Basic Information
VIS ID
TVIS44008019
Fusion event
HTLV-1-GBF1 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
q24.32
Reference genome
GRCh37/hg19
Start
104054890/102295133 (Hg38)
End
104054890/102295133 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA10D ; FRA10A ; FRA10B
Target gene
GBF1
miRNAs that regulate target gene
hsa-mir-193b-3p ; hsa-mir-7-5p ; hsa-let-7f-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-485-5p ; hsa-mir-377-3p ; hsa-mir-485-3p
Nearest miRNA
hsa-mir-107/Upstream/693636; hsa-mir-1307/Downstream/141379;
Nearest TSS
ENST00000439456/Upstream/49601; ENST00000476019/Downstream/63966;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/49298, chr10-CpG: 146/Downstream/98839
Upstream sequence
aacttctttcatctcttttagtagattcttttggaatttactcccatatttctaattaacaagtgtgtattgctgcttcttagtttttcaGATTAAAGGA
Downstream sequence
TAGAGCTCCACTCATTTGTTTTGTTTCTCTGTCAATATTTACAAGAGTCAAGTTATCTTAGAACTGGAAGAGACTTCAGATCCTCCAGAGAACTaaactc
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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