Basic Information
VIS ID
TVIS44013243
Fusion event
HTLV-1-PRKCE 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
chr2
Cytoband
p21
Reference genome
GRCh37/hg19
Start
46297432/46070293 (Hg38)
End
46297432/46070293 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
PRKCE
miRNAs that regulate target gene
hsa-mir-205-5p ; hsa-mir-1-3p ; hsa-mir-31-5p ; hsa-mir-96-5p ; hsa-mir-21-5p ; hsa-mir-342-3p ; hsa-mir-107 ; hsa-mir-146a-5p
Nearest miRNA
hsa-mir-1301/Upstream/10598807; hsa-mir-10b/Downstream/1307382;
Nearest TSS
ENST00000437798/Upstream/69391; ENST00000480633/Downstream/3144;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/417747, chr2-CpG: 289/Downstream/226357
Nearest cancer related gene
PRKCE(OG, No orient, 0)
Upstream sequence
CTGTTGTGTTCCTTCACGAGGTAGCAGAGACTTTGTGTTCTAGAGACTTGAGACCACCTCTATAAATATAACCAGAGCACAGGCTTCCTGTGTGGACCCT
Downstream sequence
CAATACACATTTTTGAATGTTAGCCTCAAGCACCTTCATTTTTGATGTATAAAAAAATGGCATTTTATggctgggcgcggtggcgcatgcctgtaatccc
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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