Basic Information
VIS ID
TVIS44012986
Fusion event
HTLV-1-GABARAPL1 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
chr12
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
10369897/10217298 (Hg38)
End
10369897/10217298 (Hg38)
Orient
-
Location type
Intronic
Target gene
GABARAPL1
miRNAs that regulate target gene
hsa-mir-374b-5p ; hsa-mir-335-5p ; hsa-mir-155-5p ; hsa-mir-103a-3p ; hsa-mir-16-5p ; hsa-mir-15a-5p ; hsa-mir-15b-5p ; hsa-mir-195-5p ; hsa-mir-424-5p ; hsa-mir-497-5p ; hsa-mir-545-3p ; hsa-mir-939-3p ; hsa-mir-548p ; hsa-mir-4292 ; hsa-mir-3613-3p ; hsa-mir-6791-5p ; hsa-mir-6828-5p ; hsa-mir-6838-5p ; hsa-mir-6877-5p ; hsa-mir-7113-3p ; hsa-mir-143-3p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-8085 ; hsa-mir-6731-5p ; hsa-mir-6878-5p ; hsa-mir-4772-5p ; hsa-mir-6798-5p ; hsa-mir-4524a-3p ; hsa-mir-9500 ; hsa-mir-383-5p ; hsa-mir-595 ; hsa-mir-6781-5p ; hsa-mir-629-3p ; hsa-mir-6867-3p ; hsa-mir-4713-5p ; hsa-mir-4685-3p ; hsa-mir-4287 ; hsa-mir-4469 ; hsa-mir-4308
Nearest miRNA
hsa-mir-1244-3/Upstream/977747; hsa-let-7i/Downstream/1894654;
Nearest TSS
ENST00000382841/Upstream/2537; ENST00000538997/Downstream/8760;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/3832, chr12-CpG: 39/Downstream/396058
Upstream sequence
TATCTATAAATGGCTTGTTGTGCTGACATCATATTATAGGATATCATTGTCAGACTTGTTTTAACACTGTTTCTTTTCCATTTAATAATGTTTGAACAAT
Downstream sequence
CTTTACAGTTCTTGGAAATTTTGACAAAGATTTAAACCACGTTATTGGTACCTTTAATAAATGGTATTTATGAGAAATAATAACTTACAGGTGATCAGGA
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