Basic Information
VIS ID
TVIS30010170
Fusion event
HIV-SOX6 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
chr11
Cytoband
p15.2
Reference genome
GRCh37/hg19
Start
16232367/16210821 (Hg38)
End
16232367/16210821 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA11C ; FRA11I
Target gene
SOX6
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-499a-5p ; hsa-mir-155-5p ; hsa-mir-16-5p ; hsa-mir-208a-3p ; hsa-mir-3148 ; hsa-mir-4668-5p ; hsa-mir-562 ; hsa-mir-651-3p ; hsa-mir-548n ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-1269a ; hsa-mir-132-3p ; hsa-mir-202-3p ; hsa-mir-1273h-5p ; hsa-mir-129-5p ; hsa-mir-30b-3p ; hsa-mir-30c-1-3p ; hsa-mir-30c-2-3p ; hsa-mir-3122 ; hsa-mir-3689a-3p ; hsa-mir-3689b-3p ; hsa-mir-3689c ; hsa-mir-3913-5p ; hsa-mir-450a-1-3p ; hsa-mir-6513-5p ; hsa-mir-6731-5p ; hsa-mir-6779-5p ; hsa-mir-6780a-5p ; hsa-mir-6788-5p ; hsa-mir-6878-5p ; hsa-mir-8085 ; hsa-mir-887-5p
Nearest miRNA
hsa-mir-210/Upstream/241200; hsa-let-7a-2/Downstream/2176966;
Nearest TSS
ENST00000527297/Upstream/98952; ENST00000525106/Downstream/41715;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/269144, chr11-CpG: 101/Downstream/393685
Upstream sequence
ACTCACTACATTTAACCAATCGTTCAATAAATATAATTTACCTGGGTCAGgcagtgaaccgacacatactgttttcatgcaacttactttctagtggagg
Downstream sequence
aactcagacaataaatacaagaaatgaccaattaaagggatagtaagagatagtaaacgctgtagaagaaaacagctgagtaggtggaagaggttctaat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate