Basic Information
VIS ID
TVIS44006616
Fusion event
HTLV-1-SCAMP5 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
chr15
Cytoband
q24.2
Reference genome
GRCh37/hg19
Start
75305506/75013165 (Hg38)
End
75305506/75013165 (Hg38)
Orient
+
Location type
Intronic
Target gene
SCAMP5
miRNAs that regulate target gene
hsa-mir-1229-3p ; hsa-mir-17-5p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-7515 ; hsa-mir-6770-5p ; hsa-mir-5681a ; hsa-mir-5584-5p ; hsa-mir-3154
Nearest miRNA
hsa-mir-10393/Upstream/172458; hsa-mir-11181/Downstream/340446;
Nearest TSS
ENST00000557528/Upstream/1358; ENST00000568081/Downstream/4488;
Nearest CpG islands
None/Target, chr15-CpG: 55/Upstream/16807, chr15-CpG: 34/Downstream/10349
Upstream sequence
GAGCATCTGGACAGGGGTCCCTCTCTGCAGTGTAATCCCTGTCTTCTTGCTTCCCCTTTCCCTTCCACTGGAGTAACTTTCCAGGGAACCTCTGGGGACT
Downstream sequence
GTCAGGACCTCAGGATTCTGGATTTGGAGAGGAATCCTTCCCTCAAAGCCTTATTTGTCTTGCTTTCTCTGGAAGATTGCTCAAAGAGAGGAGGATTCAG
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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