Basic Information
VIS ID
TVIS44005425
Fusion event
HTLV-1-SHC3 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
q22.1
Reference genome
GRCh37/hg19
Start
91757569/89142654 (Hg38)
End
91757569/89142654 (Hg38)
Orient
-
Location type
Intronic
Target gene
SHC3
miRNAs that regulate target gene
hsa-mir-124-3p ; hsa-mir-335-5p ; hsa-mir-92a-3p ; hsa-mir-2355-3p ; hsa-mir-4646-3p ; hsa-mir-3912-5p ; hsa-mir-376b-3p ; hsa-mir-376a-3p ; hsa-mir-885-5p ; hsa-mir-4733-5p ; hsa-mir-155-3p ; hsa-mir-3619-3p ; hsa-mir-342-3p ; hsa-mir-665 ; hsa-mir-1285-5p ; hsa-mir-3120-3p
Nearest miRNA
hsa-mir-101-2/Upstream/396749; hsa-let-7a-1/Downstream/169571;
Nearest TSS
ENST00000422679/Upstream/100517; ENST00000314355/Downstream/36113;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/141324, chr9-CpG: 90/Downstream/35093
Upstream sequence
tgcctgtaatcccagctactcagggctgaggcaggagaatcacttgaacccaggaggaggaggttgcagtgagatcgcacgactgcactccagcctgggc
Downstream sequence
gacagagtgagactctgtcaaaaaaaaaaaaaaaaaaggcggggggtgTcttttacccactctgtcttaggagagattctaactcccctaagttggcctc
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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