Basic Information
VIS ID
TVIS30000586
Fusion event
HIV-CTCF 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
chr16
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
67621530/67587627 (Hg38)
End
67621530/67587627 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA16B
Target gene
CTCF
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-24-3p ; hsa-mir-1229-3p ; hsa-mir-615-3p ; hsa-let-7b-5p ; hsa-mir-221-3p ; hsa-mir-3662 ; hsa-mir-567 ; hsa-mir-4798-5p ; hsa-mir-6740-5p ; hsa-mir-8088 ; hsa-mir-3140-3p ; hsa-mir-4307 ; hsa-mir-1322
Nearest miRNA
hsa-mir-1225/Upstream/385232; hsa-mir-11401/Downstream/645799;
Nearest TSS
ENST00000527434/Upstream/16849; ENST00000566078/Downstream/22963;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/23976, chr16-CpG: 54/Downstream/57062
Nearest cancer related gene
CTCF(TSG, No orient, 0)
Upstream sequence
GGGTTTTTTTTTTTTCTTTTTCCCTTCTTTCATGCCTACAGATTGTCCTTACTACCTAGAGATTGTTAAATATTGGTTGTACCCAAAATAGAAGTGAAAC
Downstream sequence
TTCAAGGCTTACTCTGCTTggcacagtggctcacacctgtgataccagcacttagggaagcagaggcaggaggatagcttgagcccaggagttcaggacc
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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