Basic Information
VIS ID
TVIS44012242
Fusion event
HTLV-1-CXCL12 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
chr10
Cytoband
q11.21
Reference genome
GRCh37/hg19
Start
44854281/44358833 (Hg38)
End
44854281/44358833 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10G
Target gene
CXCL12
miRNAs that regulate target gene
hsa-mir-23a-3p ; hsa-mir-31-5p ; hsa-mir-886-3p ; hsa-mir-126-5p ; hsa-mir-126-3p ; hsa-mir-146a-5p ; hsa-mir-7152-3p ; hsa-mir-6891-3p ; hsa-mir-6072 ; hsa-mir-6765-3p ; hsa-mir-1228-3p ; hsa-mir-362-3p ; hsa-mir-329-3p ; hsa-mir-8485 ; hsa-mir-221-3p ; hsa-mir-454-3p ; hsa-mir-137 ; hsa-mir-1-5p ; hsa-mir-1-3p ; hsa-mir-448
Nearest miRNA
hsa-mir-1265/Upstream/1361152; hsa-mir-107/Downstream/805181;
Nearest TSS
ENST00000439456/Upstream/65124; ENST00000460364/Downstream/26210;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/47552, chr10-CpG: 213/Downstream/25433
Nearby gene
CXCL12(-11320) ;
Nearest cancer related gene
CXCL12(TSG, No orient, 0)
Upstream sequence
ATTTTTACTTAGCTCCTGCAGTAAGCTTCTACTGTATCAGGCATGGGTGGGGAACCTAAAAGCTGAGGGAGATGATCTTTTTGCTCCAGAATCTAACACA
Downstream sequence
TTGCTGCCTTTAAAGCACTTTTCAGTTTCCTTAGAGGAAAGAAATTGGTTGGATCCACAATCCTAAATAGTTCAAGACAGTGATAAAGGCTCTCCTCACA
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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