Basic Information
VIS ID
TVIS30003147
Fusion event
HIV-PPP4R3B 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
chr2
Cytoband
p16.1
Reference genome
GRCh37/hg19
Start
55834265/55607129 (Hg38)
End
55834265/55607129 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
PPP4R3B
miRNAs that regulate target gene
hsa-mir-106b-5p ; hsa-mir-31-5p ; hsa-mir-16-5p
Nearest miRNA
hsa-mir-1301/Upstream/1757924; hsa-mir-10b/Downstream/375838;
Nearest TSS
ENST00000437798/Upstream/33411; ENST00000608113/Downstream/9488;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/87266, chr2-CpG: 79/Downstream/10002
Upstream sequence
ttttgtttgagttaggatagtttaagttacaaaatatttgcagttatctccacatataggctacaataattcacaaAAGTTGGGTATGAGACTATAGAAA
Downstream sequence
TAAAAAAACAGTTtctcatactacactatcacaacacaaatcactgctgtcaccttcatcaccaagaagtgtgaggatttctccccaccaataatcaatc
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate