Basic Information
VIS ID
TVIS30012928
Fusion event
HIV-LINC00649 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
chr21
Cytoband
q22.11
Reference genome
GRCh37/hg19
Start
35317350/33945046 (Hg38)
End
35317350/33945046 (Hg38)
Orient
+
Location type
Intronic
Target gene
LINC00649
Nearest miRNA
hsa-let-7c/Upstream/394318; hsa-mir-3197/Downstream/1775669;
Nearest TSS
ENST00000624081/Upstream/458; ENST00000608431/Downstream/764;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/29142, chr21-CpG: 151/Downstream/127741
Upstream sequence
actatatgatattttgaaaaaggcaaaacggtggagatagtggttgacaggggttggagggagggcaggatcaacaggcagagcacggaggatttgtagg
Downstream sequence
gacgtcaaactgttctttatggttctgtaatggtggatccatatcatgatacatttgtccaaaccaaagagtatacaacaccgagaatgaactccaatgt
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate