Basic Information
VIS ID
TVIS30000721
Fusion event
HIV-RNF38 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
2016
PubMed ID
26912621
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr9
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
36364904/36364907 (Hg38)
End
36364904/36364907 (Hg38)
Orient
+
Location type
Intronic
Target gene
RNF38
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-218-5p ; hsa-mir-7-5p ; hsa-mir-26b-5p ; hsa-mir-1250-3p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-3613-3p ; hsa-mir-1205 ; hsa-mir-3180-5p ; hsa-mir-142-3p ; hsa-mir-653-5p ; hsa-mir-6077 ; hsa-mir-5585-3p ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-873-5p ; hsa-mir-1827 ; hsa-mir-3166 ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-509-5p ; hsa-mir-509-3-5p ; hsa-mir-4704-5p ; hsa-mir-4418 ; hsa-mir-409-3p ; hsa-mir-6885-3p ; hsa-mir-4477b ; hsa-mir-1178-3p ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-7158-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-488-5p ; hsa-mir-6816-3p ; hsa-mir-8080 ; hsa-mir-4668-3p ; hsa-mir-130a-5p ; hsa-mir-23b-3p ; hsa-mir-23c ; hsa-mir-23a-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p
Nearest miRNA
hsa-mir-101-2/Upstream/631912; hsa-let-7a-1/Downstream/458632;
Nearest TSS
ENST00000422679/Upstream/87851; ENST00000489766/Downstream/35309;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/106018, chr9-CpG: 126/Downstream/35347
Upstream sequence
gtctagtgtacagtctgcgaatctgcagttctaacaaatatctaggtgatgctgctgctgctCAGCTGATTCAGCTAATACTCTTGAGAAATAATTGGTC
Downstream sequence
TAGACCTTAAGACCAGGGTGTCAgtgggccaattatttcttaaagagctagaaagtgaatgttttaggtttgtgggccatggtctctgcacaaagtaacc
Reference
Sunshine, S., et al. HIV Integration Site Analysis of Cellular Models of HIV Latency with a Probe-Enriched Next-Generation Sequencing Assay. J Virol,2016, 90(9): 4511-4519.
Curate