Basic Information
VIS ID
TVIS44005602
Fusion event
HTLV-1-PTPRD 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
chr9
Cytoband
p24.1
Reference genome
GRCh37/hg19
Start
8956434/8956434 (Hg38)
End
8956434/8956434 (Hg38)
Orient
-
Location type
Intronic
Target gene
PTPRD
miRNAs that regulate target gene
hsa-mir-429 ; hsa-mir-200a-3p ; hsa-mir-200c-3p ; hsa-mir-141-3p ; hsa-mir-1-3p ; hsa-mir-200b-3p ; hsa-mir-190a-3p ; hsa-mir-5011-5p ; hsa-mir-374b-3p ; hsa-mir-3924 ; hsa-mir-340-5p ; hsa-mir-4524b-5p ; hsa-mir-4791 ; hsa-mir-4524a-5p ; hsa-mir-3201 ; hsa-mir-891b ; hsa-mir-1246 ; hsa-mir-8076 ; hsa-mir-3163 ; hsa-mir-646 ; hsa-mir-5583-3p ; hsa-mir-503-5p ; hsa-mir-424-5p ; hsa-mir-15a-5p ; hsa-mir-497-5p ; hsa-mir-6838-5p ; hsa-mir-15b-5p ; hsa-mir-16-5p ; hsa-mir-195-5p ; hsa-mir-135a-5p
Nearest miRNA
hsa-mir-101-2/Upstream/2948530; hsa-let-7a-1/Downstream/9616872;
Nearest TSS
ENST00000422679/Upstream/20355; ENST00000449531/Downstream/842989;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/97726, chr9-CpG: 76/Downstream/1656201
Nearest cancer related gene
PTPRD(TSG, No orient, 0)
Upstream sequence
TCCACTTTGGACTAATACTTAACATTATTCATGTTTAATACACCTGATGACTATAATTTTACATTGTCTTTTTTCCTGTAAACAAATGAAGACATAATCT
Downstream sequence
AtttttctttttctttctttctttctttttttTGTTTTAACAAAGAAGAAGCAAATGAACAATCCTTTGAGTGAGAAAATGTTCTGTAAGTTTAGAATAC
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.
Curate