Basic Information
VIS ID
TVIS44021254
Fusion event
HTLV-1-TMEM200C 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
chr18
Cytoband
p11.31
Reference genome
GRCh37/hg19
Start
5896761/5896762 (Hg38)
End
5896761/5896762 (Hg38)
Orient
+
Location type
Intronic
Target gene
TMEM200C
miRNAs that regulate target gene
hsa-mir-3682-3p ; hsa-mir-144-5p ; hsa-mir-4502 ; hsa-mir-6719-3p ; hsa-mir-4526 ; hsa-mir-3660 ; hsa-mir-6730-3p ; hsa-mir-95-5p ; hsa-mir-497-3p ; hsa-mir-4693-5p ; hsa-mir-935 ; hsa-mir-519c-3p ; hsa-mir-519b-3p ; hsa-mir-519a-3p ; hsa-mir-4796-3p ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-106a-5p ; hsa-mir-519d-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p
Nearest miRNA
hsa-mir-3976/Upstream/55929; hsa-mir-1-2/Downstream/477599;
Nearest TSS
ENST00000575820/Upstream/807; ENST00000577704/Downstream/59339;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/512, chr18-CpG: 22/Downstream/387613
Nearby gene
TMEM200C(-4658) ;
Upstream sequence
GGATCCAGATAAATATTTTGGTGGTGGTGGGTGTTATATATTCTGAGTTTTGCTGCTTAGGGGTCCACAAAACCCACACAGGAGGGCTCTGCTGCCCGCA
Downstream sequence
GCTCCTGTTACAAGATTGTTCCCCACATACACAGCATTCACTTGTGCTTAAATCTAGAGCAGACACTTTTCAAAAAGAACAATAAAGACAACCAATTTAC
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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