Basic Information
VIS ID
TVIS44006410
Fusion event
HTLV-1-LINGO2 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
28441946/28441948 (Hg38)
End
28441946/28441948 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA9C
Target gene
LINGO2
miRNAs that regulate target gene
hsa-mir-587 ; hsa-mir-7162-5p ; hsa-mir-516b-3p ; hsa-mir-516a-3p ; hsa-mir-2115-5p ; hsa-mir-1976 ; hsa-mir-6893-3p ; hsa-mir-370-3p ; hsa-mir-660-3p ; hsa-mir-5193
Nearest miRNA
hsa-mir-101-2/Upstream/6929763; hsa-let-7a-1/Downstream/421678;
Nearest TSS
ENST00000422679/Upstream/146617; ENST00000541043/Downstream/228337;
Nearest CpG islands
None/Target, chr9-CpG: 64/Upstream/867959, chr9-CpG: 74/Downstream/770225
Upstream sequence
GCTGTAAAAATTATACTTTGATAACTTATTGTGTTTAAGATTGTTAGTTGTCTCTGACTTCACTGAACTAAGATACTCCCTAACTTCACCCACTGTTTTC
Downstream sequence
TATTGTACATGCTCTTCAAAATGTATATCGATTCAATCTTTTTATTATTATATTTTAGAAAACTTTTCTGCCAAGGGCAGTGTATTTGCAACGTATATTT
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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