Basic Information
VIS ID
TVIS30002427
Fusion event
HIV-GSPT1 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
p13.13
Reference genome
GRCh37/hg19
Start
11991099/11897242 (Hg38)
End
11991099/11897242 (Hg38)
Orient
+
Location type
Intronic
Target gene
GSPT1
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-361-5p ; hsa-mir-183-5p ; hsa-mir-383-3p ; hsa-mir-873-5p ; hsa-mir-218-5p ; hsa-mir-1273e ; hsa-mir-7160-5p ; hsa-mir-1827 ; hsa-mir-4649-3p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-302f ; hsa-mir-6864-3p ; hsa-mir-3672 ; hsa-mir-6801-5p ; hsa-mir-769-5p ; hsa-mir-4786-5p ; hsa-mir-6500-3p ; hsa-mir-3614-5p ; hsa-mir-4275 ; hsa-mir-205-3p ; hsa-mir-576-3p ; hsa-mir-5197-5p ; hsa-mir-374c-3p ; hsa-mir-8055 ; hsa-mir-7977 ; hsa-mir-6884-5p ; hsa-mir-485-5p
Nearest miRNA
hsa-mir-1225/Upstream/590715; hsa-mir-11401/Downstream/823079;
Nearest TSS
ENST00000527434/Upstream/1958; ENST00000562802/Downstream/639;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/45582, chr16-CpG: 129/Downstream/17781
Upstream sequence
TCGTGACACACGAGAAATATGAAAGGATTTAGGAAATATTTTCTTTTTCCTCTTAAACTAATAAAACTTTGGCATCAACTTTAATCACGCTGAGAACGTG
Downstream sequence
AAACCCTTAAGAATAAAGTTATAAAAAGGAAGAACATTTTTCACCAAGAAAACAGAACGTGTggccgagcatggtggctcacacctgtaatcccagcact
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate