Basic Information
VIS ID
TVIS30000399
Fusion event
HIV-FAM76A 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
chr1
Cytoband
p35.3
Reference genome
GRCh37/hg19
Start
28086902/27760391 (Hg38)
End
28086902/27760391 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
FAM76A
miRNAs that regulate target gene
hsa-mir-374b-5p ; hsa-mir-124-3p ; hsa-mir-410-3p ; hsa-mir-3689a-5p ; hsa-mir-3689b-5p ; hsa-mir-3689e ; hsa-mir-3689f ; hsa-mir-5011-5p ; hsa-mir-548g-3p ; hsa-mir-155-5p ; hsa-mir-365b-3p ; hsa-mir-365a-3p
Nearest miRNA
hsa-mir-12136/Upstream/1205798; hsa-mir-101-1/Downstream/2978765;
Nearest TSS
ENST00000473358/Upstream/15617; ENST00000468761/Downstream/12792;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/33900, chr1-CpG: 39/Downstream/12726
Upstream sequence
ACTGATTAACCTCTGGCAAATACTTTTTTCTCCTGAACCAAGTTTCAAGCCCTAGAGCTTCCTGTTGTTTTCCACCTCTAGAATTGTTCATCTCTTTCTG
Downstream sequence
ACCCTCCACATTGTCTGCCTTAGCATCTGCACTTACTCTGCATGAAAAATAGCTTATATCCTGTTTGAAACATCCTTCTTGCACTGATTTTTTTTTTCTT
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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