Basic Information
VIS ID
TVIS30006605
Fusion event
HIV-TCF12 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
chr15
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
57460886/57168688 (Hg38)
End
57460886/57168688 (Hg38)
Orient
-
Location type
Intronic
Target gene
TCF12
miRNAs that regulate target gene
hsa-mir-204-5p ; hsa-mir-211-5p ; hsa-mir-375 ; hsa-mir-155-5p ; hsa-mir-26b-5p ; hsa-mir-1224-3p ; hsa-mir-548v ; hsa-mir-33a-3p ; hsa-mir-139-5p ; hsa-mir-8485
Nearest miRNA
hsa-mir-10393/Upstream/1795654; hsa-mir-11181/Downstream/2002495;
Nearest TSS
ENST00000557528/Upstream/34372; ENST00000561235/Downstream/45391;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/248881, chr15-CpG: 58/Downstream/137652
Upstream sequence
ACTGTTTGAATTTCATAGTCTGAATTTTAGTTCATAAATGACTTGGATTGGAGGCCGTGGATCTAATTTCTGATCTTGGCTATAGTACTCATTTTGAGAG
Downstream sequence
TTTTGTAGGCCACCTAACCATCATTCTTCTGAATCTCTTCAGAGTACAACAAAATTTGAAAAACTAAGTTGTggccaggcgcggtggctcacacctgtaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate