Basic Information
VIS ID
TVIS44008187
Fusion event
HTLV-1-SMARCA2 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
chr9
Cytoband
p24.3
Reference genome
GRCh37/hg19
Start
2168924/2168924 (Hg38)
End
2168924/2168924 (Hg38)
Orient
+
Location type
Intronic
Target gene
SMARCA2
miRNAs that regulate target gene
hsa-mir-199a-3p ; hsa-mir-199a-5p ; hsa-mir-186-5p ; hsa-mir-124-3p ; hsa-mir-1-3p ; hsa-mir-215-5p ; hsa-mir-192-5p ; hsa-mir-19b-3p ; hsa-mir-615-3p ; hsa-mir-423-3p ; hsa-mir-19a-3p
Nearest miRNA
hsa-mir-1302-9/Upstream/2138643; hsa-let-7a-1/Downstream/2681373;
Nearest TSS
ENST00000422679/Upstream/8311; ENST00000635392/Downstream/12309;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/121123, chr9-CpG: 24/Downstream/72413
Nearest cancer related gene
SMARCA2(TSG, No orient, 0)
Upstream sequence
AATTATTCTGCTGGGATCTTTGGTTGTTCAGAACCCACTGAGTTGTAATCTGCGTCagtcttagatgacagagccatacctagcttctctgagttagtta
Downstream sequence
caatctactctgtaaagcgttctaaggtagcacttgttgttttcaggttttcctcccgtcactcgtgcacattcggagatgacatggTCTACTTAAGCTT
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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