Basic Information
VIS ID
TVIS30002265
Fusion event
HIV-ATG2B 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
chr14
Cytoband
q32.2
Reference genome
GRCh37/hg19
Start
96812272/96345935 (Hg38)
End
96812272/96345935 (Hg38)
Orient
+
Location type
Intronic
Target gene
ATG2B
miRNAs that regulate target gene
hsa-mir-130a-3p ; hsa-mir-421 ; hsa-mir-30d-5p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-3692-3p ; hsa-mir-7159-5p ; hsa-mir-505-3p ; hsa-mir-4709-5p ; hsa-mir-4272 ; hsa-mir-154-5p ; hsa-mir-10a-3p ; hsa-mir-19b-3p ; hsa-mir-19a-3p ; hsa-mir-181d-5p ; hsa-mir-181b-5p ; hsa-mir-181c-5p ; hsa-mir-181a-5p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-17-5p ; hsa-mir-20b-5p ; hsa-mir-1303
Nearest miRNA
hsa-mir-1260a/Upstream/1207949; hsa-mir-1185-1/Downstream/3763484;
Nearest TSS
ENST00000550708/Upstream/21757; ENST00000555088/Downstream/17517;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/305870, chr14-CpG: 101/Downstream/17194
Upstream sequence
aaagtaaataaacaaataagcatggctgtgttccaataaaactttattaacaaaaacagacgacaggaccaatttggcctgcaggttatagtttactaac
Downstream sequence
cctgctgttgaaagtagaaaaaataatagtaaattctgccctcagagaacctactatatagttaaagaaataagataCGATTAGTAGACAACTATTGAAT
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
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