Basic Information
VIS ID
TVIS44005800
Fusion event
HTLV-1-SEC24D 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
chr4
Cytoband
q26
Reference genome
GRCh37/hg19
Start
119651331/118730176 (Hg38)
End
119651331/118730176 (Hg38)
Orient
-
Location type
Intronic
Target gene
SEC24D
miRNAs that regulate target gene
hsa-mir-605-5p ; hsa-mir-335-5p ; hsa-mir-124-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-129-5p ; hsa-mir-511-5p ; hsa-mir-6830-3p ; hsa-mir-6878-3p ; hsa-mir-640 ; hsa-mir-203b-3p ; hsa-mir-7158-3p ; hsa-mir-378a-5p ; hsa-mir-6744-3p ; hsa-mir-4757-5p ; hsa-mir-4312 ; hsa-mir-6821-3p ; hsa-mir-6790-3p ; hsa-mir-4680-5p ; hsa-mir-4635 ; hsa-mir-3663-5p ; hsa-mir-3653-5p ; hsa-mir-212-5p ; hsa-mir-6747-3p ; hsa-mir-6513-3p ; hsa-mir-8079 ; hsa-mir-1245a ; hsa-mir-6131
Nearest miRNA
hsa-mir-12113/Upstream/4073322; hsa-mir-1305/Downstream/6777083;
Nearest TSS
ENST00000502981/Upstream/1329; ENST00000434046/Downstream/3139;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/44521, chr4-CpG: 56/Downstream/105865
Upstream sequence
CAATCTGCTGCCTTGTGGTAGAGACACTGGCTATTTCCTGTGGATGTTCAGTTCAGCAACTATGCATTCAGCATTTACTATGTCAATATATTACAAGAGG
Downstream sequence
AAGCTTCCTTAACTTTTATATAAACATTCTTCAGACTCATAGTTCTTTGCCTACTGAATTTTATTTTTTTAAATTGCATTTATAATCATTTCTTAATTTC
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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