Basic Information
VIS ID
TVIS30012119
Fusion event
HIV-ITGAL 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
p11.2
Reference genome
GRCh37/hg19
Start
30491301/30479980 (Hg38)
End
30491301/30479980 (Hg38)
Orient
+
Location type
Intronic
Target gene
ITGAL
miRNAs that regulate target gene
hsa-mir-6878-3p ; hsa-mir-640 ; hsa-mir-378a-5p ; hsa-mir-4764-3p ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-3653-5p ; hsa-mir-3189-3p ; hsa-mir-212-5p ; hsa-mir-4667-3p ; hsa-mir-3934-5p ; hsa-mir-764 ; hsa-mir-125a-3p ; hsa-mir-6865-3p
Nearest miRNA
hsa-mir-1225/Upstream/880715; hsa-mir-11401/Downstream/23939;
Nearest TSS
ENST00000527434/Upstream/5979; ENST00000566149/Downstream/1366;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/5580, chr16-CpG: 57/Downstream/44540
Upstream sequence
ccttgtgatctgcccaccttggcctcccaaagtgctgggattacaggcgtgagccaccgtgcacagccAttttttctttttgagacagggtctcactgtg
Downstream sequence
tccccaaggctggaatcatggtggcacgatcatagctcactgtagcctcaaactcctgggctcaaatgatcctcccaactagctgggactacccatgtgc
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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