Basic Information
VIS ID
TVIS30003607
Fusion event
HIV-SENP5 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
q29
Reference genome
GRCh37/hg19
Start
196643828/196916957 (Hg38)
End
196643828/196916957 (Hg38)
Orient
-
Location type
Intronic
Target gene
SENP5
miRNAs that regulate target gene
hsa-let-7d-5p ; hsa-mir-6516-5p ; hsa-mir-455-3p ; hsa-mir-4763-3p ; hsa-mir-1207-5p ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-6499-3p ; hsa-mir-6722-3p ; hsa-mir-1909-3p ; hsa-mir-4537 ; hsa-mir-1827 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-193b-3p ; hsa-mir-193a-3p ; hsa-mir-1273h-5p ; hsa-mir-149-3p ; hsa-mir-30b-3p ; hsa-mir-3192-5p ; hsa-mir-3689a-3p ; hsa-mir-3689b-3p ; hsa-mir-3689c ; hsa-mir-4728-5p ; hsa-mir-490-3p ; hsa-mir-6779-5p ; hsa-mir-6780a-5p ; hsa-mir-6785-5p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-7106-5p ; hsa-mir-7851-3p
Nearest miRNA
hsa-let-7g/Upstream/1034562; hsa-mir-4797/Downstream/376921;
Nearest TSS
ENST00000440867/Upstream/16918; ENST00000463245/Downstream/6461;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/48342, chr3-CpG: 130/Downstream/24867
Upstream sequence
gcacagcgactcacacctgtaatcccagcattttgggaggcctaggtgggtagatcacttgaggcaaggagtttgagacaaacctggccaacatggcaaa
Downstream sequence
cccccatctctactaaaaatacaaaaattagccgggcgtggtgacacaggtctgtaatcccaggtatgcagaacgctgaagcacaagaatcgcttgaacc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate