Basic Information
VIS ID
TVIS44005358
Fusion event
HTLV-1-RNF38 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
p13.2
Reference genome
GRCh37/hg19
Start
36441716/36441719 (Hg38)
End
36441716/36441719 (Hg38)
Orient
-
Location type
Intronic
Target gene
RNF38
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-218-5p ; hsa-mir-7-5p ; hsa-mir-26b-5p ; hsa-mir-1250-3p ; hsa-mir-15a-5p ; hsa-mir-16-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-3613-3p ; hsa-mir-1205 ; hsa-mir-3180-5p ; hsa-mir-142-3p ; hsa-mir-653-5p ; hsa-mir-6077 ; hsa-mir-5585-3p ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-873-5p ; hsa-mir-1827 ; hsa-mir-3166 ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-509-5p ; hsa-mir-509-3-5p ; hsa-mir-4704-5p ; hsa-mir-4418 ; hsa-mir-409-3p ; hsa-mir-6885-3p ; hsa-mir-4477b ; hsa-mir-1178-3p ; hsa-mir-525-5p ; hsa-mir-520a-5p ; hsa-mir-7158-5p ; hsa-mir-616-5p ; hsa-mir-373-5p ; hsa-mir-371b-5p ; hsa-mir-488-5p ; hsa-mir-6816-3p ; hsa-mir-8080 ; hsa-mir-4668-3p ; hsa-mir-130a-5p ; hsa-mir-23b-3p ; hsa-mir-23c ; hsa-mir-23a-3p ; hsa-mir-27b-3p ; hsa-mir-27a-3p
Nearest miRNA
hsa-mir-101-2/Upstream/708724; hsa-let-7a-1/Downstream/381820;
Nearest TSS
ENST00000422679/Upstream/40521; ENST00000489766/Downstream/45829;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/40389, chr9-CpG: 142/Downstream/45391
Nearby gene
RNF38(-40521) ;
Upstream sequence
ccCCAAATCTTTTAAAATACTGATTATAATATAATATCACCTAGGATGGATTTCACCAAACACCACAAAGGTCTAAGATGCGTTCATATACATACTCCTC
Downstream sequence
AATTAAAAACAACAACTTGTGCACCTCTTTCAAAAAGGCTTGCTTTGGGAAGTTAACACTATTGCTCTATGACACCTCAAGTCCATCTAAATTAGCCTGG
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