Basic Information
VIS ID
TVIS30012422
Fusion event
HIV-RNF213 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
q25.3
Reference genome
GRCh37/hg19
Start
78281692/80307892 (Hg38)
End
78281692/80307892 (Hg38)
Orient
+
Location type
Intronic
Target gene
RNF213
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-335-5p ; hsa-mir-423-3p ; hsa-mir-99b-5p ; hsa-mir-10a-5p ; hsa-mir-101-3p ; hsa-mir-6848-3p ; hsa-mir-6843-3p ; hsa-mir-4452 ; hsa-mir-183-3p ; hsa-mir-4635 ; hsa-mir-1303 ; hsa-mir-127-5p ; hsa-mir-6806-3p ; hsa-mir-3928-5p ; hsa-mir-4738-3p ; hsa-mir-4496 ; hsa-mir-6856-5p ; hsa-mir-6758-5p ; hsa-mir-582-5p ; hsa-mir-216b-3p ; hsa-mir-603 ; hsa-mir-8485
Nearest miRNA
hsa-mir-10226/Upstream/209015; hsa-mir-1250/Downstream/111526;
Nearest TSS
ENST00000595228/Upstream/12163; ENST00000571908/Downstream/26474;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/46408, chr17-CpG: 38/Downstream/39769
Upstream sequence
gcctgtctgggcctcccaaagtgctgggattacaggcgtgagccaccatgcctggccgtctgtttttttTTTTTTTTTTTTTTTAAAGGGAAATAATAGA
Downstream sequence
TATCAGCTGCTAAGATTTGGGTTTATCTCCCCCTGATCTTTTTTCCTATACATTTTTCCCTTACTTGTAAATAGTCATGATACTGCATATGCCTGGTGGG
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate