Basic Information
VIS ID
TVIS30011123
Fusion event
HIV-RABL6 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
chr9
Cytoband
q34.3
Reference genome
GRCh37/hg19
Start
139711383/136816931 (Hg38)
End
139711383/136816931 (Hg38)
Orient
+
Location type
Intronic
Target gene
RABL6
miRNAs that regulate target gene
hsa-mir-1226-3p ; hsa-mir-425-5p ; hsa-mir-484 ; hsa-mir-191-5p ; hsa-mir-222-3p ; hsa-mir-10a-5p ; hsa-let-7e-5p
Nearest miRNA
hsa-let-7a-1/Upstream/69961; hsa-mir-3621/Downstream/14026;
Nearest TSS
ENST00000422679/Upstream/8083; ENST00000436380/Downstream/4398;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/8160, chr9-CpG: 86/Downstream/4280
Upstream sequence
GCCATATAGTAGGTGTGTATATGGGTAATTAGCTTTTAAAAGGAGTAAATTTCATTTCAAGGGAGAGAAAATAAGACTCTTCATTCTCAAAATGTGAAGA
Downstream sequence
TAATAGAAAACAAATGTATGTTAAAATTGATAAAGATGTAAAAGGAAGCAATCTTAAGACTAGTCAAGACTGTATGCCCATGATATGTGCAATTATTATG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate