Basic Information
VIS ID
TVIS44026657
Fusion event
HTLV-1-SHANK2 integration
Validated
No
Detection method
HTS
Data source
download(RID)
Sample type
Nontumor
Disease
Not given
Quality evaluation
Normal
Reported year
2017
PubMed ID
29186194
Virus Sequence
Virus name
HTLV-1
Reference genome
Not given
Host Sequence
Chromosome
chr11
Cytoband
q13.4
Reference genome
GRCh37/hg19
Start
70679543/70833438 (Hg38)
End
70679543/70833438 (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/549368; hsa-let-7a-2/Downstream/38832;
Nearest TSS
ENST00000527297/Upstream/6681; ENST00000307548/Downstream/29352;
Nearest CpG islands
None/Target, chr11-CpG: 30/Upstream/6488, chr11-CpG: 211/Downstream/417689
Upstream sequence
cctgacatctgtcagagtcttctgcctcctgcatcaacaagccagggtggactctactgctggtgacccagaccctgaccggtaGAGCCCGTGAGGCTGG
Downstream sequence
GTCTCGGGCAAGAGAGCTGGGCATGCGACATCTCTCAGGGAGGCCTCTGGTCCAGGGACCCTGACAGCATCTCTGCAACAtctgcagctggactttctgg
Reference
Furuta, R., et al.Human T-cell leukemia virus type 1 infects multiple lineage hematopoietic cells in vivo. PLoS Pathog,2017,13(11): e1006722.
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