Basic Information
VIS ID
TVIS30006892
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
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr16
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
67627815/67593912 (Hg38)
End
67627815/67593912 (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/391517; hsa-mir-11401/Downstream/639514;
Nearest TSS
ENST00000527434/Upstream/23134; ENST00000566078/Downstream/16678;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/30261, chr16-CpG: 54/Downstream/50777
Nearest cancer related gene
CTCF(TSG, No orient, 0)
Upstream sequence
CTGGAAATCATTCTCTTCTACTGTCTTATTCTCAGTACACATGGATTATTCCTAGTATAATAACCAGTCTACTTAACTGACTAAACTCTGCAGTGGTGAG
Downstream sequence
TATAAAAGGTTGTTTTGGTTGTTTTCCTTTGGAAATTGTCTGACATATTTGCTATGTAGTCATAATCATAGGTGATAAATTACTAAACCTTAATATCTTC
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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