Basic Information
VIS ID
TVIS44012254
Fusion event
HTLV-1-chr12 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
chr12
Cytoband
q13.13
Reference genome
GRCh37/hg19
Start
54549057/54155273 (Hg38)
End
54549057/54155273 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA12A
Target gene
LOC102724030 ; SMUG1
miRNAs that regulate target gene
hsa-mir-98-5p ; hsa-mir-766-3p ; hsa-mir-320a ; hsa-mir-4713-5p ; hsa-mir-8078 ; hsa-mir-4427 ; hsa-mir-2116-3p ; hsa-mir-532-3p ; hsa-mir-150-5p ; hsa-mir-6787-3p ; hsa-mir-1207-3p ; hsa-mir-4639-3p ; hsa-mir-5590-3p ; hsa-mir-142-5p ; hsa-mir-4761-3p ; hsa-mir-7843-5p ; hsa-mir-6879-5p ; hsa-mir-6735-5p ; hsa-mir-4632-5p ; hsa-mir-4436b-3p ; hsa-mir-3184-3p ; hsa-mir-6507-3p ; hsa-mir-6079 ; hsa-mir-3190-3p ; hsa-mir-671-5p ; hsa-mir-6828-5p ; hsa-mir-6845-3p ; hsa-mir-7110-3p ; hsa-mir-451b
Nearest miRNA
hsa-mir-1244-3/Upstream/121228; hsa-let-7i/Downstream/76124;
Nearest TSS
ENST00000382841/Upstream/8048; ENST00000504210/Downstream/7866;
Nearest CpG islands
None/Target, chr12-CpG: 104/Upstream/28600, chr12-CpG: 41/Downstream/62538
Nearby gene
LINC02381(+22431) ;
Upstream sequence
CCTTCTTCCCTAGGAGAAAGGGCTAAATTTTGCTAGACCTCCCAGCTGCTCCAAGGAGGGGAAAAGTCACCAACTCCACCTCCTTCCAAAGTTCATGTGG
Downstream sequence
TTTCCCCCCTCGATTTTCCCACAGTCCTTCCCCTCTTCCCTCCAGAGCTCTAGGCTGAGTGGCATCAGTGGGAACAAACCTCTCACACTGTAAACAGAGC
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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