Basic Information
VIS ID
TVIS30008060
Fusion event
HIV-SYNJ1 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
chr21
Cytoband
q22.11
Reference genome
GRCh37/hg19
Start
34068598/32696288 (Hg38)
End
34068598/32696288 (Hg38)
Orient
-
Location type
Intronic
Target gene
SYNJ1
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-32-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-10a-5p ; hsa-mir-92a-3p ; hsa-mir-92b-3p
Nearest miRNA
hsa-let-7c/Upstream/2320910; hsa-mir-3197/Downstream/854374;
Nearest TSS
ENST00000624081/Upstream/37727; ENST00000458479/Downstream/30654;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/83148, chr21-CpG: 102/Downstream/31117
Upstream sequence
TCTattttaattaatttaaatttaaatagcaagatgtggctagtggctaccacattagatagtgcaggcatagggtttatcatcgcTCCAAATACTTTTA
Downstream sequence
GCATTCTAGGTAACAGATGTGGCCtggtttccaaacttttttcagagaaacaaattttattcaaacaaacatgcagaagcccaatgattatgatacagat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate