Basic Information
VIS ID
TVIS44007587
Fusion event
HTLV-1-PCDH9 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
q21.32
Reference genome
GRCh37/hg19
Start
67001800/66427668 (Hg38)
End
67001800/66427668 (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/209344; hsa-mir-1267/Downstream/11270344;
Nearest TSS
ENST00000623511/Upstream/121359; ENST00000611609/Downstream/397501;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/2583122, chr13-CpG: 92/Downstream/802708
Nearest cancer related gene
PCDH9(TSG, No orient, 0)
Upstream sequence
CAACTGCCCCATTTCTATTTGAATTGCATCCTCACAGAATGGCTTCCTTTCTTCAGTACAGATTTTCAGAACAGAAAATATAAAACTTTTAGCCTCTTCC
Downstream sequence
CACCTTTTTTTTCTCAAGTGAGGCTCATCAATAATTGAAAGTAGGCTAAAGTATTCTTGCGAAGAATGCTCAAGTATTGCATCAATTTGAGTTTTGGTGT
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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