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

Gene ID: 84458, updated on 1-Jun-2020

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
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

Genomic context

See LCOR in Genome Data Viewer
Location:
10q24.1
Exon count:
10
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 10 NC_000010.11 (96832298..96995956)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (98592017..98724198)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102723665 Neighboring gene CRISPRi-validated cis-regulatory element chr10.3525 Neighboring gene Sharpr-MPRA regulatory region 4280 Neighboring gene microRNA 607 Neighboring gene high mobility group nucleosomal binding domain 2 pseudogene 35 Neighboring gene slit guidance ligand 1 Neighboring gene uncharacterized LOC105378444 Neighboring gene SLIT1 antisense RNA 1

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

NHGRI GWAS Catalog

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

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

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IEA
Inferred from Electronic Annotation
more info
 
DNA-binding transcription factor activity, RNA polymerase II-specific ISM
Inferred from Sequence Model
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
regulation of transcription by RNA polymerase II IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
nucleoplasm IDA
Inferred from Direct Assay
more info
 

General protein information

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

NCBI Reference Sequences (RefSeq)

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
    Q96JN0
    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/Swiss-Prot
    Q96JN0
    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, ENST00000421806.3
  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
    Q96JN0
    Related
    ENSP00000348298.2, ENST00000356016.7
    Conserved Domains (1) summary
    pfam05225
    Location:352395
    HTH_psq; helix-turn-helix, Psq domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000010.11 Reference GRCh38.p13 Primary Assembly

    Range
    96832298..96995956
    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).
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