Basic Information
VIS ID
TVIS44017069
Fusion event
HTLV-1-LINGO2 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
chr9
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
28856277/28856279 (Hg38)
End
28856277/28856279 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA9C
Target gene
LINGO2
miRNAs that regulate target gene
hsa-mir-587 ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-2115-5p ; hsa-mir-1976 ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-660-3p ; hsa-mir-5193
Nearest miRNA
hsa-mir-101-2/Upstream/7344094; hsa-let-7a-1/Downstream/7347;
Nearest TSS
ENST00000422679/Upstream/185993; ENST00000541043/Downstream/1718733;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/1282290, chr9-CpG: 74/Downstream/355894
Upstream sequence
TTTGTTGTAATTATAAAAGGTTTCATTTCCACAGAGATTTTGTGCTTTGCTTCCACTCTAATATTCTCTTGTTCCTGATCTTCTTTTCATaatacgtatc
Downstream sequence
gagcatcctcttcataacaggaactatatttcatgctgacaataaaaagtgatataacaaaataatgattccctctctcatgaagcttacagtgtagcag
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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