Basic Information
VIS ID
TVIS30008453
Fusion event
HIV-XRN1 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
q23
Reference genome
GRCh37/hg19
Start
142133704/142414862 (Hg38)
End
142133704/142414862 (Hg38)
Orient
-
Location type
Intronic
Target gene
XRN1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-34a-5p ; hsa-mir-10a-5p ; hsa-let-7b-5p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-410-3p ; hsa-mir-4747-3p ; hsa-mir-1295b-3p ; hsa-mir-6507-5p ; hsa-mir-1277-5p ; hsa-mir-92b-3p ; hsa-mir-32-5p ; hsa-mir-92a-3p
Nearest miRNA
hsa-let-7g/Upstream/7976956; hsa-mir-1224/Downstream/9151014;
Nearest TSS
ENST00000440867/Upstream/522; ENST00000483373/Downstream/10673;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/189184, chr3-CpG: 71/Downstream/32498
Upstream sequence
gggattacaggcgtaagccactgcgcctggccTATTTCCTGAATTTTTAAAGTGTGGTTTCACATTTCTGAAATTGGGATGAATCAGGTAATTGAAAAAC
Downstream sequence
ACGTATAATGTAATGCTTTTTTTAATTCTCAAAATGTTGATAGTGAATCTTCCAATCAATAGATTGAACCAGAAATAATGAGGTAGTCAGAAGACTTTCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate