Basic Information
VIS ID
TVIS30002438
Fusion event
HIV-SMG1P1 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
chr16
Cytoband
p12.2
Reference genome
GRCh37/hg19
Start
22463987/22452666 (Hg38)
End
22463987/22452666 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
SMG1P1
Nearest miRNA
hsa-mir-1225/Upstream/946531; hsa-mir-11401/Downstream/1750450;
Nearest TSS
ENST00000527434/Upstream/15501; ENST00000356156/Downstream/26455;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/14959, chr16-CpG: 26/Downstream/83430
Upstream sequence
TTATGGTCATAACAACTTTTAACATACCCTGCAAActaagtgtttctttataattcattatcttattttagcctcacaacaaccttacatgttagatagg
Downstream sequence
tatcatcctcattttatgcaagagacaaccaaggcttggagatcaagtaatttgtgcaaaggcacacatacttttcagtgctggagctgggatttgagcc
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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