Basic Information
VIS ID
TVIS44010531
Fusion event
HTLV-1-GALNT2 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
chr1
Cytoband
q42.13
Reference genome
GRCh37/hg19
Start
230343271/230207525 (Hg38)
End
230343271/230207525 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA1H
Target gene
GALNT2
miRNAs that regulate target gene
hsa-mir-7-5p ; hsa-mir-98-5p ; hsa-let-7b-5p ; hsa-mir-1226-3p ; hsa-mir-99b-3p ; hsa-mir-7855-5p ; hsa-mir-6515-5p ; hsa-mir-4443 ; hsa-mir-6514-3p ; hsa-mir-7977 ; hsa-mir-550a-5p ; hsa-mir-550a-3-5p ; hsa-mir-1271-3p ; hsa-mir-4710 ; hsa-mir-4792 ; hsa-mir-650 ; hsa-mir-3612 ; hsa-mir-6811-3p ; hsa-mir-214-5p ; hsa-mir-1909-5p ; hsa-mir-432-5p ; hsa-mir-5690 ; hsa-mir-519e-3p ; hsa-mir-515-3p ; hsa-mir-33b-3p ; hsa-mir-6813-3p ; hsa-mir-3200-3p ; hsa-mir-6884-5p ; hsa-mir-485-5p
Nearest miRNA
hsa-mir-101-1/Upstream/1745373; hsa-mir-1182/Downstream/812303;
Nearest TSS
ENST00000473358/Upstream/140266; ENST00000492568/Downstream/47833;
Nearest CpG islands
None/Target, chr1-CpG: 111/Upstream/139063, chr1-CpG: 24/Downstream/72071
Upstream sequence
CTCTGGGCTATGCTTTATTTACCTTTCTAGATGTATATATTGTACCAAGAAGAAATATTTACATGGAATCAGGAAGCACACAAAAGCCAGCTGTGAGTGA
Downstream sequence
AATACTAAATACTATGTATAAGATATATTAGGTCCTCTTAGATATTAGAAAGATGATAGCCCATCTTAttttttttttcttttctttctgcaaggtctca
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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