Basic Information
VIS ID
TVIS30006395
Fusion event
HIV-HS6ST3 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
chr13
Cytoband
q32.1
Reference genome
GRCh37/hg19
Start
97349327/96697073 (Hg38)
End
97349327/96697073 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA13D
Target gene
HS6ST3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-5589-3p ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-574-5p ; hsa-mir-5010-3p ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-592 ; hsa-mir-513a-5p ; hsa-mir-8068 ; hsa-mir-6867-5p ; hsa-mir-597-5p ; hsa-mir-486-3p ; hsa-mir-6721-5p ; hsa-mir-4445-5p ; hsa-mir-6743-5p ; hsa-mir-4688 ; hsa-mir-6767-3p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485
Nearest miRNA
hsa-mir-1297/Upstream/269781; hsa-mir-1267/Downstream/1511451;
Nearest TSS
ENST00000623511/Upstream/606234; ENST00000620595/Downstream/135415;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/605165, chr13-CpG: 35/Downstream/297067
Upstream sequence
ggaagaatgcagcactaaaaaaaagcacagtagaataaatatcccagaaaattcgggaaacagatcacttataataactataactattatattcagggag
Downstream sequence
atttgagaagataatacattcataaaacaagatgccatgaacaagagagacaaaaaagtacccatggagattTtatatatatatataaaatgtatagatg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate