Basic Information
VIS ID
TVIS44007393
Fusion event
HTLV-1-AFF3 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
chr2
Cytoband
q11.2
Reference genome
GRCh37/hg19
Start
100640112/100023650 (Hg38)
End
100640112/100023650 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S ; FRA2A
Target gene
AFF3
miRNAs that regulate target gene
hsa-mir-574-5p ; hsa-mir-6881-3p ; hsa-mir-6780a-3p ; hsa-mir-7111-3p ; hsa-mir-6867-5p ; hsa-mir-3177-5p ; hsa-mir-7703 ; hsa-mir-6720-5p ; hsa-mir-6512-3p ; hsa-mir-1227-3p ; hsa-mir-4252 ; hsa-mir-4793-3p ; hsa-mir-766-3p ; hsa-mir-1273g-3p ; hsa-mir-508-5p ; hsa-mir-6849-3p
Nearest miRNA
hsa-mir-1285-2/Upstream/3225297; hsa-mir-10b/Downstream/1285800;
Nearest TSS
ENST00000437798/Upstream/15699; ENST00000434301/Downstream/80880;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/429621, chr2-CpG: 138/Downstream/80273
Nearest cancer related gene
AFF3(OG, No orient, 0)
Upstream sequence
CCCATTAAACAAGAAGAATACTTCCTATCACTGAACGCATAGTTTCCAAGGAGCCCCCTCTACCTCCAAAGATATTAACATTGTGCCAGAAATGAGAAGA
Downstream sequence
TTCAGCTAAGGTCCAAGCAGAGACAAGTCAGGACTCTGTGCCTTACCCCCTCATCTCAAGCAGGGTTAAGAAACCAATCCATACATTGTGATCAGTGGTT
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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