Basic Information
VIS ID
TVIS30000388
Fusion event
HIV-CASK 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
chrX
Cytoband
p11.4
Reference genome
GRCh37/hg19
Start
41599663/41740410 (Hg38)
End
41599663/41740410 (Hg38)
Orient
-
Location type
Intronic
Target gene
CASK
miRNAs that regulate target gene
hsa-mir-16-5p ; hsa-mir-203a-3p ; hsa-mir-6838-5p ; hsa-mir-497-5p ; hsa-mir-424-5p ; hsa-mir-195-5p ; hsa-mir-15b-5p ; hsa-mir-15a-5p ; hsa-mir-3908 ; hsa-mir-4724-5p ; hsa-mir-4519 ; hsa-mir-4274 ; hsa-mir-4524b-5p ; hsa-mir-4524a-5p ; hsa-mir-646 ; hsa-mir-503-5p
Nearest miRNA
hsa-mir-1587/Upstream/1902797; hsa-let-7f-2/Downstream/4005747;
Nearest TSS
ENST00000429181/Upstream/12277; ENST00000411879/Downstream/5183;
Nearest CpG islands
None/Target, chrX-CpG: 62/Upstream/265537, chrX-CpG: 143/Downstream/182443
Upstream sequence
TTCTTTTCTCATTTTTTCCCTTTTCCTTCCCAACCAGCATGACAGAAATGCAATAGACTTAACACTGTTCACTGTATAATATTTATAGAATTTTGTTTTG
Downstream sequence
TTTCCAGATCTTATATTTCTGATACAAGTGACCTTGAACATGTGTATGTGACTCAGGACTAAAAAAAAAAAAAAAATCCCTATCCTGGCTTTACAATTAA
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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