Basic Information
VIS ID
TVIS30007549
Fusion event
HIV-SLC6A16 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
chr19
Cytoband
q13.33
Reference genome
GRCh37/hg19
Start
49823459/49320202 (Hg38)
End
49823459/49320202 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA19A
Target gene
SLC6A16
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-34a-5p ; hsa-mir-26b-5p
Nearest miRNA
hsa-mir-10395/Upstream/11334; hsa-let-7e/Downstream/180583;
Nearest TSS
ENST00000633603/Upstream/9791; ENST00000597602/Downstream/4930;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/109340, chr19-CpG: 32/Downstream/17728
Upstream sequence
ggttacattaaaaaacaaaaaagaggccggatgcagtggctcacgcctgtaatcccagcactttgggaggctgaggtgggtggatcatttgaggtcagga
Downstream sequence
gttcaagaccagcttgacctacatagtgaaaccccatctctattaaaatacaaaaattagctaggcatggtggtgggcgcctgtaatcccagctactcag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate