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LCOR ligand dependent nuclear receptor corepressor [ Homo sapiens (human) ]

Gene ID: 84458, updated on 5-Mar-2024

Summary

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Official Symbol
LCORprovided by HGNC
Official Full Name
ligand dependent nuclear receptor corepressorprovided by HGNC
Primary source
HGNC:HGNC:29503
See related
Ensembl:ENSG00000196233 MIM:607698; AllianceGenome:HGNC:29503
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
MLR2; C10orf12
Summary
LCOR is a transcriptional corepressor widely expressed in fetal and adult tissues that is recruited to agonist-bound nuclear receptors through a single LxxLL motif, also referred to as a nuclear receptor (NR) box (Fernandes et al., 2003 [PubMed 12535528]).[supplied by OMIM, Mar 2008]
Expression
Ubiquitous expression in bone marrow (RPKM 8.1), duodenum (RPKM 5.4) and 25 other tissues See more
Orthologs
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Genomic context

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See LCOR in Genome Data Viewer
Location:
10q24.1
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (96832298..96995956)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (97713211..97876841)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (98592055..98755713)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2660 Neighboring gene ribosomal protein L13a pseudogene 5 Neighboring gene uncharacterized LOC102723665 Neighboring gene CRISPRi-validated cis-regulatory element chr10.3525 Neighboring gene H3K27ac hESC enhancers GRCh37_chr10:98591864-98592578 and GRCh37_chr10:98592579-98593294 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr10:98593295-98594008 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98597029-98597529 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98599567-98600066 Neighboring gene Sharpr-MPRA regulatory region 4280 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98602601-98603100 Neighboring gene microRNA 607 Neighboring gene high mobility group nucleosomal binding domain 2 pseudogene 35 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:98744001-98744502 Neighboring gene H3K27ac hESC enhancer GRCh37_chr10:98744503-98745002 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98761702-98762390 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98780664-98781497 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98790940-98791510 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98791511-98792081 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:98794025-98794781 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98797839-98798339 Neighboring gene slit guidance ligand 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2666 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr10:98829552-98830751 Neighboring gene Sharpr-MPRA regulatory region 3512 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr10:98839846-98840622 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98850461-98851078 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98860158-98861022 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98861023-98861885 Neighboring gene SLIT1 antisense RNA 1 Neighboring gene MPRA-validated peak1061 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98890534-98891034 Neighboring gene ARHGAP19-SLIT1 readthrough (NMD candidate) Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98900602-98901342 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3845 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3844 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:98922776-98923310 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:98923311-98923844 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98923845-98924378 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98945560-98946060 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:98946061-98946561 Neighboring gene uncharacterized LOC112268065 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2667 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 3846 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 2668 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr10:98962904-98963503

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

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Related articles in PubMed

  1. C10ORF12 modulates PRC2 histone methyltransferase activity and H3K27me3 levels. Shi Y, et al. Acta Pharmacol Sin, 2019 Nov. PMID 31186533, Free PMC Article
  2. Corepressor recruitment by agonist-bound nuclear receptors. White JH, et al. Vitam Horm, 2004. PMID 15193453
  3. The Expression of NRIP1 and LCOR in Endometrioid Endometrial Cancer. Flindris S, et al. In Vivo, 2021 Sep-Oct. PMID 34410950, Free PMC Article
  4. Regulation of LCoR and RIP140 expression in cervical intraepithelial neoplasia and correlation with CIN progression and dedifferentiation. Vogelsang TLR, et al. J Cancer Res Clin Oncol, 2020 Jul. PMID 32157438, Free PMC Article
  5. Complex regulation of LCoR signaling in breast cancer cells. Jalaguier S, et al. Oncogene, 2017 Aug 17. PMID 28414308, Free PMC Article

