Basic Information
VIS ID
TVIS30005830
Fusion event
HIV-FRMD8 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
chr11
Cytoband
q13.1
Reference genome
GRCh37/hg19
Start
65177471/65410000 (Hg38)
End
65177471/65410000 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
FRMD8
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-874-3p ; hsa-mir-377-5p ; hsa-mir-4257 ; hsa-mir-4524a-3p ; hsa-mir-6086 ; hsa-mir-6516-5p ; hsa-mir-6864-3p ; hsa-mir-455-3p ; hsa-mir-3672 ; hsa-mir-6499-3p ; hsa-mir-4537 ; hsa-mir-7703 ; hsa-mir-661 ; hsa-mir-3116 ; hsa-mir-1254 ; hsa-mir-4252 ; hsa-mir-4708-5p ; hsa-mir-6860 ; hsa-mir-612 ; hsa-mir-5189-5p ; hsa-mir-3187-5p ; hsa-mir-1285-3p ; hsa-mir-4793-3p ; hsa-mir-1976 ; hsa-mir-939-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-1273g-3p ; hsa-mir-483-3p ; hsa-mir-4787-3p
Nearest miRNA
hsa-mir-10392/Upstream/280022; hsa-let-7a-2/Downstream/34458;
Nearest TSS
ENST00000527297/Upstream/15738; ENST00000612303/Downstream/12774;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/4875, chr11-CpG: 81/Downstream/11992
Upstream sequence
agaccctgtctctacacaaactaaaaaaaccttagccatggctcacacctgtagtcccagctattggggatgctgaagtgggaggatcacctaggcttag
Downstream sequence
gaggtaaggctgcagtgagccgtgattgtaacactgcactccagcctgagcaacacagcttgtctcaaaaaaaaaaCCACAAAggcgggacatggtggct
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate