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Aliases for LCOR Gene

Aliases for LCOR Gene

  • Ligand Dependent Nuclear Receptor Corepressor 2 3 5
  • Mblk1-Related Protein 2 3 4
  • C10orf12 3 4
  • MLR2 3 4
  • Chromosome 10 Open Reading Frame 12 2
  • Ligand-Dependent Corepressor 3
  • KIAA1795 4
  • LCoR 4

External Ids for LCOR Gene

Previous HGNC Symbols for LCOR Gene

  • C10orf12

Previous GeneCards Identifiers for LCOR Gene

  • GC10P098583
  • GC10P092221

Summaries for LCOR Gene

Entrez Gene Summary for LCOR Gene

  • 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]

GeneCards Summary for LCOR Gene

LCOR (Ligand Dependent Nuclear Receptor Corepressor) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include DNA binding transcription factor activity and transcription factor binding.

UniProtKB/Swiss-Prot for LCOR Gene

  • May act as transcription activator that binds DNA elements with the sequence 5-CCCTATCGATCGATCTCTACCT-3 (By similarity). Repressor of ligand-dependent transcription activation by target nuclear receptors. Repressor of ligand-dependent transcription activation by ESR1, ESR2, NR3C1, PGR, RARA, RARB, RARG, RXRA and VDR.

Gene Wiki entry for LCOR Gene

Additional gene information for LCOR Gene

No data available for CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for LCOR Gene

Genomics for LCOR Gene

GeneHancer (GH) Regulatory Elements for LCOR Gene

Promoters and enhancers for LCOR Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH10I096830 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 562.5 +0.2 210 4.9 HDGF PKNOX1 FOXA2 ARNT SIN3A FEZF1 YY1 ZNF766 ZNF143 FOS LCOR GC10M096831 LOC102723665 ZNF518A CCNJ MMS19 EXOSC1 HMGN2P35
GH10I096981 Promoter 0.5 EPDnew 550.1 +149.1 149067 0.1 LCOR GC10M096966 GC10P096994
GH10I097421 Enhancer 1.1 ENCODE dbSUPER 60 +591.1 591098 2.8 ZNF493 ZNF529 ZFP64 BATF ZNF213 ZNF354C ZNF138 ZNF366 ETV6 FOS GC10M097425 PIR45391 MMS19 LCOR EXOSC1 R3HCC1L NPM1P26 TM9SF3 RPL13AP5 MARVELD1
GH10I096579 Enhancer 1.4 Ensembl ENCODE dbSUPER 31.1 -251.3 -251263 2.7 FEZF1 GLI4 ZNF2 ZNF121 ZNF416 KLF7 ZNF548 ATF7 KLF13 ZNF202 ZNF518A TCTN3 MMS19 CCNJ LCOR EXOSC1 NPM1P26 TM9SF3 MIR607 ALDH18A1
GH10I096128 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 19.2 -701.8 -701803 3.3 HDGF SMAD1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 ZBTB7B IRF4 YY1 ZNF518A GC10M096129 CCNJ LCOR NPM1P26 TCTN3 RPL13AP5 TM9SF3 ENTPD1-AS1 GC10M096095
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around LCOR on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the LCOR gene promoter:

Genomic Locations for LCOR Gene

Genomic Locations for LCOR Gene
chr10:96,832,260-96,995,959
(GRCh38/hg38)
Size:
163,700 bases
Orientation:
Plus strand
chr10:98,592,017-98,740,800
(GRCh37/hg19)

Genomic View for LCOR Gene

Genes around LCOR on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
LCOR Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for LCOR Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for LCOR Gene

Proteins for LCOR Gene

  • Protein details for LCOR Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96JN0-LCOR_HUMAN
    Recommended name:
    Ligand-dependent corepressor
    Protein Accession:
    Q96JN0
    Secondary Accessions:
    • D3DR47
    • Q5VW16
    • Q7Z723
    • Q86T32
    • Q86T33
    • Q8N3L6
    • Q8N655
    • Q9H945
    • Q9Y457

