Basic Information
VIS ID
TVIS44020859
Fusion event
HTLV-1-FRMD6 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
chr14
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
52108330/51641612 (Hg38)
End
52108330/51641612 (Hg38)
Orient
+
Location type
Intronic
Target gene
FRMD6
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-101-3p ; hsa-mir-5197-3p ; hsa-mir-17-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-642a-5p ; hsa-mir-3124-3p ; hsa-mir-130b-5p ; hsa-mir-6769b-3p ; hsa-mir-4723-3p ; hsa-mir-3183 ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-3123 ; hsa-mir-141-5p
Nearest miRNA
hsa-mir-208a/Upstream/1341666; hsa-mir-1185-1/Downstream/2306815;
Nearest TSS
ENST00000550708/Upstream/3665; ENST00000554778/Downstream/10132;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/400831, chr14-CpG: 154/Downstream/9645
Upstream sequence
GAACGTCTTGGGGCTGTGGGAAGATCCAAATAAAGTTAGGGGAACGGTGGAGGCAGAAACTGAGTCCAAATATCTCACTCTTTAGGTCCCAAAGACATGA
Downstream sequence
TCCTTCACCTCCAGCAACTTTTCAATAGACACTTGGCAGGCTCAGCCAGCATCCCCCAGATACTAACTGCCCTGACTCACAGGGCACCTCAATGTTCCAG
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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