Basic Information
VIS ID
TVIS44006531
Fusion event
HTLV-1-SMC2-AS1 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
q31.1
Reference genome
GRCh37/hg19
Start
106847267/104084986 (Hg38)
End
106847267/104084986 (Hg38)
Orient
+
Location type
ncRNA_exonic
Target gene
SMC2-AS1
Nearest miRNA
hsa-let-7a-1/Upstream/5855769; hsa-mir-12126/Downstream/2515942;
Nearest TSS
ENST00000422679/Upstream/85231; ENST00000440179/Downstream/7488;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/85239, chr9-CpG: 57/Downstream/8695
Upstream sequence
ctcagcctcactttgcccagaccctattcaagatggagttgctctggttcaaatgcccctgacaCACCCATGGCTGAAGTCTATGTGGTTGTCCTGGTGT
Downstream sequence
TAATTATTGAAGGATTCTGCCAAGGGGTAGGGAAATGTTAGAGAGTAAGCATCTGGGCTGTCAAATCTAACTGTCCTTTTCCCAATAGAAATCCTCCTTA
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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