Basic Information
VIS ID
TVIS44014202
Fusion event
HTLV-1-CSGALNACT1 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
chr8
Cytoband
p21.3
Reference genome
GRCh37/hg19
Start
19553745/19696234 (Hg38)
End
19553745/19696234 (Hg38)
Orient
-
Location type
Intronic
Target gene
CSGALNACT1
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-124-3p ; hsa-mir-126-5p ; hsa-mir-16-5p ; hsa-mir-1238-3p ; hsa-mir-670-3p ; hsa-mir-6749-3p ; hsa-mir-6792-3p ; hsa-mir-4691-5p ; hsa-mir-124-5p ; hsa-mir-616-3p ; hsa-mir-627-3p ; hsa-mir-3925-3p ; hsa-mir-1825 ; hsa-mir-153-5p ; hsa-mir-1250-3p ; hsa-mir-4255 ; hsa-mir-199a-5p ; hsa-mir-199b-5p ; hsa-mir-765 ; hsa-mir-3663-3p ; hsa-mir-4786-3p ; hsa-mir-665 ; hsa-mir-4459 ; hsa-mir-3620-3p ; hsa-mir-6871-3p ; hsa-mir-10b-5p ; hsa-mir-10a-5p
Nearest miRNA
hsa-mir-124-1/Upstream/2014577; hsa-mir-10400/Downstream/2548732;
Nearest TSS
ENST00000518652/Upstream/12994; ENST00000520985/Downstream/60983;
Nearest CpG islands
None/Target, chr8-CpG: 109/Upstream/93608, chr8-CpG: 121/Downstream/60386
Nearby gene
CSGALNACT1(-13651) ;
Upstream sequence
GCCTTTCTCCAGGACATCATGAATAATTAGACATCCAGCAGTCTAGGTTACTGCCATCAGGACTTTGGGGAACTTGACAATGTGAAAAAGATTCTGTCCC
Downstream sequence
CAATCCAACTTACATTTTATGCAATTTGCCTCAAACACCACTGTAGCATCTTACAGTAAAGCAAGATAATGTGTGTCATATTTTTTTAAGTCATGCAAAC
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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