Basic Information
VIS ID
TVIS44011646
Fusion event
HTLV-1-APTX 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
chr9
Cytoband
p21.1
Reference genome
GRCh37/hg19
Start
33021399/33021401 (Hg38)
End
33021399/33021401 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA9C
Target gene
APTX
miRNAs that regulate target gene
hsa-mir-342-3p ; hsa-mir-7977 ; hsa-mir-24-3p ; hsa-mir-4284 ; hsa-mir-5693 ; hsa-mir-6783-3p ; hsa-mir-4279 ; hsa-mir-1343-3p ; hsa-mir-377-3p ; hsa-mir-23b-5p ; hsa-mir-23a-5p ; hsa-mir-6829-3p ; hsa-mir-6791-3p ; hsa-mir-2276-3p ; hsa-mir-1976 ; hsa-mir-3653-5p ; hsa-mir-1281 ; hsa-mir-6742-3p ; hsa-mir-6852-5p ; hsa-mir-939-3p ; hsa-mir-6747-3p ; hsa-mir-6727-3p ; hsa-mir-4722-3p ; hsa-mir-660-3p ; hsa-mir-4485-5p ; hsa-mir-1228-3p ; hsa-mir-6722-5p ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-383-3p ; hsa-mir-4478 ; hsa-mir-4419b ; hsa-mir-3929 ; hsa-mir-1304-3p ; hsa-mir-1307-3p ; hsa-mir-4638-5p ; hsa-mir-6741-3p ; hsa-mir-6890-3p ; hsa-mir-891a-3p
Nearest miRNA
hsa-mir-101-2/Upstream/4132446; hsa-let-7a-1/Downstream/87291;
Nearest TSS
ENST00000422679/Upstream/19760; ENST00000465677/Downstream/3586;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/1253, chr9-CpG: 79/Downstream/3683
Nearby gene
DNAJA1(+3802) ;
Upstream sequence
gagtaggaagattcgacattttaaatgtgttaattctctccaaactgatatataaaatcactgtaatcacaataaaactcacaatgggatttggggggaa
Downstream sequence
tctgccagaaatattcctaagttcctctggaagaataaacatattaaaaaaaatacaaggaatattctaaaaagcaagaacaatgaagggaagtagtACC
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.
Curate