Basic Information
VIS ID
TVIS44013005
Fusion event
HTLV-1-SNX29 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
p13.12
Reference genome
GRCh37/hg19
Start
12630348/12536491 (Hg38)
End
12630348/12536491 (Hg38)
Orient
-
Location type
Intronic
Target gene
SNX29
miRNAs that regulate target gene
hsa-mir-335-5p ; hsa-mir-7-5p ; hsa-mir-6811-5p ; hsa-mir-6511b-5p ; hsa-mir-377-3p ; hsa-mir-6077 ; hsa-mir-4722-5p ; hsa-mir-1286 ; hsa-mir-873-5p ; hsa-mir-6128 ; hsa-mir-216b-3p
Nearest miRNA
hsa-mir-1225/Upstream/1229964; hsa-mir-11401/Downstream/183830;
Nearest TSS
ENST00000527434/Upstream/163909; ENST00000615100/Downstream/21203;
Nearest CpG islands
None/Target, chr16-CpG: 29/Upstream/274359, chr16-CpG: 24/Downstream/32014
Upstream sequence
AGGTACAAgcagaatggcctcatcagtaaggagggcggcagttgtgcaggcttgggtttgactcaaggctatgccgtttactttatcagtgatcctggat
Downstream sequence
tagaacctttagggacttcatgcctctattttcccctctgtaaaatgggactaattatagcccctacctcagaaagttgCAGAGTTCACACCTAGCACAG
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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