Basic Information
VIS ID
TVIS44009359
Fusion event
HTLV-1-NCK2 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
q12.2
Reference genome
GRCh37/hg19
Start
106374737/105758280 (Hg38)
End
106374737/105758280 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA2S
Target gene
NCK2
miRNAs that regulate target gene
hsa-mir-128-3p ; hsa-mir-877-3p ; hsa-mir-337-5p ; hsa-mir-495-3p ; hsa-mir-505-3p ; hsa-mir-3065-5p ; hsa-mir-4742-3p ; hsa-mir-3591-5p ; hsa-mir-5688 ; hsa-mir-7159-5p ; hsa-mir-190a-3p ; hsa-mir-1277-5p ; hsa-mir-5011-5p ; hsa-mir-5692c ; hsa-mir-5692b ; hsa-mir-548v ; hsa-mir-452-3p ; hsa-mir-496 ; hsa-mir-5683 ; hsa-mir-142-3p ; hsa-mir-574-5p ; hsa-mir-6867-5p ; hsa-mir-648 ; hsa-mir-4436a ; hsa-mir-4700-3p ; hsa-mir-5000-3p ; hsa-mir-505-5p ; hsa-mir-6827-5p
Nearest miRNA
hsa-mir-1285-2/Upstream/3325914; hsa-mir-10b/Downstream/3383210;
Nearest TSS
ENST00000437798/Upstream/12549; ENST00000425756/Downstream/58278;
Nearest CpG islands
None/Target, chr2-CpG: 135/Upstream/12519, chr2-CpG: 78/Downstream/123051
Upstream sequence
TTATTTTTTTTTAATTGATAATGGCATAAAGCCATTATGCCATCACATTTGATATAGAGATGTAAGTAATTGAATCACATTACTTCTCTTGGATTAGTAA
Downstream sequence
TGAATATTGCACATCAATCCTGTGCACACATTTTACAGGTTTGTTTTATCCTATTGATGGTTTCATTTGAACTGTGTTTGGAAATTTAGTTTATTTCTTA
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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