Basic Information
VIS ID
TVIS44004424
Fusion event
HTLV-1-CCDC93 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
q14.1
Reference genome
GRCh37/hg19
Start
118759321/118001745 (Hg38)
End
118759321/118001745 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
CCDC93
miRNAs that regulate target gene
hsa-mir-7977 ; hsa-mir-561-5p ; hsa-mir-4474-5p ; hsa-mir-6787-3p ; hsa-mir-138-1-3p ; hsa-mir-5685 ; hsa-mir-4690-3p ; hsa-mir-3922-5p ; hsa-mir-6875-3p ; hsa-mir-4446-5p ; hsa-mir-5006-3p ; hsa-mir-4755-5p ; hsa-mir-4753-3p ; hsa-mir-211-5p ; hsa-mir-204-5p ; hsa-mir-623 ; hsa-mir-642a-5p ; hsa-mir-22-5p ; hsa-mir-4703-3p ; hsa-mir-130b-5p ; hsa-mir-1248 ; hsa-mir-6769b-3p ; hsa-mir-3183 ; hsa-mir-4723-3p ; hsa-mir-5088-3p ; hsa-mir-2276-5p ; hsa-mir-6892-3p ; hsa-mir-5584-3p ; hsa-mir-6874-3p ; hsa-mir-148b-5p ; hsa-mir-3168 ; hsa-mir-4280
Nearest miRNA
hsa-mir-1285-2/Upstream/4280377; hsa-mir-10b/Downstream/9421792;
Nearest TSS
ENST00000437798/Upstream/608; ENST00000628427/Downstream/10756;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/141158, chr2-CpG: 101/Downstream/11538
Upstream sequence
GAAGGGAGGAACCAGGCTTCCTGAGGCCTCAGAGTTTTCTTCTCTGTAGGTCAGGAGGAAAGCATCCTCTCCTGCTAGGGAGGTTTCTCAGCTCAGCCTG
Downstream sequence
AGCTGGGGTAGGACAGTTTATGGCAGCACTGGTGGAGGGATTTGTATGCAAGTCTGTTTTATTGCAGCCTGAAACCTCCTTCTCGAATCAGTTGGCATTT
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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