Basic Information
VIS ID
TVIS44008784
Fusion event
HTLV-1-SH3BP5L 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
chr1
Cytoband
q44
Reference genome
GRCh37/hg19
Start
249114351/248820152 (Hg38)
End
249114351/248820152 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1I
Target gene
SH3BP5L
miRNAs that regulate target gene
hsa-mir-106a-5p ; hsa-mir-6865-3p ; hsa-mir-6834-5p ; hsa-mir-670-5p ; hsa-mir-642b-5p ; hsa-mir-4668-5p ; hsa-mir-3148 ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-6875-5p ; hsa-mir-3126-5p ; hsa-mir-544b ; hsa-mir-4732-3p ; hsa-mir-345-3p ; hsa-mir-5584-5p ; hsa-mir-125a-5p ; hsa-mir-125b-5p ; hsa-mir-4319 ; hsa-mir-4469 ; hsa-mir-4667-3p ; hsa-mir-1470 ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-6832-3p
Nearest miRNA
hsa-mir-101-1/Upstream/1618092; hsa-mir-3124/Downstream/6225;
Nearest TSS
ENST00000473358/Upstream/3306; ENST00000515369/Downstream/5483;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/7834, chr1-CpG: 33/Downstream/6099
Upstream sequence
ctaagtcttcacaatccgtatgcacttgactcttgtgacacatctcaacctagacAGTGGCATGTGGCTCCTGTGTTGGGTGGCGAAGGTCTAGAAGTTG
Downstream sequence
TTGTATTTGGGTAGATGCATCTACAGTGTCCCACAACCCAGTGTCCATAAAATAACAACCATTCTGGAAGAACAGGCAGCCAACACAGCTCAGGGCCCCA
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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