Basic Information
VIS ID
TVIS30006556
Fusion event
HIV-LINC00221 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
chr14
Cytoband
q32.33
Reference genome
GRCh37/hg19
Start
106943016/106487009 (Hg38)
End
106943016/106487009 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
LINC00221
Nearest miRNA
hsa-mir-1185-1/Upstream/627456; hsa-mir-5195/Downstream/363876;
Nearest TSS
ENST00000550708/Upstream/4541; ENST00000519334/Downstream/2747;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/4198, chr14-CpG: 17/Downstream/325849
Upstream sequence
ACCAGCTCTAAAGGTGCTGTTACTGGCAAGAGGTCTGGaagggcctcctatatataatttcaaagagacttttcccaagcccacttcagggcaccgttct
Downstream sequence
gccccagaacaaggcaataagaaaaaatctatcccaacgcaggtcaatttcctgcctgagtttggctattgtcttcttcaaggtgttatcttttatttct
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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