Basic Information
VIS ID
TVIS30004974
Fusion event
HIV-TRAM1 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
chr8
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
71511308/70599073 (Hg38)
End
71511308/70599073 (Hg38)
Orient
-
Location type
Intronic
Target gene
TRAM1
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-26b-5p ; hsa-mir-93-5p ; hsa-mir-2110 ; hsa-mir-6780b-5p ; hsa-mir-4725-3p ; hsa-mir-4271 ; hsa-mir-138-5p ; hsa-mir-539-5p ; hsa-mir-642b-3p ; hsa-mir-642a-3p ; hsa-mir-4299 ; hsa-mir-1207-3p ; hsa-mir-125b-2-3p ; hsa-mir-576-3p ; hsa-mir-5680 ; hsa-mir-4801 ; hsa-mir-4731-3p ; hsa-mir-200a-3p ; hsa-mir-141-3p ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p
Nearest miRNA
hsa-mir-124-1/Upstream/6219816; hsa-mir-10400/Downstream/3949470;
Nearest TSS
ENST00000518652/Upstream/118450; ENST00000519358/Downstream/8705;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/194538, chr8-CpG: 131/Downstream/8372
Upstream sequence
CCCAACTCAGGggctagatgcagtggctcacccctgtaatcccaacacttagggaggcaaggattgcttgaggcccaaattcaagactgacctaggtagt
Downstream sequence
atagtgagactccatctctatagtaaattgaaaaattagctgggcgtggtggtgtgcccttgtagtcccacctacttgggaggctgacctgggaggatca
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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