Basic Information
VIS ID
TVIS30002904
Fusion event
HIV-RELCH 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
q21.33
Reference genome
GRCh37/hg19
Start
59877107/62209874 (Hg38)
End
59877107/62209874 (Hg38)
Orient
+
Location type
Intronic
Target gene
RELCH
miRNAs that regulate target gene
hsa-mir-378a-3p ; hsa-mir-92a-3p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-651-5p ; hsa-mir-655-5p ; hsa-mir-1258 ; hsa-mir-3163 ; hsa-mir-4443 ; hsa-mir-3689d ; hsa-mir-6515-5p ; hsa-mir-6851-5p ; hsa-mir-374a-5p ; hsa-mir-374b-5p ; hsa-mir-203b-3p ; hsa-mir-7158-3p ; hsa-mir-6131 ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-4635 ; hsa-mir-3663-5p ; hsa-mir-6513-3p ; hsa-mir-888-3p ; hsa-mir-606 ; hsa-mir-4696 ; hsa-mir-5700 ; hsa-mir-4282 ; hsa-mir-9-5p ; hsa-mir-4772-3p ; hsa-mir-7113-3p ; hsa-mir-1304-3p ; hsa-mir-6742-3p ; hsa-mir-6791-5p ; hsa-mir-4292 ; hsa-mir-4308 ; hsa-mir-6777-3p ; hsa-mir-6890-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p
Nearest miRNA
hsa-mir-1-2/Upstream/3758716; hsa-mir-5011/Downstream/4871710;
Nearest TSS
ENST00000575820/Upstream/22583; ENST00000590713/Downstream/10986;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/21855, chr18-CpG: 131/Downstream/114962
Upstream sequence
atcatctttaatttctttggacaatgttttgtagtttttactgtatacattttgcatgtttttgttaaatgtattcttaaaatttttttgatgtgtttgg
Downstream sequence
aaatgaaacttgtctttgttttaattttggattgtcattgctaatgtataaaaatccaactgatttttgtgcattggtcccatgttctgcaactttgaaa
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate