Basic Information
VIS ID
TVIS30010320
Fusion event
HIV-LINC00871 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
q21.2
Reference genome
GRCh37/hg19
Start
46701058/46231855 (Hg38)
End
46701058/46231855 (Hg38)
Orient
+
Location type
ncRNA_intronic
Target gene
LINC00871
Nearest miRNA
hsa-mir-208a/Upstream/9279464; hsa-mir-1185-1/Downstream/1529140;
Nearest TSS
ENST00000550708/Upstream/167696; ENST00000556071/Downstream/239504;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/978256, chr14-CpG: 30/Downstream/419810
Upstream sequence
attcaaagccatccccatcaagctaccaatgactttcttcacagaattggaaaaaaactactttaaagttcatatggaaccaaaaaagagcctgcatcgc
Downstream sequence
caagtcaatcctaagccaaaagaacaaagctggaggcatcacactacctgacttcaaactatactacaaggctacagtaaccaaaacagcatggcactgg
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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