Basic Information
VIS ID
TVIS44021153
Fusion event
HTLV-1-SCN4A 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
q23.3
Reference genome
GRCh37/hg19
Start
62034115/63956755 (Hg38)
End
62034115/63956755 (Hg38)
Orient
-
Location type
Intronic
Target gene
SCN4A
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-4789-5p ; hsa-mir-3941 ; hsa-mir-1284 ; hsa-mir-362-3p ; hsa-mir-329-3p
Nearest miRNA
hsa-mir-10226/Upstream/1012443; hsa-mir-1250/Downstream/544019;
Nearest TSS
ENST00000595228/Upstream/7051; ENST00000583891/Downstream/4938;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/14796, chr17-CpG: 58/Downstream/41537
Upstream sequence
ctttgcagtgacctcatgaactccctgttgtttttcttctatgtgagggttagagaacccagcttgactagagagcagcagttagctcaaggtcacacag
Downstream sequence
atgatggcaaaggagctgggactggaatgtgggtctgtctgactcattatcatgttgctttactcaAAACACTAGGTTCCAAcagcgctactcatagcat
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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