Basic Information
VIS ID
TVIS30001681
Fusion event
HIV-LINC01344 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
chr1
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
182176896/182207761 (Hg38)
End
182176896/182207761 (Hg38)
Orient
+
Location type
ncRNA_intronic
Target gene
LINC01344
Nearest miRNA
hsa-mir-101-1/Upstream/1769371; hsa-mir-1182/Downstream/10508567;
Nearest TSS
ENST00000473358/Upstream/3736; ENST00000612603/Downstream/36638;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/150385, chr1-CpG: 166/Downstream/182801
Upstream sequence
ATTTCACCAGCCACCAAATGAGCCTATGTGACAATCAGAGGGGTTTAGTAGAAATATGAGGAAGAGTGCCCTGGCTCAGACAGCGTAGCTATGGAAGTTC
Downstream sequence
CTTCCCTGAGTGTCCATCTGCCTGGGCTAACTTGGGGCTTTGTAGCCCAAAGAGCATATATAGCTTGCCTCTCCCGCATAAATGTGTGAGTGATATCCTA
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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