Basic Information
VIS ID
TVIS30002525
Fusion event
HIV-TRADD 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
chr16
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
67190657/67156754 (Hg38)
End
67190657/67156754 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA16B
Target gene
TRADD
miRNAs that regulate target gene
hsa-mir-5704 ; hsa-mir-4480 ; hsa-mir-338-3p ; hsa-mir-4530 ; hsa-mir-1295b-3p ; hsa-mir-922 ; hsa-mir-15a-3p ; hsa-mir-4717-5p ; hsa-mir-30c-2-3p
Nearest miRNA
hsa-mir-1225/Upstream/9384402; hsa-mir-11401/Downstream/45567;
Nearest TSS
ENST00000527434/Upstream/73; ENST00000518148/Downstream/3144;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/1005, chr16-CpG: 16/Downstream/2348
Upstream sequence
TGCCATCTCACCTCCTGGAGATGCAGACAGTCAGGTATCCAGTTCATCCCCCCTCCCTCCACCCTGGAGACAACTACCCAGCCCCACGTGGTTCAGCTGT
Downstream sequence
CCCCACCACAGTAGCCTCAAGTCCCACATGGTTCAGTTGTCCCCACCACTGGTTGGCATACTTGGGACAGGAGTTCACCATCTCACAGGAAGCCCCTTGA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate