Basic Information
VIS ID
TVIS30002430
Fusion event
HIV-PARN 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
chr16
Cytoband
p13.12
Reference genome
GRCh37/hg19
Start
14605270/14511413 (Hg38)
End
14605270/14511413 (Hg38)
Orient
+
Location type
Intronic
Target gene
PARN
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-377-3p ; hsa-mir-8485 ; hsa-mir-521 ; hsa-mir-557 ; hsa-mir-507 ; hsa-mir-376a-2-5p
Nearest miRNA
hsa-mir-1225/Upstream/202042; hsa-mir-11401/Downstream/390095;
Nearest TSS
ENST00000527434/Upstream/9724; ENST00000570219/Downstream/53662;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/208195, chr16-CpG: 55/Downstream/118332
Upstream sequence
ccctcaacaccctgctcagaaatgaatgccactgtttgttcacaaaggacagggaaagagcgtctagacagattaacacaaatccattcccactgctgag
Downstream sequence
aaaccccaaaccacatcctatttgatggctcattaAAAAAAAAAAATTACTTGGGAAGTGTTCAGGCAGCAGATAAATTCCTACACTAGTCAGAAAGAAC
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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