa-mir-5579-5p ; hsa-mir-5583-3p ; hsa-mir-129-5p ; hsa-mir-29b-2-5p ; hsa-mir-5087 ; hsa-mir-659-3p ; hsa-mir-8068
Nearest miRNA
hsa-mir-1-2/Upstream/2406532; hsa-mir-122/Downstream/2886771;
Nearest TSS
ENST00000575820/Upstream/18616; ENST00000601948/Downstream/75972;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/2241446, chr18-CpG: 180/Downstream/2595707
Nearby gene
PIK3C3(No orient, 1829)
Upstream sequence
ATTGTTTTTACTCTTTAGAGCTCTATCCTCAGAGTGTAGTCTGCATATTTCTTTATTATCATTGCCATGTGACTTCTTTGGTGACAAGTTCAGTGATATT
Downstream sequence
TCAAGCATGATGTTTTGAGTTTGAGAAATGTATTTGTGAGGACACATCACTTTAATTAAAAAAGTGTGAGTACTATGGTCATTAAGTTATTCAGAGTGAG
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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