Basic Information
VIS ID
TVIS44023402
Fusion event
HTLV-1-SCN8A 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
chr12
Cytoband
q13.13
Reference genome
GRCh37/hg19
Start
52186894/51793110 (Hg38)
End
52186894/51793110 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
SCN8A
miRNAs that regulate target gene
hsa-mir-377-3p ; hsa-mir-8064 ; hsa-mir-6837-3p ; hsa-mir-6754-3p ; hsa-mir-412-3p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-4262 ; hsa-mir-181d-5p ; hsa-mir-181c-5p ; hsa-mir-181b-5p ; hsa-mir-181a-5p
Nearest miRNA
hsa-mir-1244-3/Upstream/1558898; hsa-let-7i/Downstream/1105779;
Nearest TSS
ENST00000382841/Upstream/6345; ENST00000562343/Downstream/17490;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/71215, chr12-CpG: 86/Downstream/20940
Upstream sequence
agtgctgggattacaggcgtgagccaccgcacctggccatgatccatttgttttaaatcattacacttgctattatatgaggactgcattggatgagggc
Downstream sequence
aagagaagaagtgggagaccagttaagtggccatacaagtccagatgagagatgatggtggctcaggttagcatagagccaataaaaatggaatgaagtg
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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