Basic Information
VIS ID
TVIS44013533
Fusion event
HTLV-1-RAPGEFL1 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
chr17
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
38336328/40180076 (Hg38)
End
38336328/40180076 (Hg38)
Orient
-
Location type
Intronic
Target gene
RAPGEFL1
miRNAs that regulate target gene
hsa-mir-296-3p ; hsa-mir-30c-5p ; hsa-let-7c-5p ; hsa-mir-196a-3p ; hsa-mir-548al ; hsa-mir-4445-3p ; hsa-mir-8485 ; hsa-mir-4803 ; hsa-mir-5692c ; hsa-mir-5692b
Nearest miRNA
hsa-mir-1180/Upstream/18075; hsa-mir-10226/Downstream/13521;
Nearest TSS
ENST00000595228/Upstream/1827; ENST00000538981/Downstream/1163;
Nearest CpG islands
None/Target, chr17-CpG: 26/Upstream/1533, chr17-CpG: 36/Downstream/11205
Upstream sequence
CTCTATGACACATTCCCTAGGGAGGCTGTACATTGGCCCAGAGCCTGCTTTGGAAAAGACAGATGCCCAACTGTGGCCCCCATATCAGCATCTCCCCAAC
Downstream sequence
TCTGCCCCATCTTACTCTTCCTTTGCTCCAGCTTAGGAATCCTGTGAGATAAAGTCTATGAAGGATGTCAGGCCTCTCGTTTCCTCACCCTCATCCCTGA
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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