Basic Information
VIS ID
TVIS30008447
Fusion event
HIV-STAG1 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
chr3
Cytoband
q22.3
Reference genome
GRCh37/hg19
Start
136373856/136655014 (Hg38)
End
136373856/136655014 (Hg38)
Orient
+
Location type
Intronic
Target gene
STAG1
miRNAs that regulate target gene
hsa-mir-128-3p ; hsa-mir-26b-5p ; hsa-mir-149-5p ; hsa-mir-92a-3p ; hsa-mir-25-3p ; hsa-mir-2277-3p ; hsa-mir-212-3p ; hsa-mir-132-3p ; hsa-mir-4742-3p ; hsa-mir-8485 ; hsa-mir-6513-5p ; hsa-mir-5089-5p ; hsa-mir-6728-5p ; hsa-mir-769-3p ; hsa-mir-450b-3p ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181a-5p ; hsa-mir-181b-5p
Nearest miRNA
hsa-let-7g/Upstream/2217108; hsa-mir-1224/Downstream/14910862;
Nearest TSS
ENST00000440867/Upstream/50541; ENST00000564748/Downstream/97352;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/404291, chr3-CpG: 172/Downstream/96577
Upstream sequence
cacatagtaatggaaaaactgggtagccacatgcaaatttggacccttatttaacactaaatacaaaagttaactcaaatggatcaaagacctaaatgta
Downstream sequence
tgacctaaaattataaaactcttacagaaaaaacataagacaaaactttcacagcattaggtttggcaatgatttctcagaacaacatcggcacagacaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate