Basic Information
VIS ID
TVIS44022867
Fusion event
HTLV-1-CSMD1 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
chr8
Cytoband
p23.2
Reference genome
GRCh37/hg19
Start
4108482/4250960 (Hg38)
End
4108482/4250960 (Hg38)
Orient
+
Location type
Intronic
Target gene
CSMD1
miRNAs that regulate target gene
hsa-mir-297 ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-4789-5p ; hsa-mir-567 ; hsa-mir-5011-5p ; hsa-mir-4704-5p ; hsa-mir-5583-3p ; hsa-mir-4517 ; hsa-mir-1277-5p ; hsa-mir-338-5p ; hsa-let-7c-3p ; hsa-mir-10b-5p
Nearest miRNA
hsa-mir-3674/Upstream/2174320; hsa-mir-10400/Downstream/2371164;
Nearest TSS
ENST00000518652/Upstream/218860; ENST00000522905/Downstream/743741;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/1228534, chr8-CpG: 256/Downstream/740486
Nearest cancer related gene
CSMD1(TSG, No orient, 0)
Upstream sequence
ACAGGGTATTCCTACTACCCTGATGAAAAGAGCACCTCTTAAACAATAAGGTCTTAGTCACGGCTGAGCTCTTTTCTTCAGATGACACGTTTCCCTGAAT
Downstream sequence
GTTACTAGGTGAATTGATTAGACACTGATATTTCCTAAATCACAGTTAATGACAAGCATATTTTTAGATACTGGACACAAATTCAAGCCAGTAATCTGCA
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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