Basic Information
VIS ID
TVIS44005940
Fusion event
HTLV-1-PTPN2 integration
Validated
No
Detection method
HTS
Data source
download(RID)
Sample type
Nontumor
Disease
Adult T-cell leukemia (ATL)
Quality evaluation
Normal
Reported year
2014
PubMed ID
24735963
Virus Sequence
Virus name
HTLV-1
Reference genome
Not given
Host Sequence
Chromosome
chr18
Cytoband
p11.21
Reference genome
GRCh37/hg19
Start
12827420/12827421 (Hg38)
End
12827420/12827421 (Hg38)
Orient
+
Location type
Intronic
Target gene
PTPN2
miRNAs that regulate target gene
hsa-mir-210-3p ; hsa-mir-524-5p ; hsa-mir-520d-5p ; hsa-mir-1264 ; hsa-mir-1202 ; hsa-mir-122-5p ; hsa-mir-1267 ; hsa-mir-129-5p ; hsa-mir-143-5p ; hsa-mir-3135b ; hsa-mir-3194-3p ; hsa-mir-3652 ; hsa-mir-3672 ; hsa-mir-367-5p ; hsa-mir-3972 ; hsa-mir-431-5p ; hsa-mir-4423-5p ; hsa-mir-4430 ; hsa-mir-4755-3p ; hsa-mir-5006-5p ; hsa-mir-504-3p ; hsa-mir-5691 ; hsa-mir-5698 ; hsa-mir-6501-5p ; hsa-mir-6805-3p ; hsa-mir-6864-3p ; hsa-mir-744-3p ; hsa-mir-8055
Nearest miRNA
hsa-mir-3976/Upstream/1172480; hsa-mir-1-2/Downstream/632526;
Nearest TSS
ENST00000575820/Upstream/8421; ENST00000592170/Downstream/9403;
Nearest CpG islands
None/Target, chr18-CpG: 67/Upstream/49307, chr18-CpG: 128/Downstream/55865
Nearest cancer related gene
PTPN2(TSG, No orient, 0)
Upstream sequence
gacagagcgagactccgtctcaaaaaaaaaaaaaaaTAATAATAATAATAATGCCTTAAGAGGAAAATAAATAAttttttttttttttaagagacagtgt
Downstream sequence
cttgctctgtagtagcccaggctggagtgcactggggtgaacttggctcacttcagcctcaatcttctgggctcaagcaatcccccaaccccagctggga
Reference
Cook, L. B., et al. The role of HTLV-1 clonality, proviral structure, and genomic integration site in adult T-cell leukemia/lymphoma. Blood,2014, 123(25): 3925-3931.
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