Basic Information
VIS ID
TVIS44012829
Fusion event
HTLV-1-SAMD13 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
chr1
Cytoband
p31.1
Reference genome
GRCh37/hg19
Start
84786592/84320909 (Hg38)
End
84786592/84320909 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA1L
Target gene
SAMD13
miRNAs that regulate target gene
hsa-mir-192-5p
Nearest miRNA
hsa-mir-101-1/Upstream/7260707; hsa-mir-11399/Downstream/812885;
Nearest TSS
ENST00000473358/Upstream/17876; ENST00000454967/Downstream/4771;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/21686, chr1-CpG: 40/Downstream/158340
Upstream sequence
ctaaagtaacttgctctgaactttgaagtggAAATACAATTGATGAATATAATGGAGTTGTGATATTACATGTGGATTGCATTTACCCAGAGTATCCTTT
Downstream sequence
TGGCCTGAACAACTCTCAGCATCCATAATGTCATAAATACCATAAAATGTACAGATGCTAGATTTAGAAAAACAGTTTCAACTATTTTCTGCCTGCCTTC
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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