Basic Information
VIS ID
TVIS30004475
Fusion event
HIV-STX2 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
q24.33
Reference genome
GRCh37/hg19
Start
131295195/130810650 (Hg38)
End
131295195/130810650 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
STX2
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-3200-3p ; hsa-mir-142-3p ; hsa-mir-6516-5p ; hsa-mir-455-3p ; hsa-mir-6499-3p ; hsa-mir-6086 ; hsa-mir-377-5p ; hsa-mir-6089 ; hsa-mir-4487 ; hsa-mir-558 ; hsa-mir-3160-3p ; hsa-mir-1247-3p ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p
Nearest miRNA
hsa-let-7i/Upstream/2516472; hsa-mir-6763/Downstream/1771347;
Nearest TSS
ENST00000382841/Upstream/44; ENST00000537745/Downstream/1972;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/94469, chr12-CpG: 56/Downstream/7898
Upstream sequence
gcatggggacttttgtcacagcaaaaagtggaaaggctgtcacagacaatgaggggcctaccaaaaggactcaagagtccaccctactagccaaagagac
Downstream sequence
catctgagcattaaggataatgcagcaatgaaaacatcagatgtgtttaaatccatgtgttcacgatgaTGGACGACAAGCAGCAACAGAGACTCTCCCT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate