Basic Information
VIS ID
TVIS44010947
Fusion event
HTLV-1-PCDH17 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
chr13
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
58278416/57704282 (Hg38)
End
58278416/57704282 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA13B ; FRA13C
Target gene
PCDH17
miRNAs that regulate target gene
hsa-mir-6830-3p ; hsa-mir-6875-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6873-3p ; hsa-mir-6817-3p ; hsa-mir-7110-3p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-4279 ; hsa-mir-942-5p ; hsa-mir-6870-3p ; hsa-mir-660-3p ; hsa-mir-5193 ; hsa-mir-6891-3p ; hsa-mir-6072 ; hsa-mir-4793-5p ; hsa-mir-5196-3p ; hsa-mir-570-5p ; hsa-mir-548ba ; hsa-mir-548ai ; hsa-mir-548ag ; hsa-mir-548m ; hsa-mir-3140-3p ; hsa-mir-452-3p ; hsa-mir-6854-5p
Nearest miRNA
hsa-mir-1297/Upstream/2529734; hsa-mir-1267/Downstream/3495516;
Nearest TSS
ENST00000623511/Upstream/69269; ENST00000615202/Downstream/461545;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/69486, chr13-CpG: 52/Downstream/2459244
Nearest cancer related gene
PCDH17(TSG, No orient, 0)
Upstream sequence
TGTACCTGTCAGTGTGCCATTTTGTTTTGACATCAAAGTGAAATGGTTTAAATGATTTCTCTCTTCTTTGTAGCCATTGTCAAGGATAATGATGATTACA
Downstream sequence
TGGCTTATTATGTCTTCATGACTTTTTGGTAGGCATTACAGATCACAAAATCTGCTTTCTAAAACAGTCTAGTAGGCAGCAGAAATTTTGTAGAAAAGCA
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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