Basic Information
VIS ID
TVIS30006194
Fusion event
HIV-TSFM 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
chr12
Cytoband
q14.1
Reference genome
GRCh37/hg19
Start
58185262/57791479 (Hg38)
End
58185262/57791479 (Hg38)
Orient
-
Location type
Intronic
Target gene
TSFM
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-877-3p ; hsa-mir-331-3p ; hsa-mir-25-3p
Nearest miRNA
hsa-mir-1228/Upstream/42797; hsa-let-7i/Downstream/33130;
Nearest TSS
ENST00000382841/Upstream/8598; ENST00000602802/Downstream/9174;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/18521, chr12-CpG: 151/Downstream/54000
Upstream sequence
aaaaaagtatgctcagaggagtcttactgcttctctcccttctaccccgttcctatccatccctttatttagataaccagtgtcattggattgtggttat
Downstream sequence
cctttcagtatttctttttgcaaaaataagcatatttatacaaatagttctttgttgcacagatagtagtataatatgcatatacacttataatctgctt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate