Basic Information
VIS ID
TVIS30004236
Fusion event
HIV-TSC1 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
chr9
Cytoband
q34.13
Reference genome
GRCh37/hg19
Start
135786885/132911498 (Hg38)
End
135786885/132911498 (Hg38)
Orient
-
Location type
Exonic
Target gene
TSC1
miRNAs that regulate target gene
hsa-mir-32-5p ; hsa-mir-335-5p ; hsa-mir-193b-3p ; hsa-mir-106b-5p ; hsa-mir-320a ; hsa-mir-4668-5p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6873-3p ; hsa-mir-1298-5p ; hsa-mir-6728-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-8087 ; hsa-mir-7161-5p ; hsa-mir-548u ; hsa-mir-92a-3p ; hsa-mir-92b-3p ; hsa-mir-23a-3p ; hsa-mir-451a
Nearest miRNA
hsa-let-7a-1/Upstream/2285135; hsa-mir-126/Downstream/34209;
Nearest TSS
ENST00000422679/Upstream/292; ENST00000631293/Downstream/970;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/32501, chr9-CpG: 84/Downstream/32641
Nearest cancer related gene
TSC1(TSG, No orient, 0)
Upstream sequence
GTCAGCTTCACCAGAAAGCAGAGGAGAGAGCAGGCACACTAGTTGACACCATACTTGTGGTGGTTCAGTTATCAGCCGTGTCGATGGGGAACTCAGAGTC
Downstream sequence
TGAGGTAGCTGCCCTGGCATATTTAACAACATCAGCCGAGACGTGGAGTAAGGGGTAGAAGTAGCACACCCTAAAATGGAAGAGAAGAACACAGGGGGTT
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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