Basic Information
VIS ID
TVIS44033162
Fusion event
HTLV-1-PCDH9 integration
Validated
No
Detection method
HTS
Data source
Curated
Sample type
Nontumor
Disease
Not given
Quality evaluation
Normal
Reported year
2019
PubMed ID
30307560
Virus Sequence
Virus name
HTLV-1
Subtype
HTLV-1c
Reference genome
KF242506
Host Sequence
Chromosome
chr13
Cytoband
q21.32
Reference genome
NCBI36/hg18
Start
66176474/66704341 (Hg38)
End
66176474/66704341 (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/486017; hsa-mir-1267/Downstream/10993671;
Nearest TSS
ENST00000623511/Upstream/398032; ENST00000611609/Downstream/120828;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/2859795, chr13-CpG: 92/Downstream/526035
Nearest cancer related gene
PCDH9(TSG, No orient, 0)
Upstream sequence
GAAGTAAACTCATAATACATTTAAAAATTATAGCTTCAATTTTGTAACATGCTTTCACTTCAGTTAAAGCAGAAACTGATGTGATATATGTGACAGACAG
Downstream sequence
TTTAGTTGCCTGAGGCTAAGCTGACATGAGCCACAAGACTAGACATTTCTTAGGGCTGTTTTCTTTCTGTAACATTTTTGCCTTACATAGACAATTCATG
Reference
Turpin, J., et al. Impact of Hepatitis B Virus Coinfection on Human T-Lymphotropic Virus Type 1 Clonality in an Indigenous Population of Central Australia. J Infect Dis ,2019,219(4): 562-567.
Curate