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

Gene ID: 84458, updated on 23-Nov-2023

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
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Genomic context

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

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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 
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

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

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001170765.2NP_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:352395
    HTH_psq; helix-turn-helix, Psq domain
  2. NM_001170766.2NP_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:352395
    HTH_psq; helix-turn-helix, Psq domain
  3. NM_001346516.2NP_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_032440.4NP_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:352395
    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).