Basic Information
VIS ID
TVIS30011161
Fusion event
HIV-PIK3CD 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
chr1
Cytoband
p36.22
Reference genome
GRCh37/hg19
Start
9755929/9695871 (Hg38)
End
9755929/9695871 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
PIK3CD
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-30a-5p ; hsa-mir-10b-5p ; hsa-mir-125b-5p ; hsa-mir-663a ; hsa-mir-199a-5p ; hsa-mir-101-3p ; hsa-mir-25-3p ; hsa-mir-25-5p ; hsa-mir-32-5p ; hsa-mir-363-3p ; hsa-mir-367-3p ; hsa-mir-4459 ; hsa-mir-500a-3p ; hsa-mir-582-5p ; hsa-mir-6087 ; hsa-mir-655-5p ; hsa-mir-658 ; hsa-mir-6807-5p ; hsa-mir-92a-3p ; hsa-mir-92b-3p ; hsa-mir-3622a-3p ; hsa-mir-3622b-3p ; hsa-mir-4433a-3p ; hsa-mir-4690-3p ; hsa-mir-4768-3p ; hsa-mir-4786-5p ; hsa-mir-544b ; hsa-mir-5685 ; hsa-mir-6765-3p ; hsa-mir-7162-3p
Nearest miRNA
hsa-mir-12136/Upstream/544094; hsa-mir-101-1/Downstream/271510;
Nearest TSS
ENST00000473358/Upstream/7695; ENST00000481137/Downstream/14327;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/5701, chr1-CpG: 26/Downstream/19779
Upstream sequence
gcggaggctgcagtgagccgagattgtgccactgcactctccagcctgggtgacagagcgagactcagtctcaaaaaaaaaaaaaagaaaagaaagaaag
Downstream sequence
atactacaagaaaatggtcagtgcttttaaatttctgagaattaattaattctgagggaaattaattctgtaattgtcattcaaataaaaagtacattaa
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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