Basic Information
VIS ID
TVIS44006241
Fusion event
HTLV-1-SYNJ2 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
chr6
Cytoband
q25.3
Reference genome
GRCh37/hg19
Start
158406540/157985508 (Hg38)
End
158406540/157985508 (Hg38)
Orient
-
Location type
Intronic
Target gene
SYNJ2
miRNAs that regulate target gene
hsa-mir-1301-3p ; hsa-mir-324-3p ; hsa-mir-382-5p ; hsa-mir-127-5p ; hsa-mir-6513-5p ; hsa-mir-887-5p ; hsa-mir-3913-5p ; hsa-mir-3122 ; hsa-mir-450a-1-3p ; hsa-mir-6780a-5p ; hsa-mir-6779-5p ; hsa-mir-3689c ; hsa-mir-3689b-3p ; hsa-mir-3689a-3p ; hsa-mir-30b-3p ; hsa-mir-1273h-5p ; hsa-mir-6788-5p ; hsa-mir-30c-2-3p ; hsa-mir-30c-1-3p ; hsa-mir-7977 ; hsa-mir-891a-3p ; hsa-mir-3688-5p ; hsa-mir-6799-5p ; hsa-mir-6883-5p ; hsa-mir-6785-5p ; hsa-mir-4728-5p ; hsa-mir-149-3p ; hsa-mir-7106-5p ; hsa-mir-7974 ; hsa-mir-6884-5p ; hsa-mir-485-5p ; hsa-mir-383-3p ; hsa-mir-6514-3p ; hsa-mir-6722-5p ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-2467-3p
Nearest miRNA
hsa-mir-10398/Upstream/456308; hsa-mir-1913/Downstream/624199;
Nearest TSS
ENST00000381078/Upstream/3470; ENST00000640569/Downstream/31540;
Nearest CpG islands
None/Target, chr6-CpG: 120/Upstream/3096, chr6-CpG: 29/Downstream/101179
Upstream sequence
CCAGAGGCAGAAAAGCCAAATGTATTGGCACTGATTTAAAAGGCTTTTATGAAGTCTCGGGAACCTGACTGGAGGGTAGTTGGCCTTCTCAGCACAGGTG
Downstream sequence
GGAAGCCCCGTAGCCGGTACCAGCATCCCTGGCCAACAATCCACAATTAGCAAACAGATGTTCCCTTATTTGCACATGGGACAAAAACCTACTCCTGTCT
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