Basic Information
VIS ID
TVIS30006408
Fusion event
HIV-SOX1-OT 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
q34
Reference genome
GRCh37/hg19
Start
112707287/112052973 (Hg38)
End
112707287/112052973 (Hg38)
Orient
-
Location type
ncRNA_intronic
Target gene
SOX1-OT
Nearest miRNA
hsa-mir-1267/Upstream/1711944; hsa-mir-4502/Downstream/1209947;
Nearest TSS
ENST00000623511/Upstream/152985; ENST00000330949/Downstream/14674;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/15754, chr13-CpG: 81/Downstream/517
Upstream sequence
TAAGCACTTATTAACTGTGTGTGCATTCATGGGACACAGAAATGGTCTCAGGCTGAGCTTATAGTGAAGCAAATTAAAATTAGTGTTTTGACTTTTGTTC
Downstream sequence
ATTATAAAGTAAATACTAGCCTAAAGATTCCTAATCAGTTGCCAAATACCTATCATGAAGGAATATGCATTGCCGAATGAAATCGCTGTCCTCAAGAGAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate