Basic Information
VIS ID
TVIS30009917
Fusion event
HIV-DMD 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
chrX
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
31941768/31923651 (Hg38)
End
31941768/31923651 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRAXC
Target gene
DMD
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-31-5p ; hsa-mir-155-5p ; hsa-mir-21-5p ; hsa-mir-16-5p ; hsa-mir-4446-5p ; hsa-mir-186-3p ; hsa-mir-561-3p ; hsa-mir-6499-3p ; hsa-mir-574-5p ; hsa-mir-4455 ; hsa-mir-5010-3p ; hsa-mir-2113 ; hsa-mir-147a ; hsa-mir-6818-5p ; hsa-mir-297 ; hsa-mir-19b-2-5p ; hsa-mir-19b-1-5p ; hsa-mir-19a-5p ; hsa-mir-2052 ; hsa-mir-8068 ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-567 ; hsa-mir-520h ; hsa-mir-520g-3p ; hsa-mir-3973 ; hsa-mir-511-3p ; hsa-mir-9-3p
Nearest miRNA
hsa-mir-23c/Upstream/2349293; hsa-let-7f-2/Downstream/660005;
Nearest TSS
ENST00000429181/Upstream/48278; ENST00000439592/Downstream/231818;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/656749, chrX-CpG: 36/Downstream/1802662
Nearest cancer related gene
DMD(TSG, No orient, 0)
Upstream sequence
TGGGAACTATCAGACTATATGCCCAATAAATAGGTGAACACCCttttttttttttttttttttttgagatagagtcttgctctgtcgccaggctggagta
Downstream sequence
tagcggcatgatcttggctcactgcaacctcctactccctggttcaagtgattctcctgcctcagcctcccaaatagctgggattacagacacatgccac
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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