Basic Information
VIS ID
TVIS44009801
Fusion event
HTLV-1-RALGAPA2 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
chr20
Cytoband
p11.23
Reference genome
GRCh37/hg19
Start
20590848/20610204 (Hg38)
End
20590848/20610204 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA20A
Target gene
RALGAPA2
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-let-7c-5p ; hsa-mir-6763-5p ; hsa-mir-3150a-3p ; hsa-mir-491-5p ; hsa-mir-6825-5p ; hsa-mir-92a-2-5p ; hsa-mir-939-5p ; hsa-mir-1343-5p ; hsa-mir-3175 ; hsa-mir-3616-3p ; hsa-mir-576-5p ; hsa-mir-4263 ; hsa-mir-627-3p
Nearest miRNA
hsa-mir-103a-2/Upstream/2139513; hsa-mir-1-1/Downstream/5597982;
Nearest TSS
ENST00000382410/Upstream/4792; ENST00000432942/Downstream/29696;
Nearest CpG islands
None/Target, chr20-CpG: 39/Upstream/157519, chr20-CpG: 106/Downstream/101900
Upstream sequence
AGATATGCTTTTTAACATATATCCTCCAAAACCACCTTCAGGTCAACTGAGGAGGGAAGTTAATTTCTCCTCCCCACAACTATCACCTATGTAATTATCC
Downstream sequence
AAAGTCAAGTCCATCCACTGTACTAATATCTTTATTTATGTAGAATGTAGCATTTTTCCAGAGCCCTTTCACACTGTTCACTTTCAGTAATGCTTCATAA
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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