Basic Information
VIS ID
TVIS30009293
Fusion event
HIV-VPS41 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
chr7
Cytoband
p14.1
Reference genome
GRCh37/hg19
Start
38931731/38892131 (Hg38)
End
38931731/38892131 (Hg38)
Orient
-
Location type
Intronic
Target gene
VPS41
miRNAs that regulate target gene
hsa-mir-148a-3p ; hsa-let-7b-5p ; hsa-mir-197-3p ; hsa-mir-4634 ; hsa-mir-4695-3p ; hsa-mir-6787-3p ; hsa-mir-6511b-3p ; hsa-mir-6511a-3p ; hsa-mir-6736-3p ; hsa-mir-4714-3p ; hsa-mir-652-3p ; hsa-mir-30e-5p ; hsa-mir-30d-5p ; hsa-mir-30b-5p ; hsa-mir-30c-5p ; hsa-mir-30a-5p
Nearest miRNA
hsa-mir-1183/Upstream/1972699; hsa-mir-10399/Downstream/4258764;
Nearest TSS
ENST00000635602/Upstream/60785; ENST00000464276/Downstream/17043;
Nearest CpG islands
None/Target, chr7-CpG: 39/Upstream/260570, chr7-CpG: 36/Downstream/83812
Upstream sequence
taaCTATTCTCTATTCTCTGGAATAGAAAGCAATTCTGAAACTGGTATATTTTCCTACAAGTTGAACAAATCGAAATCTGTAATATTACCCAAAAATCTC
Downstream sequence
ATTATTATACATAGAGAAAATTCCAAAGATTTTTTTTTTTAATCCTGTCAAATTCTATAAAGGTACATAGAAGAAGAGTTTGGCCTAAAAACAGAGAGTC
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate