Basic Information
VIS ID
TVIS44009750
Fusion event
HTLV-1-SEC23A 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
chr14
Cytoband
q21.1
Reference genome
GRCh37/hg19
Start
39557034/39087830 (Hg38)
End
39557034/39087830 (Hg38)
Orient
-
Location type
Intronic
Target gene
SEC23A
miRNAs that regulate target gene
hsa-mir-30a-5p ; hsa-mir-193b-3p ; hsa-mir-375 ; hsa-mir-93-5p ; hsa-mir-200c-3p ; hsa-mir-548aw ; hsa-mir-200b-3p ; hsa-mir-20a-5p ; hsa-mir-106b-5p ; hsa-mir-4777-3p ; hsa-mir-1468-3p ; hsa-mir-548x-5p ; hsa-mir-548g-5p ; hsa-mir-548f-5p ; hsa-mir-548aj-5p ; hsa-mir-1252-5p ; hsa-mir-4724-5p ; hsa-mir-5700 ; hsa-mir-6800-3p ; hsa-mir-429 ; hsa-mir-4282 ; hsa-mir-519d-3p ; hsa-mir-17-5p ; hsa-mir-20b-5p ; hsa-mir-142-3p ; hsa-mir-4255
Nearest miRNA
hsa-mir-208a/Upstream/2135439; hsa-mir-1185-1/Downstream/8673165;
Nearest TSS
ENST00000550708/Upstream/20619; ENST00000557350/Downstream/893;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/831498, chr14-CpG: 57/Downstream/15003
Upstream sequence
TGTACAAAGATAAAATTAGTGAACTAATCCTGCAATATTTCCTATACTGTTAGCAGAAACagcaactctttactaagaacttaatatgttccatattcta
Downstream sequence
tgctaaaacctttatatatactatttcctcacaaaacaataatgaaatagatttcttcttaaattctactttataaatgaaaattgacaatcagaaagac
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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