Basic Information
VIS ID
TVIS44005753
Fusion event
HTLV-1-SCARB1 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
chr12
Cytoband
q24.31
Reference genome
GRCh37/hg19
Start
125325234/124840688 (Hg38)
End
125325234/124840688 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA12E
Target gene
SCARB1
miRNAs that regulate target gene
hsa-mir-185-5p ; hsa-mir-96-5p ; hsa-mir-223-3p ; hsa-mir-877-3p ; hsa-mir-615-3p ; hsa-mir-324-5p ; hsa-mir-92a-3p ; hsa-mir-450b-5p ; hsa-mir-106a-3p ; hsa-mir-5739 ; hsa-mir-5091 ; hsa-mir-3121-5p ; hsa-mir-501-5p ; hsa-mir-3610
Nearest miRNA
hsa-let-7i/Upstream/503446; hsa-mir-3612/Downstream/74859;
Nearest TSS
ENST00000382841/Upstream/22981; ENST00000341446/Downstream/23095;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/684, chr12-CpG: 75/Downstream/22550
Upstream sequence
tctgctctcaacctccctcccccgatcttctcgtctcggaaaatggctccaccatctaccaaactcctcaaaccttgaggaaccacccttgattcctctc
Downstream sequence
cttccctcgcaccccagtccactgacctatcttgttgactctccctgaaaaaaaactcgaatatgttcccttctttccatttagaaaactacccccacct
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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