Basic Information
VIS ID
TVIS30011815
Fusion event
HIV-SFSWAP 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
q24.33
Reference genome
GRCh37/hg19
Start
132208579/131724034 (Hg38)
End
132208579/131724034 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
SFSWAP
miRNAs that regulate target gene
hsa-mir-183-5p ; hsa-let-7a-5p ; hsa-mir-218-5p
Nearest miRNA
hsa-let-7i/Upstream/3429856; hsa-mir-6763/Downstream/857963;
Nearest TSS
ENST00000382841/Upstream/776; ENST00000535202/Downstream/2955;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/12125, chr12-CpG: 18/Downstream/10748
Upstream sequence
ATATGTTGACTGTATTTTTTAAATCTCATTGTGTAGTAGGAGTGATCATGATATTCTTAAATGGAAAATGATTTACCTAAAGTCTGCCTAATAAAGTAAA
Downstream sequence
GAATGGCTTTTTCCAAACCAGATACTTTTTAATCTTATTCAGGGTTGGTAGCCAACCTTGAAATATGTCCGTAAGATGCTTTGTTTTTTTGTAAAATTAC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate