Basic Information
VIS ID
TVIS30007313
Fusion event
HIV-RNF138 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
chr18
Cytoband
q12.1
Reference genome
GRCh37/hg19
Start
29702905/32122942 (Hg38)
End
29702905/32122942 (Hg38)
Orient
+
Location type
Intronic
Target gene
RNF138
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-421 ; hsa-mir-29a-3p ; hsa-mir-30a-5p ; hsa-mir-29b-3p ; hsa-mir-30c-5p ; hsa-mir-30d-5p ; hsa-mir-147a ; hsa-mir-30b-5p ; hsa-mir-29c-3p ; hsa-mir-30e-5p ; hsa-mir-767-5p ; hsa-mir-3663-3p ; hsa-mir-6818-5p ; hsa-mir-18a-5p ; hsa-mir-18b-5p ; hsa-mir-495-3p ; hsa-mir-633 ; hsa-mir-1252-3p ; hsa-mir-2054 ; hsa-mir-4477b ; hsa-mir-4662a-5p ; hsa-mir-4735-3p ; hsa-mir-5688 ; hsa-mir-7856-5p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-545-3p ; hsa-mir-4422 ; hsa-mir-206 ; hsa-mir-613 ; hsa-mir-3688-3p ; hsa-mir-577 ; hsa-mir-28-3p ; hsa-mir-708-3p ; hsa-mir-513b-3p ; hsa-mir-6777-3p ; hsa-mir-574-5p ; hsa-mir-374c-3p
Nearest miRNA
hsa-mir-1-2/Upstream/1823982; hsa-mir-122/Downstream/3468795;
Nearest TSS
ENST00000575820/Upstream/30240; ENST00000577999/Downstream/583;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/29591, chr18-CpG: 131/Downstream/347210
Upstream sequence
AAATAAATAAAATTGACCACATTGATCAAATTCTGTAGCACACAGGTGACGGTccctgtatggaatacttactcttccctcaggattcctctgatattcc
Downstream sequence
atgtgacacatgactctctggcatatggtaaaagtggagatgttaagttgttctgtatattaaatgttagtgaagcctggtttctttcctttctggaaat
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate