Basic Information
VIS ID
TVIS30003820
Fusion event
HIV-TRIM27 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
chr6
Cytoband
p22.1
Reference genome
GRCh37/hg19
Start
28883312/28915535 (Hg38)
End
28883312/28915535 (Hg38)
Orient
-
Location type
Intronic
Target gene
TRIM27
miRNAs that regulate target gene
hsa-mir-421 ; hsa-mir-1260b ; hsa-mir-493-3p ; hsa-mir-4712-3p ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-548m ; hsa-mir-6878-3p ; hsa-mir-6735-3p ; hsa-mir-6832-3p ; hsa-mir-6504-3p ; hsa-mir-129-2-3p ; hsa-mir-129-1-3p ; hsa-mir-6856-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6873-3p ; hsa-mir-1229-3p ; hsa-mir-4666a-5p ; hsa-mir-942-5p ; hsa-mir-6870-3p ; hsa-mir-586 ; hsa-mir-27a-3p
Nearest miRNA
hsa-mir-3143/Upstream/1767847; hsa-mir-10398/Downstream/1668797;
Nearest TSS
ENST00000381078/Upstream/6546; ENST00000377186/Downstream/4648;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/19767, chr6-CpG: 119/Downstream/7639
Upstream sequence
ccatctctaccaaaaatacaaaaattagctaggtgtggtggtgtgtgcctgtaatcccagctactcgggaggctgaggcaggagactcactcaggaggtg
Downstream sequence
gaagctgcagtgagctgagattgtgccactgcactccagcctgggcaacagagtgagactttgtctaaaaaaaatttaaaaaaaGGTTTTAAAGCCTTAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate