Basic Information
VIS ID
TVIS44020735
Fusion event
HTLV-1-PCDH9 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
chr13
Cytoband
q21.32
Reference genome
GRCh37/hg19
Start
67279044/66704912 (Hg38)
End
67279044/66704912 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA13B
Target gene
PCDH9
miRNAs that regulate target gene
hsa-mir-155-5p ; hsa-mir-188-5p ; hsa-mir-127-5p ; hsa-mir-4635 ; hsa-mir-7843-3p ; hsa-mir-4735-3p ; hsa-mir-1264 ; hsa-mir-18b-5p ; hsa-mir-18a-5p ; hsa-mir-570-5p ; hsa-mir-548ba ; hsa-mir-548ai ; hsa-mir-548ag ; hsa-mir-548m
Nearest miRNA
hsa-mir-1297/Upstream/486588; hsa-mir-1267/Downstream/10993100;
Nearest TSS
ENST00000623511/Upstream/398603; ENST00000611609/Downstream/120257;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/2860366, chr13-CpG: 92/Downstream/525464
Nearest cancer related gene
PCDH9(TSG, No orient, 0)
Upstream sequence
ATTTGCTCACTTTTATTCCATTTAGAGTCTTTTAAAATACATTTTTCTTCATTTGGCTAAATAATACATTGGTATTAAAATAGTCATATAACAAAACATA
Downstream sequence
TTTCTAATGCTAAACCCTTTATTATTTTATTGTTTATAGCAATTTGTTTTCATCAATGCTTAAGTATAAAAAAAGTTACATTTGCAAATTTTTATTTTTT
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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