Basic Information
VIS ID
TVIS44002250
Fusion event
HTLV-1-SHANK2 integration
Validated
No
Detection method
HTS
Data source
download(RID)
Sample type
Nontumor
Disease
Adult T-cell leukemia (ATL)
Quality evaluation
Normal
Reported year
2017
PubMed ID
28811663
Virus Sequence
Virus name
HTLV-1
Reference genome
Not given
Host Sequence
Chromosome
chr11
Cytoband
q13.4
Reference genome
GRCh37/hg19
Start
70825870/71114824 (Hg38)
End
70825870/71114824 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA11H
Target gene
SHANK2
miRNAs that regulate target gene
hsa-mir-1307-3p ; hsa-mir-155-5p ; hsa-mir-4646-3p ; hsa-mir-4433b-5p ; hsa-mir-4433a-5p ; hsa-mir-4469 ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-6756-3p ; hsa-mir-3127-3p
Nearest miRNA
hsa-mir-10392/Upstream/242456; hsa-let-7a-2/Downstream/358679;
Nearest TSS
ENST00000527297/Upstream/20136; ENST00000529369/Downstream/109938;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/287874, chr11-CpG: 211/Downstream/136303
Upstream sequence
TGTGCGTCCATGCCCCGGGACCAATCACACCTCTGGTCCAGATTTCAGAAGCCACTGAGAATGATGCCAGGTGCCTTCTCAGGCTCATGATCATGTGGCT
Downstream sequence
AAGCTTAAAAGTCTCAGGGAATTCAATTCCACGGGGCCCCTTTCCAGACATAAAACAATCCGCTTGGGCCCACAGCATCTCTGGGGCAGGAGGGTAAAGG
Reference
Artesi, M., et al.Monitoring molecular response in adult T-cell leukemia by high-throughput sequencing analysis of HTLV-1 clonality. Leukemia ,2017,31(11): 2532-2535.
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