Basic Information
VIS ID
TVIS30003562
Fusion event
HIV-TRAT1 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
q13.13
Reference genome
GRCh37/hg19
Start
108558776/108839929 (Hg38)
End
108558776/108839929 (Hg38)
Orient
+
Location type
Intronic
Target gene
TRAT1
miRNAs that regulate target gene
hsa-mir-874-5p ; hsa-mir-222-3p ; hsa-mir-221-3p ; hsa-mir-645 ; hsa-mir-1303 ; hsa-mir-5096 ; hsa-mir-3149 ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-5587-5p ; hsa-mir-378a-5p ; hsa-mir-197-3p ; hsa-mir-411-5p ; hsa-mir-6832-5p ; hsa-mir-6801-5p ; hsa-mir-193b-5p ; hsa-mir-6131 ; hsa-mir-3663-5p ; hsa-mir-3653-5p ; hsa-mir-4716-5p ; hsa-mir-484 ; hsa-mir-3155b ; hsa-mir-3155a ; hsa-mir-4781-3p ; hsa-mir-483-5p ; hsa-mir-4652-3p ; hsa-mir-4743-3p ; hsa-mir-6888-3p ; hsa-mir-4326 ; hsa-mir-431-5p ; hsa-mir-3120-5p ; hsa-mir-215-3p ; hsa-mir-4778-5p ; hsa-mir-6773-3p ; hsa-mir-6074
Nearest miRNA
hsa-let-7g/Upstream/5315813; hsa-mir-12124/Downstream/762899;
Nearest TSS
ENST00000440867/Upstream/17070; ENST00000480826/Downstream/113833;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/250172, chr3-CpG: 28/Downstream/278019
Upstream sequence
GTATAGTAGTATACatttttttaaaaaaaatatttatGGCATAAATCGTAGTAAGGAAATTTTACTTTTTTTGTATAGAATATTCTGACCCAGATGTGTC
Downstream sequence
AATGTATTGGAGATTTCTGTTTTAGGGGTAAAAAAAAAAATCTAAATAAAGAGAATTTCCTAGAGGGCTCTTCAAGACCTTTCTGAAATGGTAGACTGAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate