Basic Information
VIS ID
TVIS30004085
Fusion event
HIV-LINC01288 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
chr8
Cytoband
p12
Reference genome
GRCh37/hg19
Start
34694504/34836986 (Hg38)
End
34694504/34836986 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
LINC01288
Nearest miRNA
hsa-mir-124-1/Upstream/4879638; hsa-mir-10400/Downstream/6434062;
Nearest TSS
ENST00000518652/Upstream/52934; ENST00000474634/Downstream/398471;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/1113904, chr8-CpG: 103/Downstream/398175
Upstream sequence
TCTATTATCTATCCCGCTGCCTAATTTATTTATTCCTAGGCTCACGAACTTGGGCTATTACAATCACTTTATTAAAAGTCCTAAAAGCAAGAATCTTTTT
Downstream sequence
CTACTTCTTTTTGAAAAAAATAGCAAGTtcttggctatcgttggcactttgctcttcaagataaatttaacaatcgtagaatccagttcataaaagtctt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate