Basic Information
VIS ID
TVIS44014211
Fusion event
HTLV-1-CCDC50 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
chr3
Cytoband
q28
Reference genome
GRCh37/hg19
Start
191051055/191333266 (Hg38)
End
191051055/191333266 (Hg38)
Orient
+
Location type
Intronic
Target gene
CCDC50
miRNAs that regulate target gene
hsa-mir-7109-5p ; hsa-mir-6885-5p ; hsa-mir-328-5p ; hsa-mir-6887-5p ; hsa-mir-6795-5p ; hsa-mir-7111-5p ; hsa-mir-5698 ; hsa-mir-6870-5p ; hsa-mir-4723-5p ; hsa-mir-3175 ; hsa-mir-6878-5p ; hsa-mir-6133 ; hsa-mir-6129 ; hsa-mir-6130 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-4524a-3p ; hsa-mir-6760-5p ; hsa-mir-6856-5p ; hsa-mir-6873-5p ; hsa-mir-6758-5p ; hsa-mir-942-3p ; hsa-mir-4802-3p
Nearest miRNA
hsa-let-7g/Upstream/1503257; hsa-mir-3137/Downstream/3801240;
Nearest TSS
ENST00000440867/Upstream/2730; ENST00000460064/Downstream/27837;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/3345, chr3-CpG: 24/Downstream/529873
Upstream sequence
TTACTTCTTGAAGTACAGGTAGCTAGCTATTCTGGGAGCAAATCCTTTTTCTTTAGTGAAAGATACAATTTAATACATTTTTAGAAATGTCTGTAAAAGG
Downstream sequence
AAACATACCTAGAAAGCACTGATTTATTTTAGGTTCAGGGCACTCCAGTGGCATAATGTGTTAAATTAAGTTAATGGCGTACATCCAGACCTTCAAGGGG
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.
Curate