Basic Information
VIS ID
TVIS30012829
Fusion event
HIV-TBC1D20 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
chr20
Cytoband
p13
Reference genome
GRCh37/hg19
Start
428519/447875 (Hg38)
End
428519/447875 (Hg38)
Orient
-
Location type
Intronic
Target gene
TBC1D20
miRNAs that regulate target gene
hsa-mir-93-5p ; hsa-mir-296-3p ; hsa-let-7b-5p ; hsa-mir-195-5p ; hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-3922-5p ; hsa-mir-3974 ; hsa-mir-4708-3p ; hsa-mir-6771-3p
Nearest miRNA
hsa-mir-1-1/Downstream/945025;
Nearest TSS
ENST00000382410/Upstream/5983; ENST00000381941/Downstream/14656;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/28050, chr20-CpG: 97/Downstream/14011
Upstream sequence
GATTTATTCATATACCCTTGGTTTGAAAGGACCATAAAAATTAAAGATCCTGGAATTCTTTTCCCCCTGTCTCCTAGATAAGCTCCCCTCACAGCCTCCC
Downstream sequence
CCACTCCCCTTACCTGATATAGGAGGTGGGTCATTGGCATTGACATTGAGGAGCTTGGGCCACACTTTTCGTCTGATCTCATCAGTCAGGAGCCCTCCTT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate