Basic Information
VIS ID
TVIS30009542
Fusion event
HIV-PRKDC 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
q11.21
Reference genome
GRCh37/hg19
Start
48833450/47920890 (Hg38)
End
48833450/47920890 (Hg38)
Orient
+
Location type
Intronic
Target gene
PRKDC
miRNAs that regulate target gene
hsa-mir-101-5p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-124-1/Upstream/5024615; hsa-mir-10400/Downstream/13793898;
Nearest TSS
ENST00000518652/Upstream/56098; ENST00000520994/Downstream/8279;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/89274, chr8-CpG: 36/Downstream/39008
Upstream sequence
tttttaaaactgtggtgtaatatacataacatgaaatgtactcttttaaccatttttaggtatataattgagtggcattaattacattcacaatgttgtc
Downstream sequence
caaccatcaccacatccatctccagaaatttttcaacatctgaaacagTCCCATACAACTTTTAAGATTATGAAAAATGTggctgggcacgggtggctca
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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