Basic Information
VIS ID
TVIS30005782
Fusion event
HIV-AMBRA1 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
chr11
Cytoband
p11.2
Reference genome
GRCh37/hg19
Start
46498282/46476732 (Hg38)
End
46498282/46476732 (Hg38)
Orient
+
Location type
Intronic
Target gene
AMBRA1
miRNAs that regulate target gene
hsa-mir-339-5p ; hsa-mir-331-3p ; hsa-mir-186-5p ; hsa-mir-1231 ; hsa-mir-1299 ; hsa-mir-1343-3p ; hsa-mir-208a-3p ; hsa-mir-208b-3p ; hsa-mir-23a-5p ; hsa-mir-23b-5p ; hsa-mir-24-3p ; hsa-mir-3202 ; hsa-mir-3689d ; hsa-mir-3928-5p ; hsa-mir-3929 ; hsa-mir-4419b ; hsa-mir-4478 ; hsa-mir-4533 ; hsa-mir-485-5p ; hsa-mir-555 ; hsa-mir-571 ; hsa-mir-6128 ; hsa-mir-6134 ; hsa-mir-6515-5p ; hsa-mir-6758-5p ; hsa-mir-6776-5p ; hsa-mir-6783-3p ; hsa-mir-6796-3p ; hsa-mir-6806-3p ; hsa-mir-6851-5p ; hsa-mir-6856-5p ; hsa-mir-6861-5p ; hsa-mir-6881-5p ; hsa-mir-6884-5p ; hsa-mir-759 ; hsa-mir-875-3p
Nearest miRNA
hsa-mir-129-2/Upstream/24843; hsa-let-7a-2/Downstream/276393;
Nearest TSS
ENST00000527297/Upstream/58737; ENST00000579280/Downstream/17161;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/83595, chr11-CpG: 45/Downstream/116915
Upstream sequence
GATATTTTCAGTTTTAATTAGTTTGCAAAATAAGCTATACAACATTTTACCACTTTTCCCCAGTTGCTTCACATCAGCAGAATCCAGAAAAATATTTAGA
Downstream sequence
CCAAGAAACACTTTGTGGCTTTTATAAGCTCTCAGTTAGCTCCTGTGTTAGCTCTATTAGTTCTGCCTTAAAGAAAATCAAGTTCAAATTCTGCTTAAgg
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate