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

Summary

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: mouse all
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Genomic context

Location:: 10q24.1

Exon count:: 10

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	10	NC_000010.11 (96832298..96995956)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	10	NC_060934.1 (97713211..97876841)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	10	NC_000010.10 (98592055..98755713)

Chromosome 10 - NC_000010.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: HPA RNA-seq normal tissues 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The Expression of NRIP1 and LCOR in Endometrioid Endometrial Cancer.
Title: The Expression of NRIP1 and LCOR in Endometrioid Endometrial Cancer.
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.
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.
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.
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.
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.
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.
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.
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.
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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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH103486 (e-PCR)
- UniSTS:97811

RH104019 (e-PCR)
- UniSTS:98344

D10S2269 (e-PCR)
- UniSTS:5942

SHGC-79857 (e-PCR)
- UniSTS:101432

G33004 (e-PCR)
- UniSTS:117581

AI396692 (e-PCR)
- UniSTS:206694

A009Z04 (e-PCR)
- UniSTS:7287

MLR2__6322 (e-PCR)
- UniSTS:464055

G32866 (e-PCR)
- UniSTS:117445

WI-15944 (e-PCR)
- UniSTS:69355

RH44777 (e-PCR)
- UniSTS:48890

G62415 (e-PCR)
- UniSTS:139263

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

NG_051561.2 RefSeqGene

Range

5039..168697

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
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
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
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_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000010.11 Reference GRCh38.p14 Primary Assembly

Range

96832298..96995956

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GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

NC_060934.1 Alternate T2T-CHM13v2.0

Range

97713211..97876841

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GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

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).