Basic Information
VIS ID
TVIS44011261
Fusion event
HTLV-1-NEK4 integration
Validated
No
Detection method
HTS
Data source
download(RID)
Sample type
Nontumor
Disease
Adult T-cell leukemia (ATL)
Quality evaluation
Normal
Reported year
2014
PubMed ID
24735963
Virus Sequence
Virus name
HTLV-1
Reference genome
Not given
Host Sequence
Chromosome
chr3
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
52745083/52711067 (Hg38)
End
52745083/52711067 (Hg38)
Orient
-
Location type
UTR3
Target gene
NEK4
miRNAs that regulate target gene
hsa-mir-197-3p ; hsa-mir-3942-3p ; hsa-mir-383-3p ; hsa-mir-4257 ; hsa-mir-6847-5p ; hsa-mir-2909 ; hsa-mir-548s ; hsa-mir-3162-5p ; hsa-mir-3926 ; hsa-mir-4738-3p ; hsa-mir-3190-5p ; hsa-mir-7162-3p ; hsa-mir-544b ; hsa-mir-6849-3p ; hsa-mir-4692 ; hsa-mir-4514 ; hsa-mir-4433a-3p ; hsa-mir-4459 ; hsa-mir-4768-3p ; hsa-mir-1288-5p ; hsa-mir-6765-3p ; hsa-mir-3622b-3p ; hsa-mir-3622a-3p ; hsa-mir-4756-5p ; hsa-mir-4739 ; hsa-mir-1321 ; hsa-mir-6760-5p ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-3714
Nearest miRNA
hsa-let-7g/Upstream/416759; hsa-mir-12124/Downstream/135396;
Nearest TSS
ENST00000440867/Upstream/4924; ENST00000480409/Downstream/35047;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/4657, chr3-CpG: 61/Downstream/59476
Upstream sequence
AGTACATGAAGACAAACTTCAGGAGACAAACATTAAATATATCCAAAAACTAAATGGACCTGGACTTTGCTTACAAATTGCTTAAATGGAAATGAAATTT
Downstream sequence
GTGTTTAAGAAATGTTTTCACTGATGGAAAAATAAATCTAACAAAACCATTATGTAAAAACATACTGATTTACAAAGCCAATGTGTCTCAGTTTTAATTT
Reference
Cook, L. B., et al. The role of HTLV-1 clonality, proviral structure, and genomic integration site in adult T-cell leukemia/lymphoma. Blood,2014, 123(25): 3925-3931.
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