Basic Information
VIS ID
TVIS44015263
Fusion event
HTLV-1-CCDC88A 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
chr2
Cytoband
p16.1
Reference genome
GRCh37/hg19
Start
55566223/55339087 (Hg38)
End
55566223/55339087 (Hg38)
Orient
-
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
CCDC88A
miRNAs that regulate target gene
hsa-mir-375 ; hsa-mir-4448 ; hsa-mir-8085 ; hsa-mir-4644 ; hsa-mir-6731-5p ; hsa-mir-4306 ; hsa-mir-185-5p ; hsa-mir-6133 ; hsa-mir-6130 ; hsa-mir-6129 ; hsa-mir-6127 ; hsa-mir-4510 ; hsa-mir-4419a ; hsa-mir-6760-5p ; hsa-mir-6873-5p ; hsa-mir-583 ; hsa-mir-4311 ; hsa-mir-101-5p
Nearest miRNA
hsa-mir-1301/Upstream/1489882; hsa-mir-10b/Downstream/643880;
Nearest TSS
ENST00000437798/Upstream/1406; ENST00000403007/Downstream/4601;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/56503, chr2-CpG: 54/Downstream/80398
Upstream sequence
gctctatggcccagactggagtgcagtggcgtgatctcagctcacttcaacctccacctcccgggttcgagagagattctcctgcctcatcctcccgagt
Downstream sequence
agctgggatcaccggcgcccacaaccacacccggctaatttttgtacttttagtggagacagggtttcaccatgttggctaggctggtcacaaactcccg
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.
Curate