Basic Information
VIS ID
TVIS44017282
Fusion event
HTLV-1-SCN2B 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
chr11
Cytoband
q23.3
Reference genome
GRCh37/hg19
Start
118034037/118163322 (Hg38)
End
118034037/118163322 (Hg38)
Orient
+
Location type
UTR3
Fragile sites / regions
FRA11B
Target gene
SCN2B
miRNAs that regulate target gene
hsa-mir-4746-3p ; hsa-mir-4708-3p ; hsa-mir-6511a-5p ; hsa-mir-3151-5p ; hsa-mir-185-3p ; hsa-mir-4283 ; hsa-mir-4489 ; hsa-mir-4795-5p ; hsa-mir-1296-3p ; hsa-mir-129-5p ; hsa-mir-8055 ; hsa-mir-4309 ; hsa-mir-3198 ; hsa-mir-6873-3p ; hsa-mir-6895-3p ; hsa-mir-4294 ; hsa-mir-1289 ; hsa-mir-8082 ; hsa-mir-4534 ; hsa-mir-1273f ; hsa-mir-4708-5p ; hsa-mir-6088 ; hsa-mir-4770 ; hsa-mir-143-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-6514-5p ; hsa-mir-384 ; hsa-mir-3685 ; hsa-mir-7975 ; hsa-mir-5571-3p ; hsa-mir-5699-3p ; hsa-mir-3124-3p ; hsa-mir-4421 ; hsa-mir-6748-3p ; hsa-mir-4640-3p ; hsa-mir-5585-3p ; hsa-mir-4279 ; hsa-mir-6778-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-150-5p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-186-3p
Nearest miRNA
hsa-mir-10392/Upstream/4713234; hsa-let-7a-2/Downstream/480678;
Nearest TSS
ENST00000527297/Upstream/10434; ENST00000529713/Downstream/13351;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/9843, chr11-CpG: 22/Downstream/196127
Upstream sequence
CCAGCAAGAGGCACAGCAAGAGACACAGGCTGTCCATCTTTAAGACATAAGTAGGAAGGAAGATTTCTTGCTTCATCACCCGTTAACTGCACCAAGCCAT
Downstream sequence
TCCTATGGCCTGGAACTATCCTTTTGGACCTGCCCAGTATTTTCAATTGTCTGTCTGCTTAACCTGACCTTGCAAATATTTACCAGCCCAACCTCCCCAA
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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