Basic Information
VIS ID
TVIS30005207
Fusion event
HIV-SZT2 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
chr1
Cytoband
p34.2
Reference genome
GRCh37/hg19
Start
43878231/43412560 (Hg38)
End
43878231/43412560 (Hg38)
Orient
-
Location type
Intronic
Target gene
SZT2
miRNAs that regulate target gene
hsa-mir-423-3p ; hsa-mir-4632-3p ; hsa-mir-4707-3p ; hsa-mir-1225-3p ; hsa-mir-7108-3p ; hsa-mir-4667-3p ; hsa-mir-4743-3p ; hsa-mir-6818-3p ; hsa-mir-6888-3p ; hsa-mir-6868-3p ; hsa-mir-593-3p ; hsa-mir-6895-3p ; hsa-mir-146b-3p ; hsa-mir-3182 ; hsa-mir-6845-3p ; hsa-mir-1248 ; hsa-mir-5699-3p ; hsa-mir-1237-3p ; hsa-mir-4421 ; hsa-mir-6779-3p ; hsa-mir-339-5p ; hsa-mir-1180-5p ; hsa-mir-4433b-5p ; hsa-mir-4725-5p ; hsa-mir-6808-3p ; hsa-mir-7114-3p ; hsa-mir-7973
Nearest miRNA
hsa-mir-12136/Upstream/47845; hsa-mir-101-1/Downstream/35979;
Nearest TSS
ENST00000473358/Upstream/8156; ENST00000470139/Downstream/8197;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/22310, chr1-CpG: 63/Downstream/41029
Upstream sequence
tttttagtttttttgtagagatgaggtctctaccaagctggtctctaactcctgggctcaagcgatcttcccatcttggcctcccaaagtgctgggatta
Downstream sequence
cacatgtgaaccactatgcttggcTcaaagatttattgataataccctgcaagcacaagcgtgcaaagcaaaaatggacaaataggatcacatcaagtta
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate