Basic Information
VIS ID
TVIS44014244
Fusion event
HTLV-1-CHD9 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
chr16
Cytoband
q12.2
Reference genome
GRCh37/hg19
Start
53356528/53322616 (Hg38)
End
53356528/53322616 (Hg38)
Orient
+
Location type
Intronic
Target gene
CHD9
miRNAs that regulate target gene
hsa-mir-210-3p ; hsa-mir-155-5p ; hsa-mir-7-5p ; hsa-mir-26b-5p ; hsa-let-7e-5p ; hsa-mir-17-5p ; hsa-mir-19a-3p ; hsa-mir-19b-3p ; hsa-mir-20a-5p ; hsa-mir-93-5p ; hsa-mir-106b-5p ; hsa-mir-20b-5p ; hsa-mir-519d-3p ; hsa-mir-22-3p ; hsa-mir-181a-5p ; hsa-mir-181b-5p ; hsa-mir-181c-5p ; hsa-mir-376a-5p ; hsa-mir-181d-5p ; hsa-mir-376a-2-5p ; hsa-mir-944 ; hsa-mir-664a-3p ; hsa-mir-2052 ; hsa-mir-1193 ; hsa-mir-4262 ; hsa-mir-3607-3p ; hsa-mir-3668 ; hsa-mir-3686 ; hsa-mir-3935 ; hsa-mir-4663 ; hsa-mir-4682 ; hsa-mir-8077 ; hsa-mir-433-3p ; hsa-mir-7154-5p ; hsa-mir-34b-3p ; hsa-mir-6809-3p ; hsa-mir-6833-3p ; hsa-mir-4768-5p ; hsa-mir-6873-3p ; hsa-mir-6794-3p ; hsa-mir-627-3p ; hsa-mir-4639-3p ; hsa-mir-342-3p ; hsa-mir-548c-3p ; hsa-mir-3163 ; hsa-mir-628-5p ; hsa-mir-7641 ; hsa-mir-3171 ; hsa-mir-139-5p
Nearest miRNA
hsa-mir-1225/Upstream/2580239; hsa-mir-11401/Downstream/2922904;
Nearest TSS
ENST00000527434/Upstream/7749; ENST00000566383/Downstream/50877;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/190690, chr16-CpG: 37/Downstream/50799
Upstream sequence
aggaggcagaggttgcagtgagccaagatcgcaccactgcactccagcctgggcaacagaggcaagactccatctcaaaaaaaaaaaaaaCATATCTTAG
Downstream sequence
AAGAACATCTAAAGGGAGAGAAAGTTCACAGTATATTAAAATCAGTAGTATTTAAGCTCTTGGGATAGTAAAGCCTACACGTATGCTAATGGTGAATAAT
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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