Basic Information
VIS ID
TVIS44005139
Fusion event
HTLV-1-RBMS3 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
chr3
Cytoband
p24.1
Reference genome
GRCh37/hg19
Start
29799720/29758229 (Hg38)
End
29799720/29758229 (Hg38)
Orient
+
Location type
Intronic
Target gene
RBMS3
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-16-5p ; hsa-mir-578 ; hsa-mir-526b-5p ; hsa-mir-3190-3p ; hsa-mir-6077 ; hsa-mir-7-5p ; hsa-mir-4282 ; hsa-mir-3674 ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-5706 ; hsa-mir-4782-5p ; hsa-mir-516b-5p ; hsa-mir-1299 ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-4703-3p ; hsa-mir-5093 ; hsa-mir-3182 ; hsa-mir-6128 ; hsa-mir-875-3p ; hsa-mir-877-3p ; hsa-mir-1324
Nearest miRNA
hsa-mir-12127/Upstream/4093290; hsa-let-7g/Downstream/1403475;
Nearest TSS
ENST00000440867/Upstream/60036; ENST00000497319/Downstream/4694;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/1181750, chr3-CpG: 88/Downstream/848266
Nearest cancer related gene
RBMS3(TSG, No orient, 0)
Upstream sequence
ATTCCATTTTTGAAAACAACTTCTTGAAGTAATAGTGGCTGGGTAGAGTGGAGCTAGCAGGACCCATCCTACTCTTGAACAGATTGAAGTACATCAGTCA
Downstream sequence
GTAGAGAAAATCAGGAGGGATGACATGAGGCCAGCAATGGAGCTGCATCTCTTGCAAATaaatagtctcaattcaaagtcatgagacaacagttctattc
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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