Basic Information
VIS ID
TVIS44006188
Fusion event
HTLV-1-CSNK1G3 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
chr5
Cytoband
q23.2
Reference genome
GRCh37/hg19
Start
122857042/123521348 (Hg38)
End
122857042/123521348 (Hg38)
Orient
+
Location type
Intronic
Target gene
CSNK1G3
miRNAs that regulate target gene
hsa-mir-33a-5p ; hsa-mir-30a-5p ; hsa-mir-5047 ; hsa-mir-6516-5p ; hsa-mir-7156-3p ; hsa-mir-1301-3p ; hsa-mir-3663-5p ; hsa-mir-503-3p ; hsa-mir-5003-3p ; hsa-mir-545-3p ; hsa-mir-107 ; hsa-mir-103a-3p ; hsa-mir-5010-3p ; hsa-mir-744-3p ; hsa-mir-192-3p ; hsa-mir-4795-3p ; hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-20a-3p ; hsa-mir-126-5p ; hsa-mir-3591-5p ; hsa-mir-142-3p ; hsa-mir-6845-3p ; hsa-mir-4699-3p ; hsa-mir-4280 ; hsa-mir-6800-3p
Nearest miRNA
hsa-mir-10397/Upstream/4366632; hsa-mir-103a-1/Downstream/5576340;
Nearest TSS
ENST00000502646/Upstream/9088; ENST00000514131/Downstream/24067;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/8434, chr5-CpG: 20/Downstream/114716
Upstream sequence
TGTAAATCTTTAAATCTTAAAGATGTGGAATCTTGTGATGCCAGTTTTTATTTTAAAAAAAGGATCTTTACTGAGTACTTTTTCTGTCATACGAGTATCA
Downstream sequence
GGATATATTGTTGCTGATGTGTCTTTATATAATTGAGATTCTGCAAATGTTTGTAGTTAATAAAGTATCAAAATATAATCAGCTCCTTAAGATAATTGTT
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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