Basic Information
VIS ID
TVIS30000249
Fusion event
HIV-SMCHD1 integration
Validated
No
Detection method
NG-SGS
Data source
download(RID)
Sample type
PBMC
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2018
PubMed ID
30024859
Virus Sequence
Virus name
HIV
Reference genome
K03455.1
Host Sequence
Chromosome
chr18
Cytoband
p11.32
Reference genome
GRCh37/hg19
Start
2665058/2665059 (Hg38)
End
2665058/2665059 (Hg38)
Orient
-
Location type
Intronic
Target gene
SMCHD1
miRNAs that regulate target gene
hsa-mir-210-3p ; hsa-mir-132-3p ; hsa-mir-128-3p ; hsa-mir-181a-5p ; hsa-mir-877-5p ; hsa-mir-421 ; hsa-mir-149-5p ; hsa-mir-221-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p ; hsa-mir-100-5p ; hsa-mir-30a-5p ; hsa-mir-18a-5p ; hsa-mir-6768-5p ; hsa-mir-1277-5p ; hsa-mir-4789-5p ; hsa-mir-3941 ; hsa-mir-5011-5p ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-1264 ; hsa-mir-3184-3p ; hsa-mir-510-3p ; hsa-mir-203a-3p ; hsa-mir-190a-3p
Nearest miRNA
hsa-mir-8078/Upstream/2552720; hsa-mir-1-2/Downstream/1220294;
Nearest TSS
ENST00000575820/Upstream/9321; ENST00000581226/Downstream/23582;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/8241, chr18-CpG: 150/Downstream/181508
Nearest cancer related gene
SMCHD1(TSG, No orient, 0)
Upstream sequence
agcaataatggtttttattaATATCATTTTTGAAGATTTGAGTATCACTAGTCTAGATTTTTTAGATGTTTTCAATAAGAATGTTAATCTTTAGACTAGT
Downstream sequence
CCATTACTACCCGAAACAGAAGCCTTTTCTCTTAACTATATATTGCTGTATTGTTTCATTTTAGACAGAGCATGTATGTTTTAATTCTAATGTAAATGAA
Reference
Sharaf, R., et al.HIV-1 proviral landscapes distinguish posttreatment controllers from noncontrollers. J Clin Invest,2018,128(9): 4074-4085.
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