Basic Information
VIS ID
TVIS44019693
Fusion event
HTLV-1-LEMD2 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
chr6
Cytoband
p21.31
Reference genome
GRCh37/hg19
Start
33741815/33774038 (Hg38)
End
33741815/33774038 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA6H
Target gene
LEMD2
miRNAs that regulate target gene
hsa-mir-23a-3p ; hsa-mir-6738-3p ; hsa-mir-544a ; hsa-mir-629-3p ; hsa-mir-5001-3p ; hsa-mir-4727-5p ; hsa-mir-6867-3p ; hsa-mir-4713-5p ; hsa-mir-433-3p ; hsa-mir-7154-5p ; hsa-mir-570-3p ; hsa-mir-6817-5p ; hsa-mir-4769-3p ; hsa-mir-5088-3p ; hsa-mir-8060 ; hsa-mir-21-3p ; hsa-mir-3591-3p ; hsa-mir-4258 ; hsa-mir-7108-3p
Nearest miRNA
hsa-mir-1236/Upstream/75804; hsa-mir-10398/Downstream/125097;
Nearest TSS
ENST00000381078/Upstream/27133; ENST00000526556/Downstream/3106;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/2079, chr6-CpG: 127/Downstream/14248
Upstream sequence
AGCATGGGCGTCTGGGGTTCACATGGCTCTGACCCTGAGGGCCGGCTACCTGAGTGGCAGCAGCTCTGGGTATCTATGCTAATGCACGAAGGCTTGGGTG
Downstream sequence
GTAGCTCCGGCTGCAGGCAAGCTGCAGTGCCGTCTCATGCTCTTATTTAAGCAAATATGTGTGTGGAATATCATTTAAGCCCAAGGCATAATGGCTACCC
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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