Basic Information
VIS ID
TVIS44007457
Fusion event
HTLV-1-CSMD1 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
chr8
Cytoband
p23.2
Reference genome
GRCh37/hg19
Start
2980646/3123124 (Hg38)
End
2980646/3123124 (Hg38)
Orient
-
Location type
Intronic
Target gene
CSMD1
miRNAs that regulate target gene
hsa-mir-297 ; hsa-mir-3924 ; hsa-mir-190a-3p ; hsa-mir-4789-5p ; hsa-mir-567 ; hsa-mir-5011-5p ; hsa-mir-4704-5p ; hsa-mir-5583-3p ; hsa-mir-4517 ; hsa-mir-1277-5p ; hsa-mir-338-5p ; hsa-let-7c-3p ; hsa-mir-10b-5p
Nearest miRNA
hsa-mir-3674/Upstream/1046484; hsa-mir-10400/Downstream/3499000;
Nearest TSS
ENST00000518652/Upstream/9761; ENST00000522905/Downstream/60022;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/100698, chr8-CpG: 256/Downstream/1868322
Nearest cancer related gene
CSMD1(TSG, No orient, 0)
Upstream sequence
AAAGGACGTAGCTCAAAGGCTACAGTGGCGTGTCCCTCATGATTGATTGTTTTTGTTGTTATCACCTATTTGAAAAACTAGATGCTTAGAAATCTAAGCT
Downstream sequence
GATAAATGTAGGGACAGGGAACATTAAAACAGAAAGCCAGGCCAAATCAGCATCTCTCTCTTTCTCTGACACACACACCCCTCATCTGCATTCCCCCATC
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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