Basic Information
VIS ID
TVIS30003915
Fusion event
HIV-PRDM1 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
chr6
Cytoband
q21
Reference genome
GRCh37/hg19
Start
106508540/106060665 (Hg38)
End
106508540/106060665 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6F
Target gene
PRDM1
miRNAs that regulate target gene
hsa-let-7a-5p ; hsa-mir-9-5p ; hsa-mir-127-3p ; hsa-mir-125b-5p ; hsa-let-7b-5p ; hsa-let-7f-5p ; hsa-mir-30a-5p ; hsa-mir-877-3p ; hsa-mir-223-3p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30e-5p ; hsa-mir-125a-3p ; hsa-mir-374a-5p ; hsa-mir-129-5p ; hsa-mir-125a-5p ; hsa-mir-140-5p ; hsa-mir-874-3p ; hsa-mir-3157-3p ; hsa-mir-6886-3p ; hsa-mir-938 ; hsa-mir-222-3p ; hsa-mir-101-3p ; hsa-mir-320c
Nearest miRNA
hsa-mir-10398/Upstream/6935969; hsa-mir-1202/Downstream/723460;
Nearest TSS
ENST00000381078/Upstream/167624; ENST00000424894/Downstream/25655;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/65628, chr6-CpG: 30/Downstream/25596
Nearby gene
PRDM1(No orient, 25655)
Nearest cancer related gene
PRDM1(TSG, No orient, 0)
Upstream sequence
atggatcatagacttgaagctgggtgataagggaagtgagaacaagtggtaaatactggagaatgaaaaagtagggcagttgttcattggattggaagag
Downstream sequence
ctgatgtaatttgaggaatttctggagtcaaagcagtaaaaacgtgctgggaagactaaataggaggaggttagagacagaggctttggaggacatgtgc
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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