Basic Information
VIS ID
TVIS44014850
Fusion event
HTLV-1-SYNJ1 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
chr21
Cytoband
q22.11
Reference genome
GRCh37/hg19
Start
34019709/32647399 (Hg38)
End
34019709/32647399 (Hg38)
Orient
-
Location type
Intronic
Target gene
SYNJ1
miRNAs that regulate target gene
hsa-mir-103a-3p ; hsa-mir-32-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-10a-5p ; hsa-mir-92a-3p ; hsa-mir-92b-3p
Nearest miRNA
hsa-let-7c/Upstream/2272021; hsa-mir-3197/Downstream/903263;
Nearest TSS
ENST00000624081/Upstream/1689; ENST00000458479/Downstream/6702;
Nearest CpG islands
None/Target, chr21-CpG: 261/Upstream/34259, chr21-CpG: 102/Downstream/80006
Upstream sequence
catttcctgaacccactcactgaggactaagcagagagcaagactgtaagtcaggtcccgcaccatctttctgcgtggcatcaaagtccatgtggacaac
Downstream sequence
tcgttcaatagcaaaatgccttggtcctatccttatggacattcgccttcactcctaaccctcacccctcagaactgcactcttctgaaataataaactc
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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