Basic Information
VIS ID
TVIS30004633
Fusion event
HIV-LOC440434 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
q12
Reference genome
GRCh37/hg19
Start
36355094/38199040 (Hg38)
End
36355094/38199040 (Hg38)
Orient
+
Location type
ncRNA_intronic
Target gene
LOC440434
Nearest miRNA
hsa-mir-1180/Upstream/584001; hsa-mir-10226/Downstream/503222;
Nearest TSS
ENST00000595228/Upstream/6499; ENST00000619548/Downstream/97983;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/16364, chr17-CpG: 63/Downstream/57718
Upstream sequence
gagcccaggagtttgagataagcctgggtaacacagtgagactccatctctaaaaaaattaaaaagtaaaaaaaaattagctggtcatggtgacacacac
Downstream sequence
ctgtggtcccagctacttgggaggctgaggcaagaggattacataagcccaggaagatgaagctgcactgacccatgattgtgccactgcactccggctt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate