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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
  • MLR2 3 4
  • Chromosome 10 Open Reading Frame 12 2
  • Ligand-Dependent Corepressor 3
  • C10orf12 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. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding 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

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

Genomics for LCOR Gene

Regulatory Elements for LCOR Gene

Enhancers for LCOR Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH10F097421 0.6 ENCODE 31 +591.1 591099 2.8 ZFP64 ZNF493 ZNF138 ZNF366 ZNF354C FOS ZNF202 ZNF654 ZNF680 OVOL3 EXOSC1 R3HCC1L LCOR NPM1P26 LOXL4 ENSG00000230928 RPL13AP5 MARVELD1 PYROXD2 SLIT1
GH10F096579 0.8 Ensembl ENCODE 22.3 -251.3 -251264 2.7 FEZF1 GLI4 ZNF2 ZNF121 ZNF416 KLF7 ZNF548 ZNF202 ZNF263 SP3 NPM1P26 EXOSC1 LCOR SLIT1-AS1 RPL13AP5 MIR607 ENTPD1-AS1 ALDH18A1 LOC105378443
GH10F096642 0.8 ENCODE 22 -190.9 -190858 0.4 CTCF WRNIP1 ARID4B ZNF140 CEBPG CDC5L RAD21 HBP1 CHAMP1 RELA LCOR PIK3AP1 EXOSC1 MIR607 NPM1P26 GC10M096631 RPS2P36
GH10F097771 0.4 ENCODE 20.1 +939.3 939327 0.3 CTCF ZSCAN5A SUZ12 ZNF76 ZNF140 ZIC2 ZEB1 ZBTB48 POLR2A PRDM10 EXOSC1 LCOR R3HCC1L SFRP5 ZFYVE27
GH10F096708 1.5 FANTOM5 Ensembl ENCODE 18.3 -122.9 -122919 2.5 HDGF PKNOX1 SIN3A ZNF2 RAD21 ZNF335 ZNF366 ZNF143 ZNF207 ZNF391 LCOR PIK3AP1 RNU6-1274P MIR607 TM9SF3 GC10M096631
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around LCOR on UCSC Golden Path with GeneCards custom track

Promoters for LCOR Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001426328 840 3801 HDGF PKNOX1 SIN3A ZNF48 YY1 GLIS2 ELK1 KLF7 ZNF202 ZNF263

Genomic Location for LCOR Gene

Chromosome:
10
Start:
96,832,260 bp from pter
End:
96,995,959 bp from pter
Size:
163,700 bases
Orientation:
Plus strand

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

    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=BAB47424.1; Type=Erroneous initiation; 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

Antibody Products

  • Abcam antibodies for LCOR

No data available for DME Specific Peptides for LCOR Gene

Domains & Families for LCOR Gene

Protein Domains for LCOR Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for LCOR Gene

Graphical View of Domain Structure for InterPro Entry

Q96JN0

UniProtKB/Swiss-Prot:

LCOR_HUMAN :
  • Contains 1 HTH psq-type DNA-binding domain.
Domain:
  • Contains 1 HTH psq-type DNA-binding domain.
genes like me logo Genes that share domains with LCOR: view

No data available for Gene Families 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.

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

Inhibitory RNA Products

Flow Cytometry Products

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
Jensen Localization Image for LCOR Gene COMPARTMENTS Subcellular localization image for LCOR gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for LCOR Gene

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

Pathways & Interactions for LCOR Gene

SuperPathways 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

Transcripts for LCOR Gene

Unigene Clusters for LCOR Gene

Ligand dependent nuclear receptor corepressor:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

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 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.
genes like me logo Genes that share expression patterns with LCOR: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and mRNA differential expression in normal tissues 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 34
  • 100 (n)
C10H10ORF12 35
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia LCOR 35
  • 99 (a)
OneToOne
dog
(Canis familiaris)
Mammalia LCOR 35
  • 99 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Lcor 34 16 35
  • 96.84 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia LCOR 35
  • 90 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia LCOR 35
  • 77 (a)
OneToOne
chicken
(Gallus gallus)
Aves LCOR 34 35
  • 91.84 (n)
lizard
(Anolis carolinensis)
Reptilia LCOR 35
  • 90 (a)
OneToOne
zebrafish
(Danio rerio)
Actinopterygii lcor 34 35
  • 64.54 (n)
fruit fly
(Drosophila melanogaster)
Insecta Eip93F 35
  • 2 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea mbr-1 35
  • 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 Sequence Context AA Info Type
rs10219031 -- 96,949,895(+) AAAGG(A/G)AATTT intron-variant
rs10430660 -- 96,915,182(+) AAAAC(G/T)ACAAT intron-variant
rs10786313 -- 96,879,196(+) AAAAC(A/G)GTGAA intron-variant
rs10786314 -- 96,913,013(+) CTTTG(A/G)AGTTG intron-variant
rs10786315 -- 96,920,792(+) CACAC(A/G)CGCGG intron-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)

Relevant External Links for LCOR Gene

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

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

Disorders for LCOR Gene

Relevant External Links for LCOR

Genetic Association Database (GAD)
LCOR
Human Genome Epidemiology (HuGE) Navigator
LCOR
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
LCOR
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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 J.H. (Mol. Cell 2003) 2 3 4 64
  2. Reciprocal interactions of human C10orf12 and C17orf96 with PRC2 revealed by BioTAP-XL cross-linking and affinity purification. (PMID: 24550272) Alekseyenko A.A. … Kuroda M.I. (Proc. Natl. Acad. Sci. U.S.A. 2014) 2 3 64
  3. Toward a comprehensive characterization of a human cancer cell phosphoproteome. (PMID: 23186163) Zhou H. … Mohammed S. (J. Proteome Res. 2013) 3 4 64
  4. Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis. (PMID: 20068231) Olsen J.V. … Mann M. (Sci. Signal. 2010) 3 4 64
  5. Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose J.E. … Uhl G.R. (Mol. Med. 2010) 3 46 64

Products for LCOR Gene

Sources for LCOR Gene

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