Basic Information
VIS ID
TVIS44010200
Fusion event
HTLV-1-FRMD4B 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
chr3
Cytoband
p14.1
Reference genome
GRCh37/hg19
Start
69236395/69187244 (Hg38)
End
69236395/69187244 (Hg38)
Orient
-
Location type
Intronic
Target gene
FRMD4B
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-9-5p ; hsa-mir-98-5p ; hsa-mir-3672 ; hsa-mir-4524a-3p ; hsa-mir-526b-5p ; hsa-mir-578 ; hsa-mir-6864-3p
Nearest miRNA
hsa-let-7g/Upstream/138209; hsa-mir-12124/Downstream/2354726;
Nearest TSS
ENST00000440867/Upstream/64212; ENST00000460597/Downstream/12026;
Nearest CpG islands
None/Target, chr3-CpG: 148/Upstream/101916, chr3-CpG: 62/Downstream/198531
Upstream sequence
GACACTATGTCTAAATCCAGATGATAATTAATGTCCCTATAAGTTAATATAGATCAAATAGACTTTAAAGTCAAGGAAATGGTCAAATGCATTTTAAAAG
Downstream sequence
ACTTCTTAAAAACATTTTCAgccaggcacggtggctcaaacttgtaatcccagcactttgggaggccgaggcaggcagatcacctgaggttgggagttcg
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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