Basic Information
VIS ID
TVIS44023838
Fusion event
HTLV-1-SMYD4 integration
Validated
No
Detection method
HTS
Data source
download(RID)
Sample type
Nontumor
Disease
HTLV-1 associated myelopathy/tropical spastic paraparesis (HAM/TSP)
Quality evaluation
Normal
Reported year
2017
PubMed ID
29186194
Virus Sequence
Virus name
HTLV-1
Reference genome
Not given
Host Sequence
Chromosome
chr17
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
1716751/1813457 (Hg38)
End
1716751/1813457 (Hg38)
Orient
+
Location type
Intronic
Target gene
SMYD4
miRNAs that regulate target gene
hsa-mir-744-5p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-4284 ; hsa-mir-4634 ; hsa-mir-2276-3p ; hsa-mir-1236-3p ; hsa-mir-4638-5p ; hsa-mir-1307-3p ; hsa-mir-1304-3p ; hsa-mir-6741-3p ; hsa-mir-6890-3p ; hsa-mir-6796-3p ; hsa-mir-122-5p ; hsa-mir-143-5p ; hsa-mir-199a-3p ; hsa-mir-199b-3p ; hsa-mir-215-3p ; hsa-mir-24-3p ; hsa-mir-3129-5p ; hsa-mir-3135b ; hsa-mir-3652 ; hsa-mir-3664-5p ; hsa-mir-4430 ; hsa-mir-4714-5p ; hsa-mir-500b-3p ; hsa-mir-504-3p ; hsa-mir-514a-5p ; hsa-mir-550b-3p ; hsa-mir-6773-3p ; hsa-mir-6879-3p ; hsa-mir-8057
Nearest miRNA
hsa-mir-22/Upstream/99470; hsa-mir-10226/Downstream/236451;
Nearest TSS
ENST00000595228/Upstream/12652; ENST00000571725/Downstream/16002;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/59074, chr17-CpG: 75/Downstream/16134
Nearest cancer related gene
SMYD4(TSG, No orient, 0)
Upstream sequence
tcataaagtaaatgtagtaaaacgttaacacttgcgaaatttggaagaattcaccaattctttgtacttttttttttggagacagagtctcactttgttg
Downstream sequence
cccaggctgtagtgcagcactggcacgatctcggctcactgcaacctccgcctcctgggtgcaagtgattcttgtgcctcagcctcaggagtagctagga
Reference
Furuta, R., et al.Human T-cell leukemia virus type 1 infects multiple lineage hematopoietic cells in vivo. PLoS Pathog,2017,13(11): e1006722.
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