Basic Information
VIS ID
TVIS44004335
Fusion event
HTLV-1-COL13A1 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
chr10
Cytoband
q22.1
Reference genome
GRCh37/hg19
Start
71603768/69844012 (Hg38)
End
71603768/69844012 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10C
Target gene
COL13A1
miRNAs that regulate target gene
hsa-mir-7856-5p ; hsa-mir-4477b ; hsa-mir-744-3p ; hsa-mir-6794-3p ; hsa-mir-506-3p ; hsa-mir-124-3p ; hsa-mir-4423-5p ; hsa-mir-6501-5p ; hsa-mir-3944-5p ; hsa-mir-4430 ; hsa-mir-3652 ; hsa-mir-4763-3p ; hsa-mir-1207-5p ; hsa-mir-122-5p ; hsa-mir-504-3p ; hsa-mir-3135b ; hsa-mir-4746-3p ; hsa-mir-367-5p ; hsa-mir-1267 ; hsa-mir-1304-3p ; hsa-mir-4639-3p ; hsa-mir-1182 ; hsa-mir-940 ; hsa-mir-6893-5p ; hsa-mir-6808-5p ; hsa-mir-3664-5p ; hsa-mir-3714 ; hsa-mir-3910
Nearest miRNA
hsa-mir-1265/Upstream/2440602; hsa-mir-107/Downstream/1946735;
Nearest TSS
ENST00000439456/Upstream/41588; ENST00000484990/Downstream/33284;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/40892, chr10-CpG: 147/Downstream/208550
Upstream sequence
tgtgggccaggcgctgtTATCATATGCTGTGGGCAGGTGCCGTGGTAGGTTTGTGATATGTCACAAAGTCAAACAAGACATAGTCTTTATCGTCCAGGAG
Downstream sequence
AGATGCCCACCAGTAAAGCATAGAAAATACCCAAGAGAGTCAGAAGAAAAAGAAAAGGAATAGCAAGCCCTgagggcttcccggaagaggcggcatttgc
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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