Basic Information
VIS ID
TVIS44007650
Fusion event
HTLV-1-NIPBL 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
chr5
Cytoband
p13.2
Reference genome
GRCh37/hg19
Start
37038960/37038858 (Hg38)
End
37038960/37038858 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA5A
Target gene
NIPBL
miRNAs that regulate target gene
hsa-mir-210-3p ; hsa-mir-421 ; hsa-mir-21-5p ; hsa-let-7b-5p ; hsa-mir-18a-3p ; hsa-mir-30b-5p ; hsa-mir-183-5p ; hsa-let-7a-5p ; hsa-mir-136-5p ; hsa-mir-369-3p ; hsa-mir-4738-5p ; hsa-mir-3936 ; hsa-let-7c-3p ; hsa-mir-6842-3p ; hsa-mir-647 ; hsa-mir-6762-3p ; hsa-mir-4666b ; hsa-mir-604 ; hsa-mir-664a-3p ; hsa-mir-4760-3p
Nearest miRNA
hsa-mir-10397/Upstream/890870; hsa-mir-103a-1/Downstream/1518644;
Nearest TSS
ENST00000502646/Upstream/43108; ENST00000513819/Downstream/12085;
Nearest CpG islands
None/Target, chr5-CpG: 87/Upstream/161300, chr5-CpG: 28/Downstream/170112
Upstream sequence
TTCTTGTATCTTACATAAAACATTAAGTGCTTTAAATTTAGAGTTCACATGCGTCAACCACATTCTCACTGACAGATCAACTGTGTCATTTACTTAGATA
Downstream sequence
TATGTACTATTTGTAGCAAGTGATCTATAAACATCAAGTCTGACATAAATAAAGTTCAGGTTCCATTTTGCTGTAAACTCCtcaagccaaaccctcagta
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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