Basic Information
VIS ID
TVIS44010749
Fusion event
HTLV-1-SNRK 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
p22.1
Reference genome
GRCh37/hg19
Start
43365309/43323817 (Hg38)
End
43365309/43323817 (Hg38)
Orient
+
Location type
Intronic
Target gene
SNRK
miRNAs that regulate target gene
hsa-mir-128-3p ; hsa-mir-21-5p ; hsa-mir-193b-3p ; hsa-mir-192-3p ; hsa-mir-365a-3p ; hsa-mir-365b-3p ; hsa-mir-938 ; hsa-mir-3065-5p ; hsa-mir-4772-3p ; hsa-mir-6886-3p ; hsa-mir-942-5p ; hsa-mir-4768-5p ; hsa-mir-6833-3p ; hsa-mir-340-5p ; hsa-mir-4789-5p ; hsa-mir-4789-3p ; hsa-mir-5011-5p ; hsa-mir-137 ; hsa-mir-6873-3p ; hsa-mir-6845-3p ; hsa-mir-1277-5p ; hsa-mir-190a-3p ; hsa-mir-3941 ; hsa-mir-603 ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-944 ; hsa-mir-6809-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-1251-5p ; hsa-mir-517-5p ; hsa-mir-153-5p ; hsa-mir-154-5p ; hsa-mir-4422
Nearest miRNA
hsa-mir-12127/Upstream/4185551; hsa-let-7g/Downstream/790395;
Nearest TSS
ENST00000440867/Upstream/20705; ENST00000484791/Downstream/8349;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/37103, chr3-CpG: 18/Downstream/40110
Upstream sequence
tacacaatggaatactactcagccatgaaaaatggtgacctattgatgtgtacaacaacatgagtgaatctcaatgcattattgagaaaaaccagactgc
Downstream sequence
aaaacagtctgcattattgagaaaaacagagactacgtactctgtgactccatttctaggcaaaacttgcaaggacacacaatagctgtggttgtcaggg
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.
Curate