Basic Information
VIS ID
TVIS30006405
Fusion event
HIV-MIR548AN 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
chr13
Cytoband
q32.3
Reference genome
GRCh37/hg19
Start
99951690/99299436 (Hg38)
End
99951690/99299436 (Hg38)
Orient
+
Location type
ncRNA_intronic
Fragile sites / regions
FRA13D
Target gene
MIR548AN
Nearest miRNA
hsa-mir-1297/Upstream/1090836; hsa-mir-1267/Downstream/56695;
Nearest TSS
ENST00000623511/Upstream/37692; ENST00000474510/Downstream/7969;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/98138, chr13-CpG: 20/Downstream/177597
Upstream sequence
TGCAGCTCTGAAAATGGCAACATGAAAATGCCTGTTTCTTGACTGGGAATTATGTTAAGTGAGGAAAGCAGATTATACAACATGCCACTTTTTTGGGAGG
Downstream sequence
TAGGGAAGCAAATacacacacacacgcacacacacacacaGAAAGATGTCTGTATGCCAAAACATAATTTTGTATGAGTAATTTTGGGGCTTTACTCATA
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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