Gene basic information

symbol KCNQ1OT1
name KCNQ1 opposite strand/antisense transcript 1 (non-protein coding)
location 11p15.5
alias_symbol KvDMR1|KCNQ1-AS2|KvLQT1-AS|LIT1|NCRNA00012
alias_name non-protein coding RNA 12|KCNQ1 antisense RNA 2 (non-protein coding)|KCNQ1 overlapping transcript 1 (non-protein coding)
Cancerhepatic cancer,


By thoroughly analyzing 510 hepatocellular carcinoma (HCC) cases and 1014 healthy controls in a Chinese population, the study identifies a novel short tandem repeat (STR) polymorphism (rs35622507) within the KCNQ1OT1 coding region and evaluates its association with HCC susceptibility. Logistic regression analysis shows that, compared with individuals carrying the homozygote 10–10 genotype, those heterozygote subjects who carry only one allele 10 have a significantly decreased risk of HCC, with the risk decreases even further in those without allele 10. Furthermore, genotype–phenotype correlation studies using four hepatoma cell lines support a significant association between STR genotypes and the expression of KCNQ1OT1. Cell lines without allele 10 confer a higher expression of KCNQ1OT1. Meanwhile, KCNQ1OT1 expression is reversely correlated with the expression of the cyclin-dependent kinase inhibitor 1C (CDKN1C), a tumor suppressor gene located within the CDKN1C/KCNQ1OT1 imprinted region, in three hepatoma cell lines. Finally, in-silico prediction suggests that different alleles could alter the local structure of KCNQ1OT1 (1).

Cancer related information

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LncRNA tissue cancer type expression level oncogene/suppress gene pathway binding gene/factor associated gene/factor proliferation apoptosis migration EMT invasion metastasis prognosis tag PMID
0 KCNQ1OT1 liver hepatic cancer / / CDKN1C- SNP 23984860

Expression profile

adipose adrenal brain breast colon heart kidney leukocyte liver lung lymph node ovary prostate skeletal muscle testis thyroid tissue 0.0 0.2 0.4 0.6 0.8 fpkm 0.3 0.8 0.7 0.4 0.2 0.3 0.6 0.1 0.2 0.2 0.3 0.9 0.3 0.0 0.5 0.4 KCNQ1OT1

Expression profile in human body map

Genomic feature visualization


External link


[1]. Wan J, Huang M, Zhao H, Wang C, Zhao X, et al. (2013). A novel tetranucleotide repeat polymorphism within KCNQ1OT1 confers risk for hepatocellular carcinoma. DNA Cell Biol 32(11): 628-34. link pubmed

© Bioinformatics Group of XTBG