Basic Information
VIS ID
TVIS44013837
Fusion event
HTLV-1-TRPM6 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
chr9
Cytoband
q21.13
Reference genome
GRCh37/hg19
Start
77455107/74840191 (Hg38)
End
77455107/74840191 (Hg38)
Orient
+
Location type
Exonic
Target gene
TRPM6
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-410-3p ; hsa-mir-3163 ; hsa-mir-1277-5p ; hsa-mir-6074 ; hsa-mir-548c-3p ; hsa-mir-4668-5p ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-4755-3p ; hsa-mir-5693 ; hsa-mir-4753-5p ; hsa-mir-6768-3p ; hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-5196-5p ; hsa-mir-4747-5p ; hsa-mir-671-5p ; hsa-mir-4786-3p ; hsa-mir-383-3p ; hsa-mir-1247-3p ; hsa-mir-1827 ; hsa-mir-1910-3p ; hsa-mir-2467-3p ; hsa-mir-3612 ; hsa-mir-377-5p ; hsa-mir-3940-3p ; hsa-mir-4257 ; hsa-mir-455-3p ; hsa-mir-6086 ; hsa-mir-6499-3p ; hsa-mir-650 ; hsa-mir-6511a-5p ; hsa-mir-6516-5p
Nearest miRNA
hsa-mir-101-2/Upstream/4030107; hsa-let-7a-1/Downstream/9129557;
Nearest TSS
ENST00000422679/Upstream/6134; ENST00000455609/Downstream/47156;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/341180, chr9-CpG: 48/Downstream/46986
Upstream sequence
AAAATCTCTTTAAATTTAGAGGGCATAGTAAAGTTCTGGATGCCCCCATGGACTGAGATCACAAGCTTGGGCAGTTCCATTTTCCACTCTTTCAACATTA
Downstream sequence
AATGTAACAGATGATCCAGTTTTGTATCATAAGAAGTTCTAATATACTGCAAGAAAAGCACATGTAGGTGAACAGAACATTGTAAAAAAGTTATGCCAGG
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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