Basic Information
VIS ID
TVIS30011209
Fusion event
HIV-STX12 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
chr1
Cytoband
p35.3
Reference genome
GRCh37/hg19
Start
28137629/27811118 (Hg38)
End
28137629/27811118 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
STX12
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-106b-5p ; hsa-mir-18a-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-30a-5p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30e-5p ; hsa-mir-197-3p ; hsa-mir-4733-3p ; hsa-mir-1226-3p ; hsa-mir-125b-2-3p ; hsa-mir-3668 ; hsa-mir-3529-3p ; hsa-mir-382-3p ; hsa-mir-1-3p ; hsa-mir-206 ; hsa-mir-613 ; hsa-mir-371a-3p ; hsa-mir-551b-5p
Nearest miRNA
hsa-mir-12136/Upstream/1256525; hsa-mir-101-1/Downstream/2928038;
Nearest TSS
ENST00000473358/Upstream/871; ENST00000431586/Downstream/19660;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/37598, chr1-CpG: 52/Downstream/19592
Upstream sequence
TGCTTGAAAATAAAGAGGCGTTGgggcatggtggctcaagcctgtaatcccagcactttgggaggccgaggcgggtggatcacctgaggtcaggagttcg
Downstream sequence
agaccagcctggccaacatggtgaaaccccatctctactaaaatacaaaaatgagctgagtgtagaggcaggtgcctataatccccactactctcgaggc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate