Basic Information
VIS ID
TVIS30011784
Fusion event
HIV-TMEM116 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
q24.13
Reference genome
GRCh37/hg19
Start
112436160/111998356 (Hg38)
End
112436160/111998356 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
TMEM116
miRNAs that regulate target gene
hsa-mir-127-5p
Nearest miRNA
hsa-let-7i/Upstream/198451; hsa-mir-1178/Downstream/39243;
Nearest TSS
ENST00000382841/Upstream/109123; ENST00000553161/Downstream/7629;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/155446, chr12-CpG: 94/Downstream/14745
Upstream sequence
caagtcattttggcaactacaagatcaaactggtctcagggttacattggactattttagtagctgggcttgtgaaaatattaattattggagcaggtgc
Downstream sequence
tatgtgctctgagagcttgttccccttggcttctcgactccaatttagttgggtatgacaagaatgatccaatatgtataatcaactttcacaTAAATAA
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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