Basic Information
VIS ID
TVIS44004814
Fusion event
HTLV-1-FAM13C 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
q21.1
Reference genome
GRCh37/hg19
Start
61064412/59304652 (Hg38)
End
61064412/59304652 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA10C
Target gene
FAM13C
miRNAs that regulate target gene
hsa-let-7a-5p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-202-5p ; hsa-mir-627-3p ; hsa-mir-660-3p ; hsa-mir-5193
Nearest miRNA
hsa-mir-1265/Upstream/2000093; hsa-mir-107/Downstream/4068305;
Nearest TSS
ENST00000439456/Upstream/1796; ENST00000647375/Downstream/19454;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/127363, chr10-CpG: 21/Downstream/57896
Upstream sequence
tctatgagacacatagagggggacaacacacactggggcctttcagagggtggcaggtgggaggagggagaggatcaggaaaaaataactaatgggtact
Downstream sequence
aggcttaatacctgggtgattaaataatctgtacaacaaacccgcatgacacaagtttacctgtgaaacaagcctgcacttgtaccctgaacttaaaata
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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