Basic Information
VIS ID
TVIS44023984
Fusion event
HTLV-1-LINGO3 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
chr19
Cytoband
p13.3
Reference genome
GRCh37/hg19
Start
2305667/2305668 (Hg38)
End
2305667/2305668 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA19B
Target gene
LINGO3
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-7111-5p ; hsa-mir-6870-5p ; hsa-mir-5698 ; hsa-mir-4723-5p ; hsa-mir-6825-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p
Nearest miRNA
hsa-mir-1227/Upstream/54950; hsa-let-7e/Downstream/129246;
Nearest TSS
ENST00000633603/Upstream/13644; ENST00000586111/Downstream/18864;
Nearest CpG islands
None/Target, chr19-CpG: 112/Upstream/2668, chr19-CpG: 85/Downstream/1899
Upstream sequence
GTTACCTCAAACACATCCCCCTCCAGTCCCCGCCCAGGGCAAGGGATGCTGACATCTCCCTTGGGAAAGGCCCTCCTAGAGGCCGGCCAAACCCAGAGGG
Downstream sequence
GGCAGGAGTGAGAAGTGTGGTAGCGGTCCCCTCTGTTTCCAGGCCCACAGTGACCTCCATCTCCCTCCCTCTGCCCCCCACCACAACCAGGGCGGTGGGA
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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