Basic Information
VIS ID
TVIS44012094
Fusion event
HTLV-1-CHIC2 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
chr4
Cytoband
q12
Reference genome
GRCh37/hg19
Start
54921788/54055621 (Hg38)
End
54921788/54055621 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA4B
Target gene
CHIC2
miRNAs that regulate target gene
hsa-mir-197-3p ; hsa-mir-124-3p ; hsa-mir-29c-3p
Nearest miRNA
hsa-mir-12113/Upstream/1342874; hsa-mir-1243/Downstream/6866998;
Nearest TSS
ENST00000502981/Upstream/57909; ENST00000595906/Downstream/3976;
Nearest CpG islands
None/Target, chr4-CpG: 46/Upstream/677391, chr4-CpG: 82/Downstream/8453
Upstream sequence
ttccattttggatattctggattctgagaCATTCCACCTGTACAAATCTATAGATACAGAGAATTTTTATGTTCCTACAGATATGACAAGACCTATGAGC
Downstream sequence
ATATGAACTAGAAATTtcaaactgaacatattggttatgcagatggcacatgaagagagtgcttatttcctaatgttgaactttgagctcaatgaactca
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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