See all (65) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The Expression of NRIP1 and LCOR in Endometrioid Endometrial Cancer.
    Title: The Expression of NRIP1 and LCOR in Endometrioid Endometrial Cancer.
  2. A decrease of nuclear LCoR expression in line with an increase of dedifferentiation of CIN can be observed. Nuclear LCoR overexpression correlates with CIN II progression indicating a prognostic value of LCoR in cervical intraepithelial neoplasia
    Title: Regulation of LCoR and RIP140 expression in cervical intraepithelial neoplasia and correlation with CIN progression and dedifferentiation.
  3. C10ORF12 protein functions as a positive regulator of PRC2 and facilitates PRC2-mediated H3K27me3 modification of chromatin.
    Title: C10ORF12 modulates PRC2 histone methyltransferase activity and H3K27me3 levels.
  4. Taken together, these results provide new insights into the mechanism of action of LCoR and RIP140 and highlight their strong interplay for the control of gene expression and cell proliferation in breast cancer cells.
    Title: Complex regulation of LCoR signaling in breast cancer cells.
  5. miR-199a promotes stem cell properties in mammary stem cells and breast cancer stem cells by directly repressing nuclear receptor corepressor LCOR, which primes interferon responses.
    Title: Normal and cancerous mammary stem cells evade interferon-induced constraint through the miR-199a-LCOR axis.
  6. LCoR recruitment by KLF6 regulates expression of the cyclin-dependent kinase inhibitor CDKN1A gene.
    Title: Ligand-dependent corepressor (LCoR) recruitment by Kruppel-like factor 6 (KLF6) regulates expression of the cyclin-dependent kinase inhibitor CDKN1A gene.
  7. Ligand-dependent corepressor acts as a novel androgen receptor corepressor, inhibits prostate cancer growth, and is functionally inactivated by the Src protein kinase.
    Title: Ligand-dependent corepressor acts as a novel androgen receptor corepressor, inhibits prostate cancer growth, and is functionally inactivated by the Src protein kinase.
  8. These results showed that the presence of miR-615-3p repressed the expression of LCoR, a derepressor of peroxisome proliferator-activated receptor gamma (PPARgamma).
    Title: miR-615-3p promotes the phagocytic capacity of splenic macrophages by targeting ligand-dependent nuclear receptor corepressor in cirrhosis-related portal hypertension.
  9. Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
    Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
  10. role for LCoR and CtBP1 as attenuators of progesterone-regulated transcription, but LCoR and CtBP1 can act to enhance transcription of some genes
    Title: Ligand-dependent corepressor LCoR is an attenuator of progesterone-regulated gene expression.
Submit: New GeneRIF Correction See all GeneRIFs (12)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
The CCND1 c.870G>A polymorphism is a risk factor for t(11;14)(q13;q32) multiple myeloma.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ13022, FLJ38026, FLJ44938, KIAA1795, MGC17862, DKFZp564P1916, RP11-175O19.1

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables histone deacetylase binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables histone methyltransferase binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables nuclear estrogen receptor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription corepressor activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables transcription corepressor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables ubiquitin-specific protease binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in cellular response to estradiol stimulus IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
ligand-dependent corepressor
Names
mblk1-related protein 2

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

Genomic

  1. NG_051561.2 RefSeqGene

    Range
    5039..168697
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001170765.2 → NP_001164236.1  ligand-dependent corepressor isoform 1

    See identical proteins and their annotated locations for NP_001164236.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same protein, isoform 1.
    Source sequence(s)
    AB072899, AL442123, AL832106
    Consensus CDS
    CCDS7451.1
    UniProtKB/Swiss-Prot
    D3DR47, Q5VW16, Q7Z723, Q86T32, Q86T33, Q8N3L6, Q8N655, Q96JN0, Q9H945, Q9Y457
    UniProtKB/TrEMBL
    A0A6Q8PG83
    Related
    ENSP00000360144.3, ENST00000371103.8
    Conserved Domains (1) summary
    pfam05225
    Location:352 → 395
    HTH_psq; helix-turn-helix, Psq domain

  2. NM_001170766.2 → NP_001164237.1  ligand-dependent corepressor isoform 2

    See identical proteins and their annotated locations for NP_001164237.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR, 3' UTR, and coding region, compared to variant 1. This results in a protein (isoform 2) that maintains the reading frame but is shorter at the C-terminus, compared to isoform 1.
    Source sequence(s)
    AB072899, AL442123, BC053359, DA788606
    Consensus CDS
    CCDS53561.1
    UniProtKB/TrEMBL
    A0A6Q8PG83
    Related
    ENSP00000443431.1, ENST00000540664.6
    Conserved Domains (1) summary
    pfam05225
    Location:352 → 395
    HTH_psq; helix-turn-helix, Psq domain

  3. NM_001346516.2 → NP_001333445.1  ligand-dependent corepressor isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) contains an alternate 3' terminal exon, compared to variant 1. It encodes isoform 3, which is larger than isoform 1.
    Source sequence(s)
    AI571097, AL162502, AL442123
    Consensus CDS
    CCDS86132.1
    UniProtKB/Swiss-Prot
    Q96JN0
    Related
    ENSP00000490116.2, ENST00000421806.4

  4. NM_032440.4 → NP_115816.2  ligand-dependent corepressor isoform 1

    See identical proteins and their annotated locations for NP_115816.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Both variants 1 and 2 encode the same protein.
    Source sequence(s)
    AB058698, AB072899, AL162502, AL442123, DA507116
    Consensus CDS
    CCDS7451.1
    UniProtKB/Swiss-Prot
    D3DR47, Q5VW16, Q7Z723, Q86T32, Q86T33, Q8N3L6, Q8N655, Q96JN0, Q9H945, Q9Y457
    UniProtKB/TrEMBL
    A0A6Q8PG83
    Related
    ENSP00000348298.2, ENST00000356016.7
    Conserved Domains (1) summary
    pfam05225
    Location:352 → 395
    HTH_psq; helix-turn-helix, Psq domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    96832298..96995956
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    97713211..97876841
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_015652.3: Suppressed sequence

    Description
    NM_015652.3: This RefSeq was removed because there is insufficient evidence that this locus (C10orf12) is transcribed independently. The locus is now merged into LCOR (GeneID:84458).
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96JN0.2 GenPept UniProtKB/Swiss-Prot:Q96JN0

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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