    Protein attributes for LCOR Gene

    Size:
    433 amino acids
    Molecular mass:
    47007 Da
    Quaternary structure:
    • Interacts with ESR1 and ESR2 in the presence of estradiol. Interacts with CTBP1, HDAC3 and HDAC6. Component of a large corepressor complex that contains about 20 proteins, including CTBP1, CTBP2, HDAC1 and HDAC2.
    SequenceCaution:
    • Sequence=AAH24315.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAB14396.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAB47424.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for LCOR Gene

    Alternative splice isoforms for LCOR Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for LCOR Gene

Post-translational modifications for LCOR Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for LCOR Gene

Domains & Families for LCOR Gene

Gene Families for LCOR Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for LCOR Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LCOR Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with LCOR: view

No data available for UniProtKB/Swiss-Prot for LCOR Gene

Function for LCOR Gene

Molecular function for LCOR Gene

UniProtKB/Swiss-Prot Function:
May act as transcription activator that binds DNA elements with the sequence 5-CCCTATCGATCGATCTCTACCT-3 (By similarity). Repressor of ligand-dependent transcription activation by target nuclear receptors. Repressor of ligand-dependent transcription activation by ESR1, ESR2, NR3C1, PGR, RARA, RARB, RARG, RXRA and VDR.

Phenotypes From GWAS Catalog for LCOR Gene

Gene Ontology (GO) - Molecular Function for LCOR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with LCOR: view
genes like me logo Genes that share phenotypes with LCOR: view

Animal Model Products

miRNA for LCOR Gene

miRTarBase miRNAs that target LCOR

Clone Products

  • Addgene plasmids for LCOR

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for LCOR Gene

Localization for LCOR Gene

Subcellular locations from UniProtKB/Swiss-Prot for LCOR Gene

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for LCOR gene
Compartment Confidence
nucleus 5
cytosol 3

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for LCOR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA --
genes like me logo Genes that share ontologies with LCOR: view

Pathways & Interactions for LCOR Gene

No Data Available

Gene Ontology (GO) - Biological Process for LCOR Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with LCOR: view

No data available for Pathways by source and SIGNOR curated interactions for LCOR Gene

Drugs & Compounds for LCOR Gene

No Compound Related Data Available

Transcripts for LCOR Gene

Unigene Clusters for LCOR Gene

Ligand dependent nuclear receptor corepressor:
Representative Sequences:

Clone Products

  • Addgene plasmids for LCOR

Alternative Splicing Database (ASD) splice patterns (SP) for LCOR Gene

ExUns: 1a · 1b ^ 2a · 2b · 2c · 2d ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b · 9c ^ 10a · 10b ^ 11a · 11b ^ 12
SP1: - - - - - - -
SP2: - -
SP3: - - -
SP4: - - - - - -
SP5: - - - - - - - -
SP6: - - - -
SP7:

Relevant External Links for LCOR Gene

GeneLoc Exon Structure for
LCOR
ECgene alternative splicing isoforms for
LCOR

Expression for LCOR Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for LCOR Gene

Protein differential expression in normal tissues from HIPED for LCOR Gene

This gene is overexpressed in Placenta (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for LCOR Gene



Protein tissue co-expression partners for LCOR Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of LCOR Gene:

LCOR

SOURCE GeneReport for Unigene cluster for LCOR Gene:

Hs.745068

mRNA Expression by UniProt/SwissProt for LCOR Gene:

Q96JN0-LCOR_HUMAN
Tissue specificity: Ubiquitous.

Evidence on tissue expression from TISSUES for LCOR Gene

  • Lung(4.2)
  • Muscle(4.2)
  • Pancreas(4.2)
  • Nervous system(4.2)
  • Bone marrow(4.1)
genes like me logo Genes that share expression patterns with LCOR: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for LCOR Gene

Orthologs for LCOR Gene

This gene was present in the common ancestor of animals.

