Basic Information
VIS ID
TVIS44016378
Fusion event
HTLV-1-CDC42SE2 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
chr5
Cytoband
q31.1
Reference genome
GRCh37/hg19
Start
130673171/131337478 (Hg38)
End
130673171/131337478 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5C
Target gene
CDC42SE2
miRNAs that regulate target gene
hsa-mir-421 ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-103a-3p ; hsa-mir-107 ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-497-5p ; hsa-mir-545-3p ; hsa-mir-4524a-5p ; hsa-mir-4641 ; hsa-mir-4690-3p ; hsa-mir-4524b-5p ; hsa-mir-5685 ; hsa-mir-6838-5p ; hsa-mir-5680 ; hsa-mir-885-3p ; hsa-mir-203a-3p ; hsa-mir-646 ; hsa-mir-503-5p
Nearest miRNA
hsa-mir-10397/Upstream/1940331; hsa-mir-103a-1/Downstream/880371;
Nearest TSS
ENST00000502646/Upstream/73378; ENST00000506929/Downstream/48128;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/72765, chr5-CpG: 85/Downstream/297244
Upstream sequence
actggggggtgcctcccagttaggctgctcgtgggtcagggacctacttgaggaggcagtctgcccgttctcagatttgaagctgcatgctgggaaaacc
Downstream sequence
actactctcttcaaagctgtcagacagagacatttaagtctgcagaggttattgctgtcttttgtttgtctgtgccctgcccccagaggtggagtctaca
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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