Basic Information
VIS ID
TVIS30000798
Fusion event
HIV-USF2 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
chr19
Cytoband
q13.12
Reference genome
GRCh37/hg19
Start
35766579/35275676 (Hg38)
End
35766579/35275676 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
USF2
miRNAs that regulate target gene
hsa-mir-10a-5p ; hsa-mir-362-3p ; hsa-mir-335-5p ; hsa-mir-339-5p ; hsa-mir-320a ; hsa-let-7c-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-6081 ; hsa-mir-711 ; hsa-mir-211-3p ; hsa-mir-6510-5p ; hsa-mir-1912 ; hsa-mir-1295b-5p
Nearest miRNA
hsa-mir-10395/Upstream/152912; hsa-let-7e/Downstream/69837;
Nearest TSS
ENST00000633603/Upstream/4593; ENST00000600898/Downstream/1301;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/5714, chr19-CpG: 16/Downstream/3298
Upstream sequence
tacatcccactgggatatgttgtttttgttatcattcagtttaaagtgttttccaattttccttgtgatttcttctttgacctttctgttatttggaggc
Downstream sequence
aggttgcttaatttccaaatatttgtgggtttttcagatatctttttgttattgatttttaatttagttctgttatggtcagagaacatactctgtatga
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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