Basic Information
VIS ID
TVIS30000549
Fusion event
HIV-USP12-AS1 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr13
Cytoband
q12.13
Reference genome
GRCh37/hg19
Start
27732929/27158792 (Hg38)
End
27732929/27158792 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
USP12-AS1
Nearest miRNA
hsa-mir-2276/Upstream/2996288; hsa-mir-1267/Downstream/12505242;
Nearest TSS
ENST00000623511/Upstream/63086; ENST00000440657/Downstream/4063;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/398016, chr13-CpG: 165/Downstream/12157
Upstream sequence
taatcCAcacacagtttctggcactttgttatggcagccctaggaaactaataAAATTATTGTTTAATAAAATGAAAATGTGCAAACAGTATTATATAAC
Downstream sequence
CAAACCTTTCAATATGATAGACATTGAAGATCATGGGAAATTAAAATGCACACAAGAGTTTTGACATGGAATGAAACATGATGACAACCAAAAATATACA
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
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