Basic Information
VIS ID
TVIS44012464
Fusion event
HTLV-1-SAMD4A 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
chr14
Cytoband
q22.2
Reference genome
GRCh37/hg19
Start
55036471/54569753 (Hg38)
End
55036471/54569753 (Hg38)
Orient
-
Location type
Intronic
Target gene
SAMD4A
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-548an ; hsa-mir-4673 ; hsa-mir-4645-5p ; hsa-mir-6715b-5p ; hsa-mir-4269 ; hsa-mir-1911-3p ; hsa-mir-8485 ; hsa-mir-377-3p ; hsa-mir-1305 ; hsa-mir-6505-3p ; hsa-mir-617 ; hsa-mir-345-5p ; hsa-mir-4680-3p ; hsa-mir-5187-3p ; hsa-mir-4427 ; hsa-mir-301b-5p ; hsa-mir-301a-5p ; hsa-mir-4714-5p ; hsa-mir-556-3p ; hsa-mir-3140-3p ; hsa-mir-124-3p ; hsa-mir-6071 ; hsa-mir-6828-3p ; hsa-mir-6852-3p ; hsa-mir-3909 ; hsa-mir-4726-5p ; hsa-mir-4640-5p ; hsa-mir-6815-3p ; hsa-mir-6876-3p ; hsa-mir-626 ; hsa-mir-3692-5p ; hsa-mir-93-3p ; hsa-mir-6764-5p ; hsa-mir-1915-3p ; hsa-mir-6837-5p ; hsa-mir-4685-5p ; hsa-mir-3918 ; hsa-mir-3158-3p ; hsa-mir-6895-5p ; hsa-mir-379-3p ; hsa-mir-411-3p ; hsa-mir-6870-3p
Nearest miRNA
hsa-mir-208a/Upstream/621269; hsa-mir-1185-1/Downstream/308360;
Nearest TSS
ENST00000550708/Upstream/2121; ENST00000554587/Downstream/82930;
Nearest CpG islands
None/Target, chr14-CpG: 35/Upstream/1641, chr14-CpG: 143/Downstream/332076
Upstream sequence
TCAGCGGGAAGCCTGGTTTACCTGCTCGGTTTTACTTTCTCAGGTTTGACAAACAAGGTTATATAAACTTTTGCATTTTATAGATTGCAGAGGATTTACG
Downstream sequence
CAGAGTCATTTAGGTTGAATGCTTGATTTCAGTGCTGGTAGGGACTGTTCAAACTCATCTTTAGGTTATTCAAATGTTGGAGCAGCACTTTTTCCCTTTG
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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