Basic Information
VIS ID
TVIS30010557
Fusion event
HIV-PIGN 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
chr18
Cytoband
q21.33
Reference genome
GRCh37/hg19
Start
59749039/62081806 (Hg38)
End
59749039/62081806 (Hg38)
Orient
+
Location type
Intronic
Target gene
PIGN
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-21-5p ; hsa-mir-29b-3p ; hsa-let-7e-5p ; hsa-let-7a-5p ; hsa-mir-568 ; hsa-mir-202-5p ; hsa-mir-3924 ; hsa-mir-337-3p ; hsa-mir-641 ; hsa-mir-3617-5p
Nearest miRNA
hsa-mir-1-2/Upstream/3630648; hsa-mir-5011/Downstream/4999778;
Nearest TSS
ENST00000575820/Upstream/5779; ENST00000590713/Downstream/21015;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/187090, chr18-CpG: 96/Downstream/104938
Upstream sequence
AGTACATGTCATTCACCAGTTTTTATTGCATCTAAGTAAATATCTCTTATGTGATATTGACAAGGCATAAATACTTTCAATATTAAATTCATGTAAATAT
Downstream sequence
CCTGCAAAAATATACTAAAACTAGAAATGAGATTTCTAGTATTCTTAAGCAGTGGAAGAAAAACTTTTTTCATTATGGCATATCCATAATACTATGCTAA
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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