Basic Information
VIS ID
TVIS30013113
Fusion event
HIV-CADPS 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
chr3
Cytoband
p14.2
Reference genome
GRCh37/hg19
Start
62463927/62478252 (Hg38)
End
62463927/62478252 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA3B
Target gene
CADPS
miRNAs that regulate target gene
hsa-mir-5096 ; hsa-mir-377-3p ; hsa-mir-4643 ; hsa-mir-8485 ; hsa-mir-8064 ; hsa-mir-335-3p ; hsa-mir-561-3p
Nearest miRNA
hsa-let-7g/Upstream/1860382; hsa-mir-12124/Downstream/4747212;
Nearest TSS
ENST00000440867/Upstream/3927; ENST00000465262/Downstream/64;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/99611, chr3-CpG: 127/Downstream/395690
Upstream sequence
CCAATTAGTTTCAAACTACAGCCAATTGAAAGAGCAGCCATCTACCCTTCCCTGAGTCTGTGTATGGTGGGGAGGGTGTGCAGAACCTGTCCAGCCACCT
Downstream sequence
ATACTTACCTTTTGACACAAGATTCGATCATGTCACTTGCCATCAACTTCAGCCGTTGTTCCAGGTGCTTTCCAAACTCTTCTTCAGGCCAGTGCAGGTC
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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