Basic Information
VIS ID
TVIS30009125
Fusion event
HIV-PDSS2 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
107744987/107423783 (Hg38)
End
107744987/107423783 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6F
Target gene
PDSS2
miRNAs that regulate target gene
hsa-mir-26b-5p ; hsa-mir-142-3p
Nearest miRNA
hsa-mir-10398/Upstream/639563; hsa-mir-1202/Downstream/11645264;
Nearest TSS
ENST00000381078/Upstream/211624; ENST00000618129/Downstream/35780;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/307677, chr6-CpG: 19/Downstream/35248
Nearest cancer related gene
PDSS2(TSG, No orient, 0)
Upstream sequence
TTAAGAGGACTTACAATATGCTGAAATCATCAAGAAGCTTTCTTAGGCTCATTAAGTTAAAATTCTCCCACATGATTAACTGCTGATTTTGACTCAAAAG
Downstream sequence
TAACATAATACTACCACTCCTCTTCCTGATTTCCACACTTGGCATTCCAGGTAAAAGGCAGAGCAGAAACAACTTCTTCCTATTTTCCATCTATACAATT
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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