Basic Information
VIS ID
TVIS30004479
Fusion event
HIV-XPO4 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
chr13
Cytoband
q12.11
Reference genome
GRCh37/hg19
Start
21391113/20816974 (Hg38)
End
21391113/20816974 (Hg38)
Orient
-
Location type
Intronic
Target gene
XPO4
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-877-3p ; hsa-mir-18a-3p ; hsa-mir-146b-5p ; hsa-mir-16-5p ; hsa-mir-6079 ; hsa-mir-3190-3p ; hsa-mir-3165 ; hsa-mir-6880-5p ; hsa-mir-8071 ; hsa-mir-6828-5p ; hsa-mir-873-5p ; hsa-mir-6809-3p ; hsa-mir-4753-3p ; hsa-mir-4477a ; hsa-mir-302d-5p ; hsa-mir-302b-5p ; hsa-mir-130b-5p ; hsa-mir-16-1-3p ; hsa-mir-365b-3p ; hsa-mir-365a-3p ; hsa-mir-100-3p ; hsa-mir-548l ; hsa-mir-548n ; hsa-mir-671-5p
Nearest miRNA
hsa-mir-4499/Upstream/383128; hsa-mir-1267/Downstream/3345442;
Nearest TSS
ENST00000623511/Upstream/43016; ENST00000422510/Downstream/85773;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/42856, chr13-CpG: 80/Downstream/85646
Upstream sequence
GAGCTAAAACTATTGTTATTATTTCTAAAAAGTATACTTTTAATGTGCAAGCTTTAAAAAATACTCATGGATTTAATTCTATCTTTTAAGCAGAGGAAAT
Downstream sequence
GAATGTGCTTGATGGGTGGGGGGCGCTGGACAGCCAGCTTGCTCTCTCCAGTATCATCAGTTTATTCTTTTATAGCTACAAGAACCGTTTGGTGGGGATG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate