Basic Information
VIS ID
TVIS30002738
Fusion event
HIV-NSF 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
chr17
Cytoband
q21.31
Reference genome
GRCh37/hg19
Start
44719841/46642475 (Hg38)
End
44719841/46642475 (Hg38)
Orient
-
Location type
Intronic
Target gene
NSF
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-103a-3p ; hsa-mir-26b-5p ; hsa-mir-16-5p ; hsa-mir-877-3p ; hsa-mir-193b-3p ; hsa-mir-100-5p ; hsa-mir-32-5p ; hsa-mir-92a-3p ; hsa-mir-92b-3p ; hsa-mir-205-5p ; hsa-mir-218-5p
Nearest miRNA
hsa-mir-1180/Upstream/1167040; hsa-mir-10226/Downstream/330542;
Nearest TSS
ENST00000595228/Upstream/18439; ENST00000576346/Downstream/70674;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/51308, chr17-CpG: 42/Downstream/127298
Upstream sequence
TTATTACTTTATTTTTTGTTTATAATAGAGCATACTAAGGTACTTAATTTATTCTTTGTTTGAAATAGTAAATGTGGTTCTCTTGAGTTACTTTAGGTGG
Downstream sequence
CACTCTGACATTTAAGTTAGATAATTTTTGTCCTCTTGAGAATTTTTAAACATGAGTTTTGTAATCATTGAAGTCTTTAGGATGATTTCAGACTTTTGTG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate