Basic Information
VIS ID
TVIS30010369
Fusion event
HIV-CHRNA5 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
chr15
Cytoband
q25.1
Reference genome
GRCh37/hg19
Start
78873939/78581597 (Hg38)
End
78873939/78581597 (Hg38)
Orient
-
Location type
Intronic
Target gene
CHRNA5
miRNAs that regulate target gene
hsa-mir-132-3p ; hsa-mir-615-3p ; hsa-mir-10a-5p
Nearest miRNA
hsa-mir-10393/Upstream/2819282; hsa-mir-11181/Downstream/628191;
Nearest TSS
ENST00000557528/Upstream/707; ENST00000559576/Downstream/8765;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/15670, chr15-CpG: 16/Downstream/20328
Upstream sequence
atttttaaactagtttcttcttgttctgAACATGTAAATCAATAATTATTTCCCTGTTGTGTTCCCAAAATAACCAAGTATATGTATATTTATATATATG
Downstream sequence
TATGTTTTAAAATAACATTTATAGATGTGCtttatgttctgattacagaagcaatgcgtgatttttgtagagaatttggaaagtgcaaaaaatacaaatg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate