Basic Information
VIS ID
TVIS30002585
Fusion event
HIV-TCF25 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
q24.3
Reference genome
GRCh37/hg19
Start
89953980/89887572 (Hg38)
End
89953980/89887572 (Hg38)
Orient
+
Location type
Intronic
Target gene
TCF25
miRNAs that regulate target gene
hsa-mir-877-5p ; hsa-mir-23b-3p ; hsa-mir-23a-3p
Nearest miRNA
hsa-mir-11401/Upstream/1171235;
Nearest TSS
ENST00000527434/Upstream/2928; ENST00000568870/Downstream/77;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/7657, chr16-CpG: 24/Downstream/23582
Upstream sequence
CCCGCAGTGGCGAGGCCTCAGCTGTGGTTGGGGTGGTGATTTTAGAGAAAGGCCTGGAAGCTGCCTTTCAAACCAAAAATCCGTGTTCTCTCCTTGACTA
Downstream sequence
TTAGGTGGCTTTCTGAAGCTTTTGGAATCGTCTTAGAACATAATTTCATGTTTTTTTTCTACAATTTTCAATTCCCCAGACACTTGAATCCAGACACAGA
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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