Basic Information
VIS ID
TVIS44006976
Fusion event
HTLV-1-GLI2 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
q14.2
Reference genome
GRCh37/hg19
Start
121579473/120821898 (Hg38)
End
121579473/120821898 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
GLI2
miRNAs that regulate target gene
hsa-mir-1-3p ; hsa-mir-26b-5p ; hsa-mir-31-5p ; hsa-mir-218-5p ; hsa-mir-574-5p ; hsa-mir-5572 ; hsa-mir-4260 ; hsa-mir-450a-2-3p ; hsa-mir-6855-5p ; hsa-mir-3170 ; hsa-mir-6819-5p ; hsa-mir-6812-5p ; hsa-mir-6737-5p ; hsa-mir-6740-5p ; hsa-mir-6867-5p ; hsa-mir-3650 ; hsa-mir-4455 ; hsa-mir-6747-5p ; hsa-mir-608 ; hsa-mir-4651 ; hsa-mir-4664-5p ; hsa-mir-342-5p ; hsa-mir-4748 ; hsa-mir-4464 ; hsa-mir-466 ; hsa-mir-6793-3p ; hsa-mir-4643 ; hsa-mir-4789-3p ; hsa-mir-95-5p ; hsa-mir-223-5p ; hsa-mir-541-3p ; hsa-mir-654-5p ; hsa-mir-6769a-5p ; hsa-mir-6769b-5p ; hsa-mir-92a-2-5p
Nearest miRNA
hsa-mir-1285-2/Upstream/7100530; hsa-mir-10b/Downstream/6601639;
Nearest TSS
ENST00000437798/Upstream/24553; ENST00000432984/Downstream/45505;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/79896, chr2-CpG: 23/Downstream/45517
Nearest cancer related gene
GLI2(OG, No orient, 0)
Upstream sequence
attttacagatggggatgctgaggctcTTCACCAGGGCCGCCCAGCTGGATGGCAGTGGGGTGGGTCACACCGAGCCTCCTTTCCCCTGGGCTGGGCTGC
Downstream sequence
CACCCGAGGCCCCCACTATGTGTTCCTGTTTGCCTTTGACTCCACGGGGGCCGGGAGAAAGTGGCACTGGGGATGCCACCAGGCTGCTTGTCAACTGGCC
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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