Orthologs for LCOR Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia LCOR 33
  • 100 (n)
C10H10ORF12 34
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia LCOR 34
  • 99 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LCOR 34
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lcor 33 16 34
  • 96.84 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LCOR 34
  • 90 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LCOR 34
  • 77 (a)
OneToOne
chicken
(Gallus gallus)
Aves LCOR 33 34
  • 91.84 (n)
lizard
(Anolis carolinensis)
Reptilia LCOR 34
  • 90 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii lcor 33 34
  • 64.54 (n)
fruit fly
(Drosophila melanogaster)
Insecta Eip93F 34
  • 2 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea mbr-1 34
  • 8 (a)
OneToMany
Species where no ortholog for LCOR was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)

Evolution for LCOR Gene

ENSEMBL:
Gene Tree for LCOR (if available)
TreeFam:
Gene Tree for LCOR (if available)

Paralogs for LCOR Gene

(1) SIMAP similar genes for LCOR Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with LCOR: view

No data available for Paralogs for LCOR Gene

Variants for LCOR Gene

Sequence variations from dbSNP and Humsavar for LCOR Gene

SNP ID Clin Chr 10 pos Variation AA Info Type
rs1000010299 -- 96,872,789(+) C/T intron_variant
rs1000063992 -- 96,907,234(+) GTGGT/GT intron_variant
rs1000072896 -- 96,956,028(+) C/G/T 3_prime_UTR_variant, intron_variant
rs1000082100 -- 96,872,441(+) C/A intron_variant
rs1000103876 -- 96,830,510(+) T/G upstream_transcript_variant

Structural Variations from Database of Genomic Variants (DGV) for LCOR Gene

Variant ID Type Subtype PubMed ID
esv2401890 CNV deletion 18987734
esv2588205 CNV deletion 19546169
esv3577638 CNV gain 25503493
esv3624305 CNV loss 21293372
nsv1052931 CNV gain 25217958
nsv1052931 CNV gain 25217958
nsv1053801 CNV gain 25217958
nsv1069958 CNV deletion 25765185
nsv1110852 OTHER inversion 24896259
nsv1110852 OTHER inversion 24896259
nsv1120225 CNV tandem duplication 24896259
nsv1134045 CNV deletion 24896259
nsv527351 CNV loss 19592680
nsv825532 CNV gain 20364138
nsv831951 CNV gain 17160897
nsv831951 CNV gain 17160897
nsv948154 CNV duplication 23825009

Variation tolerance for LCOR Gene

Residual Variation Intolerance Score: 34.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.24; 24.90% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for LCOR Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
LCOR

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for LCOR Gene

Disorders for LCOR Gene

Additional Disease Information for LCOR

No disorders were found for LCOR Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for LCOR Gene

Publications for LCOR Gene

  1. Ligand-dependent nuclear receptor corepressor LCoR functions by histone deacetylase-dependent and -independent mechanisms. (PMID: 12535528) Fernandes I … White JH (Molecular cell 2003) 2 3 4 58
  2. Reciprocal interactions of human C10orf12 and C17orf96 with PRC2 revealed by BioTAP-XL cross-linking and affinity purification. (PMID: 24550272) Alekseyenko AA … Kuroda MI (Proceedings of the National Academy of Sciences of the United States of America 2014) 2 3 58
  3. Toward a comprehensive characterization of a human cancer cell phosphoproteome. (PMID: 23186163) Zhou H … Mohammed S (Journal of proteome research 2013) 3 4 58
  4. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PMID: 21406692) Rigbolt KT … Blagoev B (Science signaling 2011) 3 4 58
  5. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PMID: 20068231) Olsen JV … Mann M (Science signaling 2010) 3 4 58

Products for LCOR Gene

  • Addgene plasmids for LCOR

Sources for LCOR Gene

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