Basic Information
VIS ID
TVIS44008334
Fusion event
HTLV-1-GCFC2 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
chr2
Cytoband
p12
Reference genome
GRCh37/hg19
Start
75911835/75684709 (Hg38)
End
75911835/75684709 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
GCFC2
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-155-5p ; hsa-mir-10a-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-1273e ; hsa-mir-6807-5p ; hsa-mir-6778-5p ; hsa-mir-1233-5p ; 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-2467-3p ; hsa-mir-6894-5p ; hsa-mir-1233-3p ; hsa-mir-1225-3p ; hsa-mir-605-3p ; hsa-mir-6511a-5p ; hsa-mir-1910-3p ; hsa-mir-3714 ; hsa-mir-1252-5p ; hsa-mir-150-3p ; hsa-mir-4762-3p ; hsa-mir-514a-3p ; hsa-mir-514b-3p ; hsa-mir-532-5p ; hsa-mir-5589-3p ; hsa-mir-5683
Nearest miRNA
hsa-mir-1285-2/Upstream/593795; hsa-mir-10b/Downstream/3964585;
Nearest TSS
ENST00000437798/Upstream/14495; ENST00000604464/Downstream/3183;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/37415, chr2-CpG: 64/Downstream/25822
Upstream sequence
ctgtaaactagttcaaccattgtggaagacagtgtggcgactgctcaaggatctagaactagaaataccatttaacccagccatgctattactgagtata
Downstream sequence
tacccaaaggattataaattcatgctgctataaagacacatgcacatgtatgtttattgtggcactattcacaatagcaaagacttggaaccaacccaaa
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