Basic Information
VIS ID
TVIS44009904
Fusion event
HTLV-1-SHOC1 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
chr9
Cytoband
q31.3
Reference genome
GRCh37/hg19
Start
114534353/111772073 (Hg38)
End
114534353/111772073 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA9E
Target gene
SHOC1
miRNAs that regulate target gene
hsa-mir-335-5p
Nearest miRNA
hsa-let-7a-1/Upstream/500859; hsa-mir-12126/Downstream/160027;
Nearest TSS
ENST00000422679/Upstream/12540; ENST00000489355/Downstream/9056;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/110045, chr9-CpG: 22/Downstream/22934
Upstream sequence
ttgtattttttctttctgccctctgcctttgctcagctcccttttgaacatcaagaattcttagatttggtttttgaggtaattttctatatcttgtagg
Downstream sequence
cagtttttgttctttttctttcttttttcttttttctcctctgactgtattttcaaatagctggtctttgagctcactgattcttccctctggttgttcc
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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