Basic Information
VIS ID
TVIS30007198
Fusion event
HIV-GNA13 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
chr17
Cytoband
q24.1
Reference genome
GRCh37/hg19
Start
63050457/65054339 (Hg38)
End
63050457/65054339 (Hg38)
Orient
+
Location type
Intronic
Target gene
GNA13
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-30b-5p ; hsa-mir-1-3p ; hsa-mir-30a-5p ; hsa-mir-26b-5p ; hsa-mir-18a-3p ; hsa-mir-100-5p ; hsa-mir-138-1-3p ; hsa-mir-3134 ; hsa-mir-8082 ; hsa-mir-4534 ; hsa-mir-3924 ; hsa-mir-570-3p ; hsa-mir-380-3p ; hsa-mir-4495 ; hsa-mir-411-3p ; hsa-mir-379-3p ; hsa-mir-30d-5p ; hsa-mir-30e-5p ; hsa-mir-30c-5p ; hsa-mir-6715b-3p ; hsa-mir-3145-3p ; hsa-mir-3614-3p ; hsa-mir-141-3p ; hsa-mir-200a-3p ; hsa-mir-494-5p ; hsa-mir-410-5p ; hsa-mir-323b-5p ; hsa-mir-548g-3p ; hsa-mir-548av-3p ; hsa-mir-29b-1-5p ; hsa-mir-5571-5p ; hsa-mir-31-5p
Nearest miRNA
hsa-mir-10226/Upstream/232237; hsa-mir-1250/Downstream/1732733;
Nearest TSS
ENST00000595228/Upstream/2430; ENST00000582940/Downstream/1435;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/78164, chr17-CpG: 122/Downstream/1436
Nearest cancer related gene
GNA13(OG, No orient, 0)
Upstream sequence
AAACTTCTTCCAGCCCAAGTTTCAATCCAGTTTAAGTTACAGGATGGCCTTCAATTTCCCTAAAAGGGAGGAAGATCAACTGCAAAATAATACAAAGTCG
Downstream sequence
GACTCCAACTCACAGAGGTTAGTTGAAACTCATTTTTCCTATCACTGATCTATTACTTTTATTAAGTTTGATCAATCTGAACAGTCACTTGGCTATTAGG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate