LncRNA Information
ID EL0629 Name Kcnq1ot1 Aliases Kvlqt1-as; Lit1; Tssc8
Species Mus musculus Chromosome 7 Start site 143212155
End site 143296549 Chain minus Exon NO. 1
Assembly Ensembl Release 89 Class antisense NCBI accession NR_001461
Ensembl ENSMUSG00000101609 Sequence


Function (not disease relevant)
Methods Sample/condition Expression pattern Dysfunction type Description PMID Source
N/A a knockout mouse with a deletion encompassing an 890-bp silencing domain (Delta890) downstream of the Kcnq1ot1 promoter N/A N/A Kcnq1ot1 RNA might mediate the silencing of ubiquitously imprinted genes by maintaining allele-specific methylation through its interactions with Dnmt1 20573698
N/A N/A N/A N/A silence mulitple genes 21345374
N/A an embryonic stem (ES) cell N/A N/A t Kcnq1ot1 silencing extends nearly 300 kb further than previously reported and led us to examine other transcripts between IC1 and IC2 21576366
RNA/DNA FISH mouse embryo and placenta N/A epigenetics The paternally expressed long noncoding RNA (ncRNA) Kcnq1ot1 regulates epigenetic gene silencing in an imprinted gene cluster in cis over a distance of 400 kb in the mouse embryo, whereas the silenced region extends over 780 kb in the placenta. Gene silencing by the Kcnq1ot1 RNA involves repressive histone modifications, including H3K9me2 and H3K27me3, which are partly brought about by the G9a and Ezh2 histone methyltransferases. 19144718
 


Interaction
Interaction target Level of interaction Type of interaction Description PMID Source
G9a RNA-Protein binding Kcnq1ot1 interacts with chromatin and with the H3K9- and H3K27-specific histone methyltransferases G9a and the PRC2 complex in a lineage-specific manner. 18951091 LncRNADisease
PRC2 RNA-Protein binding Kcnq1ot1 interacts with chromatin and with the H3K9- and H3K27-specific histone methyltransferases G9a and the PRC2 complex in a lineage-specific manner. 18951091 LncRNADisease
H3K9me2 and H3K27me3 RNA-Protein regulation Gene silencing by the Kcnq1ot1 RNA involves repressive histone modifications, including H3K9me2 and H3K27me3, which are partly brought about by the G9a and Ezh2 histone methyltransferases. 19144718
G9a RNA-Protein binding The Kcnq1ot1 RNA also binds to the histone methyltransferase G9a. 19239885 LncRNADisease
G9a RNA-Protein binding The Kcnq1ot1 transcript that binds both G9a and PRC2. 19571010 LncRNADisease
PRC2 RNA-Protein binding The Kcnq1ot1 transcript that binds both G9a and PRC2. 19571010 LncRNADisease
PRC2 RNA-Protein binding PRC2 recruitment to the domain requires expression of the long ncRNA Kcnq1ot1. 19760321 LncRNADisease
Dnmt1 RNA-Protein binding Kcnq1ot1 mediates transcriptional gene silencing by interacting with Dnmt1. Kcnq1ot1 recruits Dnmt1 to somatic DMRs by interacting with Dnmt1. 20573698 LncRNADisease
Dnmt1 RNA-DNA binding Kcnq1ot1 recruits Dnmt1 to somatic DMRs by interacting with Dnmt1 20573698
Kcnq1 RNA-DNA regulation Epigenetically silences the Kcnq1 imprinting control region by recruiting repressive chromatin remodelling complexes such as G9a, PRC1 and PRC2, and the DNA methylase Dnmt1. 21256239 LncRNADisease
Kcnq1 RNA-DNA regulation Epigenetically silences the Kcnq1 imprinting control region by recruiting repressive chromatin remodelling complexes such as G9a, PRC1 and PRC2, and the DNA methylase Dnmt1. 21256239 LncRNADisease
Dnmt1 RNA-Protein binding Epigenetically silences the Kcnq1 imprinting control region by recruiting repressive chromatin remodelling complexes such as G9a, PRC1 and PRC2, and the DNA methylase Dnmt1. 21256239 LncRNADisease
Dnmt1 RNA-Protein binding Epigenetically silences the Kcnq1 imprinting control region by recruiting repressive chromatin remodelling complexes such as G9a, PRC1 and PRC2, and the DNA methylase Dnmt1. 21256239 LncRNADisease
G9a RNA-Protein binding Epigenetically silences the Kcnq1 imprinting control region by recruiting repressive chromatin remodelling complexes such as G9a, PRC1 and PRC2, and the DNA methylase Dnmt1. 21256239 LncRNADisease
G9a RNA-Protein binding Epigenetically silences the Kcnq1 imprinting control region by recruiting repressive chromatin remodelling complexes such as G9a, PRC1 and PRC2, and the DNA methylase Dnmt1. 21256239 LncRNADisease
PRC1 RNA-Protein binding Epigenetically silences the Kcnq1 imprinting control region by recruiting repressive chromatin remodelling complexes such as G9a, PRC1 and PRC2, and the DNA methylase Dnmt1. 21256239 LncRNADisease
PRC1 RNA-Protein binding Epigenetically silences the Kcnq1 imprinting control region by recruiting repressive chromatin remodelling complexes such as G9a, PRC1 and PRC2, and the DNA methylase Dnmt1. 21256239 LncRNADisease
PRC2 RNA-Protein binding Epigenetically silences the Kcnq1 imprinting control region by recruiting repressive chromatin remodelling complexes such as G9a, PRC1 and PRC2, and the DNA methylase Dnmt1. 21256239 LncRNADisease
PRC2 RNA-Protein binding Epigenetically silences the Kcnq1 imprinting control region by recruiting repressive chromatin remodelling complexes such as G9a, PRC1 and PRC2, and the DNA methylase Dnmt1. 21256239 LncRNADisease
G9a RNA-Protein binding Kcnq1ot1 interacts with the histone methyltransferases G9a and PRC2, effectively forming a repression domain in cis to its transcription site through recruitment of polycomb complexes. 21925379 LncRNADisease
PRC2 RNA-Protein binding Kcnq1ot1 interacts with the histone methyltransferases G9a and PRC2, effectively forming a repression domain in cis to its transcription site through recruitment of polycomb complexes. 21925379 LncRNADisease
EZH2 RNA-Protein binding HOTAIR, Kcnq1ot and Xist all mediate their effects by interacting with the Polycomb-repressive complex 2 (PRC2) component Ezh2 (enhancer of zeste homolog 2 (Drosophila)) and modulating histone methylation. 21936910 LncRNADisease
Kcnq DNA-DNA regulation Kcnq1ot is important for silencing of the Kcnq locus resulting from parental imprinting. 21936910 LncRNADisease