Basic Information
VIS ID
TVIS44012050
Fusion event
HTLV-1-PRKCB 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
chr16
Cytoband
p12.2
Reference genome
GRCh37/hg19
Start
23866738/23855417 (Hg38)
End
23866738/23855417 (Hg38)
Orient
-
Location type
Intronic
Target gene
PRKCB
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-142-5p ; hsa-mir-3650 ; hsa-mir-4796-3p ; hsa-mir-5590-3p ; hsa-mir-6867-5p ; hsa-mir-1261 ; hsa-mir-3614-5p ; hsa-mir-381-3p ; hsa-mir-300 ; hsa-mir-890 ; hsa-mir-574-5p ; hsa-mir-4455 ; hsa-mir-4999-5p ; hsa-mir-4718 ; hsa-mir-1537-5p ; hsa-mir-4742-3p ; hsa-mir-93-5p ; hsa-mir-526b-3p ; hsa-mir-519d-3p ; hsa-mir-20b-5p ; hsa-mir-20a-5p ; hsa-mir-17-5p ; hsa-mir-106b-5p ; hsa-mir-106a-5p ; hsa-mir-548ah-5p ; hsa-mir-3609 ; hsa-mir-6868-3p ; hsa-mir-627-3p ; hsa-mir-1248 ; hsa-mir-3667-3p ; hsa-mir-6734-3p ; hsa-mir-6074 ; hsa-mir-4753-3p ; hsa-mir-6809-3p ; hsa-mir-130b-5p ; hsa-mir-3180-5p ; hsa-mir-6780a-3p ; hsa-mir-6881-3p ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-877-3p ; hsa-mir-488-5p ; hsa-mir-4659b-3p ; hsa-mir-4659a-3p ; hsa-mir-6875-3p ; hsa-mir-4778-3p ; hsa-mir-184 ; hsa-mir-33a-5p
Nearest miRNA
hsa-mir-1225/Upstream/2349282; hsa-mir-11401/Downstream/347699;
Nearest TSS
ENST00000527434/Upstream/18194; ENST00000647422/Downstream/108299;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/18636, chr16-CpG: 44/Downstream/400302
Nearest cancer related gene
PRKCB(TSG, No orient, 0)
Upstream sequence
ggtcttaggcatctttctttttaatcttcagtttctttgtctgtgaaatgaagataatggcacagagcctacctcccagagttctatgtggattaaatga
Downstream sequence
gacaGGCaaacaacaacaaaaaccacaaacaaacaaaaaacaaaaatgaaaacaaaaaTCATGTGATTGCTTATTAAATGTTAGTTATAGAAAAAAATAT
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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