Basic Information
VIS ID
TVIS30003634
Fusion event
HIV-LINC00504 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
chr4
Cytoband
p15.33
Reference genome
GRCh37/hg19
Start
14674811/14673187 (Hg38)
End
14674811/14673187 (Hg38)
Orient
+
Location type
ncRNA_intronic
Fragile sites / regions
FRA4D
Target gene
LINC00504
Nearest miRNA
hsa-mir-12113/Upstream/1045230; hsa-mir-12115/Downstream/5855088;
Nearest TSS
ENST00000502981/Upstream/264109; ENST00000503926/Downstream/43408;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/1045156, chr4-CpG: 31/Downstream/189697
Upstream sequence
CCATCTTCCAGTGAACAAGGCCAATCAGTGATTTGAATATAACTAGTAACAATACTGTTCCTCTCTTTAGGGACATGATACAAGAGAGACTGAAAGTACC
Downstream sequence
ATATAGAAGAGAGACAATATTCTGGATATAACTGTGACACAGTATTACGTAGtgtattagtccattctcaggctgccaacagacatactcaagactgggt
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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