Basic Information
VIS ID
TVIS30003996
Fusion event
HIV-LINC00972 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
chr7
Cytoband
q21.11
Reference genome
GRCh37/hg19
Start
85094553/85465237 (Hg38)
End
85094553/85465237 (Hg38)
Orient
-
Location type
Intronic
Target gene
LINC00972
Nearest miRNA
hsa-mir-10525/Upstream/9549968; hsa-mir-10399/Downstream/6738778;
Nearest TSS
ENST00000635602/Upstream/44115; ENST00000422448/Downstream/9990;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/278311, chr7-CpG: 45/Downstream/1321067
Nearby gene
SEMA3D(No orient, 343306)
Upstream sequence
CTCTGCTAGAGAGCTTTTGCAGTTTTGAAGGTTATCAGATTCACTATATTGCTAATTGGTGGATTTCAACAGGGAGGAAAAAAAAATCAGTCAATGTAGG
Downstream sequence
CTGAGAAAATAGTTAAGTGCCAATAATCTTACTTCACGTTTAATAGTCACCACTTGCCTTCTCTATCTCATCCTTTATTTATCAATATTTATTGATTGAT
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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