Basic Information
VIS ID
TVIS30011954
Fusion event
HIV-KNL1 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
chr15
Cytoband
q15.1
Reference genome
GRCh37/hg19
Start
40897280/40605082 (Hg38)
End
40897280/40605082 (Hg38)
Orient
+
Location type
Intronic
Target gene
KNL1
miRNAs that regulate target gene
hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-21-5p ; hsa-mir-633 ; hsa-mir-3674 ; hsa-mir-802 ; hsa-mir-1179 ; hsa-mir-4524b-3p ; hsa-mir-191-5p ; hsa-mir-127-5p ; hsa-mir-7843-3p ; hsa-mir-7977 ; hsa-mir-4786-3p ; hsa-mir-383-3p ; hsa-mir-25-5p ; hsa-mir-3160-3p ; hsa-mir-3929 ; hsa-mir-4327 ; hsa-mir-4419b ; hsa-mir-4478 ; hsa-mir-4487 ; hsa-mir-455-3p ; hsa-mir-4649-3p ; hsa-mir-4695-5p ; hsa-mir-4722-5p ; hsa-mir-485-5p ; hsa-mir-558 ; hsa-mir-6087 ; hsa-mir-6499-3p ; hsa-mir-6516-5p ; hsa-mir-665 ; hsa-mir-6746-5p ; hsa-mir-6771-5p ; hsa-mir-6840-3p ; hsa-mir-6884-5p ; hsa-mir-7160-5p
Nearest miRNA
hsa-mir-1233-1/Upstream/3632181; hsa-mir-10393/Downstream/1086503;
Nearest TSS
ENST00000557528/Upstream/10810; ENST00000532406/Downstream/18050;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/10362, chr15-CpG: 87/Downstream/89591
Upstream sequence
TTGCTTGCCAGAGTGCTAAGAGAAAGTGATGACCAGTTTGAAAGCATGTAAGGGGTGCTGTGATGATGCCTTTTGTGAATTCATTTTTTTAAATCACTGT
Downstream sequence
GTATATAATTTTGTTTTCCTTTTTCAGTGACAATATAGAGAGACCTGTTAGAAGACGGCATTCTTCAGTAAGAAAGACTTTCTTGAATTAATAATTGTCA
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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