Basic Information
VIS ID
TVIS30009924
Fusion event
HIV-LINC01281 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
chrX
Cytoband
p11.4
Reference genome
GRCh37/hg19
Start
39184927/39325673 (Hg38)
End
39184927/39325673 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
LINC01281
Nearest miRNA
hsa-mir-23c/Upstream/1301687; hsa-let-7f-2/Downstream/335543;
Nearest TSS
ENST00000429181/Upstream/25887; ENST00000447651/Downstream/1688;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/162795, chrX-CpG: 36/Downstream/287870
Upstream sequence
aattatttaatattctgaaaaatcctataagttagatactattattactctcatcttacagatgaggaaactcagggcacagaaagactaaggaacttac
Downstream sequence
ccaaggtcacacagctagtagggtgctgagttcaaatttatccccagctgctctaactaatcagcaattaaccactaCCATAAAATGCCTCTCATTTGCA
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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