Basic Information
VIS ID
TVIS30010051
Fusion event
HIV-CLCN6 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
chr1
Cytoband
p36.22
Reference genome
GRCh37/hg19
Start
11872215/11812158 (Hg38)
End
11872215/11812158 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1A
Target gene
CLCN6
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-15b-5p ; hsa-mir-578 ; hsa-mir-203b-3p ; hsa-mir-7158-3p ; hsa-mir-526b-5p ; hsa-mir-1290 ; hsa-mir-1287-5p ; hsa-mir-3135b ; hsa-mir-4635 ; hsa-mir-6839-5p ; hsa-mir-378j ; hsa-mir-3167 ; hsa-mir-876-5p ; hsa-mir-4298 ; hsa-mir-1302 ; hsa-mir-431-5p ; hsa-mir-3613-3p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-670-3p ; hsa-mir-3671 ; hsa-mir-5704 ; hsa-mir-4529-5p ; hsa-mir-1236-3p ; hsa-mir-372-5p ; hsa-mir-877-3p ; hsa-mir-6865-3p ; hsa-mir-1295b-3p ; hsa-mir-15a-3p ; hsa-mir-4717-5p
Nearest miRNA
hsa-mir-12136/Upstream/1844700; hsa-mir-101-1/Downstream/217000;
Nearest TSS
ENST00000473358/Upstream/5238; ENST00000494028/Downstream/17691;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/5649, chr1-CpG: 28/Downstream/26178
Upstream sequence
aaccgagattatgccactgcactccatgctgggtgacagagaaagaccccatctcaaaaaaaaaaaGTAGTaggttgtcacctgcatttctcagcagctg
Downstream sequence
gcagtgaattgaaggttcacaggactccctccttgagtttggttaacttgctagagcgggtcagaaaacacagaaatgctacttacatttgctagtttat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate