Basic Information
VIS ID
TVIS30013655
Fusion event
HIV-RIPK2 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
chr8
Cytoband
q21.3
Reference genome
GRCh37/hg19
Start
90779769/89767541 (Hg38)
End
90779769/89767541 (Hg38)
Orient
+
Location type
Intronic
Target gene
RIPK2
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-98-5p ; hsa-mir-34a-5p
Nearest miRNA
hsa-mir-12123/Upstream/9526068; hsa-mir-10400/Downstream/1437944;
Nearest TSS
ENST00000518652/Upstream/9724; ENST00000518673/Downstream/12547;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/9312, chr8-CpG: 137/Downstream/134428
Upstream sequence
AAAATTTTTATTGAAGACACTCCTCTCCTTAGAATAAAGTGGTAGGGGAAAGGAGAGAGAAGCAAGCTGCTGCCTCAGTATTGCTAAGAAAAAAAGAGAC
Downstream sequence
TAATCTATTCCATCAATTATAGAACCATCAAGTAGAAATACCTTaatggtcaactagttctctgatacttcactgcaacaatccctgtctcccaaagcag
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate