Basic Information
VIS ID
TVIS30002647
Fusion event
HIV-TVP23B 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
p11.2
Reference genome
GRCh37/hg19
Start
18699659/18796346 (Hg38)
End
18699659/18796346 (Hg38)
Orient
-
Location type
Intronic
Target gene
TVP23B
miRNAs that regulate target gene
hsa-mir-25-3p ; hsa-mir-651-3p ; hsa-mir-875-3p ; hsa-mir-4323 ; hsa-mir-3692-5p ; hsa-mir-3978 ; hsa-mir-5699-5p ; hsa-mir-6793-3p ; hsa-mir-1287-3p ; hsa-mir-1287-5p ; hsa-mir-3135b ; hsa-mir-6769a-3p ; hsa-mir-3943 ; hsa-mir-5582-3p
Nearest miRNA
hsa-mir-1253/Upstream/455460; hsa-mir-10226/Downstream/548160;
Nearest TSS
ENST00000595228/Upstream/540; ENST00000584957/Downstream/13610;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/14650, chr17-CpG: 54/Downstream/61614
Upstream sequence
ataaatagtattttgaggccgtgcgtggtggcttacgcctgtaatcccagcactttgggaggccaaggcgggtgaatcactgaggttgggagttcgagac
Downstream sequence
cagcctgaccaacatggagaaaccccatctctactaaaaatacaaaattagctgggcatgatggcgcatgcctgtaatccctgctacttgggaggctgag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate