Basic Information
VIS ID
TVIS44011203
Fusion event
HTLV-1-SLC24A3 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
chr20
Cytoband
p11.23
Reference genome
GRCh37/hg19
Start
19384691/19404047 (Hg38)
End
19384691/19404047 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA20A
Target gene
SLC24A3
miRNAs that regulate target gene
hsa-let-7c-3p ; hsa-mir-3177-5p ; hsa-mir-4475 ; hsa-mir-4668-5p ; hsa-mir-511-3p ; hsa-mir-548aa ; hsa-mir-548ap-3p ; hsa-mir-548t-3p ; hsa-mir-5584-5p ; hsa-mir-624-3p ; hsa-mir-7845-5p
Nearest miRNA
hsa-mir-103a-2/Upstream/933356; hsa-mir-1-1/Downstream/6804139;
Nearest TSS
ENST00000382410/Upstream/119451; ENST00000432334/Downstream/353661;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/190789, chr20-CpG: 127/Downstream/353348
Upstream sequence
aaagcagctgtgctcaggtCTCCTGTGTGCTTCTGCACGGAAGTGCCTTCGCTAAGCTTTGGGACTTGATGAAGGTCACGTATCTTGATAAGAGCAAGGG
Downstream sequence
GAAATCAGCATTGTGGTCATCTGGCCCCACTGCCAAAGGATATTTCTGCTTTACTGCAAAGCAATAATTCTGAACCTGCTGTCAGGGATTTCTTGGCACC
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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