Basic Information
VIS ID
TVIS30010804
Fusion event
HIV-ARL13B 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
q11.2
Reference genome
GRCh37/hg19
Start
93749567/94030723 (Hg38)
End
93749567/94030723 (Hg38)
Orient
+
Location type
Intronic
Target gene
ARL13B
miRNAs that regulate target gene
hsa-mir-106b-5p ; hsa-mir-132-3p ; hsa-mir-1266-3p ; hsa-mir-1277-5p ; hsa-mir-944 ; hsa-mir-5585-5p ; hsa-mir-548ax ; hsa-mir-548ao-5p ; hsa-mir-4502 ; hsa-mir-7849-3p ; hsa-mir-5692a ; hsa-mir-8054 ; hsa-mir-548k ; hsa-mir-548av-5p ; hsa-mir-559 ; hsa-mir-548y ; hsa-mir-548w ; hsa-mir-548o-5p ; hsa-mir-548j-5p ; hsa-mir-548i ; hsa-mir-548h-5p ; hsa-mir-548d-5p ; hsa-mir-548c-5p ; hsa-mir-548bb-5p ; hsa-mir-548b-5p ; hsa-mir-548ay-5p ; hsa-mir-548au-5p ; hsa-mir-548as-5p ; hsa-mir-548ar-5p ; hsa-mir-548aq-5p ; hsa-mir-548ap-5p ; hsa-mir-548am-5p ; hsa-mir-548ak ; hsa-mir-548ae-5p ; hsa-mir-548ad-5p ; hsa-mir-548ab ; hsa-mir-548a-5p ; hsa-mir-3149 ; hsa-mir-568 ; hsa-mir-8068 ; hsa-mir-6516-3p ; hsa-mir-1206 ; hsa-mir-5000-5p
Nearest miRNA
hsa-let-7g/Upstream/6804446; hsa-mir-12124/Downstream/2329241;
Nearest TSS
ENST00000440867/Upstream/2113; ENST00000477077/Downstream/32118;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/50134, chr3-CpG: 36/Downstream/32081
Upstream sequence
tatctaggtgatggcaaaaccacacagagaagtactattttaagtaattttaaaacagtattattgactctgcatctctagtgggatatagcgtagagac
Downstream sequence
aaagatacgtaaccacaaagatatgttaacctgcacttagtagtcttaatatttagtaatcatattgatattattatgttaaaattcctatatatagttg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate