Basic Information
VIS ID
TVIS30005228
Fusion event
HIV-FAF1 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
chr1
Cytoband
p32.3
Reference genome
GRCh37/hg19
Start
50985967/50520295 (Hg38)
End
50985967/50520295 (Hg38)
Orient
-
Location type
Intronic
Target gene
FAF1
miRNAs that regulate target gene
hsa-mir-146a-5p ; hsa-mir-24-3p ; hsa-mir-26b-5p ; hsa-mir-193b-3p ; hsa-mir-484 ; hsa-mir-92a-3p
Nearest miRNA
hsa-mir-12136/Upstream/5974743; hsa-mir-101-1/Downstream/539542;
Nearest TSS
ENST00000473358/Upstream/58826; ENST00000371761/Downstream/86649;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/92222, chr1-CpG: 65/Downstream/439480
Upstream sequence
GCAAGTACCTGTTTCCTGGGATGATAGGTAATTGGAAAGAATAACCAGGGTCAAGGCAAATCTGTAACTGGAAGAAAAATGCCAGATAATTCTCAGTATC
Downstream sequence
CCCCATGAGAGGCATGAAAATCAGGATAAAGTAATTTGGAGAGGTAAAAGTGACATGTCAAAAATACTAATGGAAGGCAACTGAGTATCCTTCTCTGTAT
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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