Basic Information
VIS ID
TVIS30006573
Fusion event
HIV-SLC12A6 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
chr15
Cytoband
q14
Reference genome
GRCh37/hg19
Start
34606242/34314041 (Hg38)
End
34606242/34314041 (Hg38)
Orient
+
Location type
Intronic
Target gene
SLC12A6
miRNAs that regulate target gene
hsa-mir-652-3p ; hsa-mir-126-5p ; hsa-mir-888-5p ; hsa-mir-4795-3p ; hsa-mir-5689 ; hsa-mir-106a-5p ; hsa-mir-106b-5p ; hsa-mir-17-5p ; hsa-mir-186-3p ; hsa-mir-20a-5p ; hsa-mir-20b-5p ; hsa-mir-302a-3p ; hsa-mir-302b-3p ; hsa-mir-302c-3p ; hsa-mir-302d-3p ; hsa-mir-302e ; hsa-mir-372-3p ; hsa-mir-373-3p ; hsa-mir-4438 ; hsa-mir-4731-5p ; hsa-mir-5089-5p ; hsa-mir-5095 ; hsa-mir-512-3p ; hsa-mir-519d-3p ; hsa-mir-520a-3p ; hsa-mir-520b ; hsa-mir-520c-3p ; hsa-mir-520d-3p ; hsa-mir-520e ; hsa-mir-520g-3p ; hsa-mir-520h ; hsa-mir-526b-3p ; hsa-mir-5589-5p ; hsa-mir-5702 ; hsa-mir-619-5p ; hsa-mir-6504-3p ; hsa-mir-6506-5p ; hsa-mir-6890-3p ; hsa-mir-7151-3p ; hsa-mir-93-5p ; hsa-mir-937-5p
Nearest miRNA
hsa-mir-1268a/Upstream/3248900; hsa-mir-10393/Downstream/68028;
Nearest TSS
ENST00000557528/Upstream/14383; ENST00000537011/Downstream/4738;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/103743, chr15-CpG: 90/Downstream/23333
Upstream sequence
aaaaacgaaaaaaaaaaaaaaaggtttatgctaaatctactctgcctatgctcagcggaacaacaaagcctgaatagcagctaatctgtttacagcatgg
Downstream sequence
tttattgattttttttttttttttgagacgtagtcttgctctgttgcttaggctggagtgcagtggcccgatctcagctcactgcaacctccgcctcctg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate