Basic Information
VIS ID
TVIS44009921
Fusion event
HTLV-1-SMAD9 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
chr13
Cytoband
q13.3
Reference genome
GRCh37/hg19
Start
37487739/36913602 (Hg38)
End
37487739/36913602 (Hg38)
Orient
-
Location type
Intronic
Target gene
SMAD9
miRNAs that regulate target gene
hsa-mir-106b-5p ; hsa-mir-203a-3p ; hsa-mir-574-5p ; hsa-mir-653-5p ; hsa-mir-5585-3p ; hsa-mir-190a-3p ; hsa-mir-6867-5p ; hsa-mir-223-5p ; hsa-mir-511-3p ; hsa-mir-5011-5p ; hsa-mir-1277-5p ; hsa-mir-665 ; hsa-mir-887-5p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-7160-5p ; hsa-mir-4722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-1827 ; hsa-mir-4649-3p ; hsa-mir-4768-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-890 ; hsa-mir-34b-3p ; hsa-mir-606
Nearest miRNA
hsa-mir-2276/Upstream/12751098; hsa-mir-1267/Downstream/2750432;
Nearest TSS
ENST00000623511/Upstream/33773; ENST00000488108/Downstream/6636;
Nearest CpG islands
None/Target, chr13-CpG: 551/Upstream/93647, chr13-CpG: 94/Downstream/6103
Upstream sequence
AGATATAATCAATACAACTTTAAAAAAATAAAGTGTATTTAGAATATCTTGTAATAAAATTAGATGCAATGACAACAGAAAGCAAGTAAAACTGCCACTC
Downstream sequence
CTTTGAAATAATACCAACTTGTCATTATTTGCAAACACAGCCAACACCTAATGACTGCTTTGTGTAAACATATAGTCAATAAGCTGAAAGGGAAGCATTC
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.
Curate