Basic Information
VIS ID
TVIS44007570
Fusion event
HTLV-1-GGPS1 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
chr1
Cytoband
q42.3
Reference genome
GRCh37/hg19
Start
235494408/235331093 (Hg38)
End
235494408/235331093 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1H
Target gene
GGPS1
miRNAs that regulate target gene
hsa-mir-769-5p ; hsa-mir-186-5p ; hsa-let-7b-5p ; hsa-let-7a-5p ; hsa-mir-4279 ; hsa-mir-6783-3p ; hsa-mir-1343-3p ; hsa-mir-377-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-2276-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-1281 ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-660-3p ; hsa-mir-4485-5p ; hsa-mir-1228-3p
Nearest miRNA
hsa-mir-101-1/Upstream/140977; hsa-mir-1537/Downstream/521907;
Nearest TSS
ENST00000473358/Upstream/626; ENST00000646384/Downstream/11159;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/2248, chr1-CpG: 148/Downstream/172696
Upstream sequence
CTTCTTTTCTTACTTCAATCCCTGATAATAAGGTCACGTGTCAGAGATCAAATAGTATAGGTAATAGGTTACCTAAATAGGTATTTGCATAATAGGTTAC
Downstream sequence
CTAACTAAATAGGTTTTTGCCTAATAGGTATGTTGATTATTTCGCTTACTTGATTCTTTATGAGCCTTTTTTTCCTTGCGACGTCTTTGGTATTAATTGT
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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