Basic Information
VIS ID
TVIS30009074
Fusion event
HIV-XPO5 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
p21.1
Reference genome
GRCh37/hg19
Start
43530505/43562768 (Hg38)
End
43530505/43562768 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
XPO5
miRNAs that regulate target gene
hsa-let-7b-5p ; hsa-mir-92b-3p ; hsa-mir-425-3p ; hsa-mir-5698 ; hsa-mir-744-3p ; hsa-mir-5047 ; hsa-mir-1301-3p ; hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-143-5p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-6499-3p ; hsa-mir-4660 ; hsa-mir-1184 ; hsa-mir-6787-3p ; hsa-mir-1304-3p ; hsa-mir-6736-3p ; hsa-mir-6890-3p ; hsa-mir-509-5p ; hsa-mir-509-3-5p ; hsa-mir-4418 ; hsa-mir-216a-5p
Nearest miRNA
hsa-mir-10398/Upstream/128148; hsa-mir-10524/Downstream/691438;
Nearest TSS
ENST00000381078/Upstream/435; ENST00000443535/Downstream/13217;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/45619, chr6-CpG: 82/Downstream/12619
Nearest cancer related gene
XPO5(TSG, No orient, 0)
Upstream sequence
AACATTGAAGGacaggatggtattatggtgtccaatgcaatctctggagtttgactacctgggttggaatcaccgctttATGAACCATGGTTGTGGTATG
Downstream sequence
GCACCCACAGCACAAACAGAAACGGGACACCACTTAGTATGAGTGTCATGATGTCTATGGAACTAAGAATTGGACCTAAAAATAGTAACTACCCAAAAAA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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