Basic Information
VIS ID
TVIS30002112
Fusion event
HIV-PXN 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
chr12
Cytoband
q24.23
Reference genome
GRCh37/hg19
Start
120683865/120246062 (Hg38)
End
120683865/120246062 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12E ; FRA12C
Target gene
PXN
miRNAs that regulate target gene
hsa-mir-137 ; hsa-mir-335-5p ; hsa-mir-124-3p ; hsa-mir-221-3p ; hsa-mir-92a-3p ; hsa-mir-212-3p ; hsa-mir-27b-5p ; hsa-mir-145-5p ; hsa-mir-1255a ; hsa-mir-1255b-5p ; hsa-mir-139-3p ; hsa-mir-3123 ; hsa-mir-3165 ; hsa-mir-3621 ; hsa-mir-3656 ; hsa-mir-3691-5p ; hsa-mir-3913-3p ; hsa-mir-3915 ; hsa-mir-3928-3p ; hsa-mir-4734 ; hsa-mir-4753-5p ; hsa-mir-4796-3p ; hsa-mir-5693 ; hsa-mir-6077 ; hsa-mir-6744-5p ; hsa-mir-6759-3p ; hsa-mir-6782-3p
Nearest miRNA
hsa-let-7i/Upstream/90563; hsa-mir-3612/Downstream/477131;
Nearest TSS
ENST00000382841/Upstream/19218; ENST00000536460/Downstream/2686;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/31922, chr12-CpG: 61/Downstream/19111
Upstream sequence
gaaggcagattgtgattaatttaaacctgcaaaccacagagtgaccactaaaatcaaaccaatgaagtatagctaaataagcaaagagtggaaataaaac
Downstream sequence
agaaccctaaaaaatactcaatgaatctaaaacaaggcaagaggccagacacaatggctcacacctataatcccagcgcattgggaggccaaagcaggag
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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