Basic Information
VIS ID
TVIS30010958
Fusion event
HIV-ATG5 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
chr6
Cytoband
q21
Reference genome
GRCh37/hg19
Start
106701050/106253175 (Hg38)
End
106701050/106253175 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA6F
Target gene
ATG5
miRNAs that regulate target gene
hsa-mir-181a-5p ; hsa-mir-30d-5p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-9-5p ; hsa-mir-299-5p ; hsa-mir-224-3p ; hsa-mir-34a-5p ; hsa-mir-30e-5p
Nearest miRNA
hsa-mir-10398/Upstream/7128479; hsa-mir-1202/Downstream/530950;
Nearest TSS
ENST00000381078/Upstream/50746; ENST00000487681/Downstream/26648;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/166665, chr6-CpG: 56/Downstream/72137
Upstream sequence
AGACCCATATGAATTAATTTCTTCATACGTAATATGTTAAACATCTCTGTAAGACAAAACAGGAGAAAAATAAAAATGAACAAGTAGTAATTACTGGTAG
Downstream sequence
GCTGCCAAAAGCAGGTTTTCAGTAAGTGACCTGTATCTTCAAACTCATCTGCCTTATGAGCCAGGTCAAATTAAGAGAATCAGCCCTTGAAAATTCATCA
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate