Human Gene RCOR1 (ENST00000262241.7_4) from GENCODE V47lift37
  Description: REST corepressor 1 (from RefSeq NM_015156.4)
Gencode Transcript: ENST00000262241.7_4
Gencode Gene: ENSG00000089902.10_8
Transcript (Including UTRs)
   Position: hg19 chr14:103,058,986-103,196,898 Size: 137,913 Total Exon Count: 12 Strand: +
Coding Region
   Position: hg19 chr14:103,059,224-103,192,843 Size: 133,620 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:103,058,986-103,196,898)mRNA (may differ from genome)Protein (485 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedReactomeUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RCOR1_HUMAN
DESCRIPTION: RecName: Full=REST corepressor 1; AltName: Full=Protein CoREST;
FUNCTION: Essential component of the BHC complex, a corepressor complex that represses transcription of neuron-specific genes in non-neuronal cells. The BHC complex is recruited at RE1/NRSE sites by REST and acts by deacetylating and demethylating specific sites on histones, thereby acting as a chromatin modifier. In the BHC complex, it serves as a molecular beacon for the recruitment of molecular machinery, including MeCP2 and SUV39H1, that imposes silencing across a chromosomal interval. Plays a central role in demethylation of Lys-4 of histone H3 by promoting demethylase activity of KDM1A on core histones and nucleosomal substrates. It also protects KDM1A from the proteasome. Component of a RCOR/GFI/KDM1A/HDAC complex that suppresses, via histone deacetylase (HDAC) recruitment, a number of genes implicated in multilineage blood cell development and controls hematopoietic differentiation.
SUBUNIT: Interacts directly with GFI1 and GFI1B in a RCOR/GFI/KDM1A/HDAC complex (By similarity). Component of a BHC histone deacetylase complex that contains HDAC1, HDAC2, HMG20B/BRAF35, KDM1A, RCOR1/CoREST and PHF21A/BHC80. The BHC complex may also contain ZMYM2, ZNF217, ZMYM3, GSE1 and GTF2I. Interacts with REST. Interacts with the SMARCE1/BAF57, suggesting that the BHC complex may recruit the ATP-dependent chromatin- remodeling SWI-SNF complex. Interacts with herpes virus HSV-1 ICP0 protein; the interaction leads to the disruption of the BHC complex, thereby preventing the BHC complex from repressing transcription of viral genes.
INTERACTION: O60341:KDM1A; NbExp=2; IntAct=EBI-926563, EBI-710124; Q969G3-1:SMARCE1; NbExp=2; IntAct=EBI-926563, EBI-455091; Q969G3-2:SMARCE1; NbExp=4; IntAct=EBI-926563, EBI-455096;
SUBCELLULAR LOCATION: Nucleus. Note=Upon infection by HSV-1, it is partially translocated into the cytoplasm in an HSV-1-dependent manner.
TISSUE SPECIFICITY: Ubiquitously expressed.
DOMAIN: The SANT domains may bridge the nucleosomal substrates and the demethylase KDM1A.
PTM: Phosphorylated by HSV-1 protein kinases in case of infection.
SIMILARITY: Belongs to the CoREST family.
SIMILARITY: Contains 1 ELM2 domain.
SIMILARITY: Contains 2 SANT domains.
SEQUENCE CAUTION: Sequence=AAH64495.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 20.09 RPKM in Esophagus - Mucosa
Total median expression: 340.60 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -111.70238-0.469 Picture PostScript Text
3' UTR -1126.004055-0.278 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR000949 - ELM2_dom
IPR009057 - Homeodomain-like
IPR001005 - SANT/Myb
IPR017884 - SANT_dom

Pfam Domains:
PF00249 - Myb-like DNA-binding domain
PF01448 - ELM2 domain

SCOP Domains:
46689 - Homeodomain-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2IW5 - X-ray MuPIT 2UXN - X-ray MuPIT 2UXX - X-ray MuPIT 2V1D - X-ray 2X0L - X-ray 2XAF - X-ray 2XAG - X-ray 2XAH - X-ray 2XAJ - X-ray 2XAQ - X-ray 2XAS - X-ray 2Y48 - X-ray


ModBase Predicted Comparative 3D Structure on Q9UKL0
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0001078 transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0003677 DNA binding
GO:0003714 transcription corepressor activity
GO:0004407 histone deacetylase activity
GO:0005515 protein binding
GO:0008134 transcription factor binding
GO:0044212 transcription regulatory region DNA binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0006325 chromatin organization
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006357 regulation of transcription from RNA polymerase II promoter
GO:0007596 blood coagulation
GO:0016032 viral process
GO:0045892 negative regulation of transcription, DNA-templated
GO:0070933 histone H4 deacetylation

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005667 transcription factor complex
GO:0017053 transcriptional repressor complex
GO:1990391 DNA repair complex


-  Descriptions from all associated GenBank mRNAs
  LF384890 - JP 2014500723-A/192393: Polycomb-Associated Non-Coding RNAs.
BC051003 - Homo sapiens REST corepressor 1, mRNA (cDNA clone IMAGE:6304446), partial cds.
BC064495 - Homo sapiens REST corepressor 1, mRNA (cDNA clone IMAGE:5816279), partial cds.
AB464145 - Synthetic construct DNA, clone: pF1KB7177, Homo sapiens RCOR1 gene for REST corepressor 1, without stop codon, in Flexi system.
BC111590 - Synthetic construct Homo sapiens clone IMAGE:40080558, MGC:133421 RCOR1 protein (RCOR1) mRNA, encodes complete protein.
AF155595 - Homo sapiens CoREST protein (COREST) mRNA, complete cds.
D31888 - Homo sapiens KIAA0071 mRNA, partial cds.
MA620467 - JP 2018138019-A/192393: Polycomb-Associated Non-Coding RNAs.
JD458527 - Sequence 439551 from Patent EP1572962.
LF330637 - JP 2014500723-A/138140: Polycomb-Associated Non-Coding RNAs.
AK026612 - Homo sapiens cDNA: FLJ22959 fis, clone KAT10162.
LF330640 - JP 2014500723-A/138143: Polycomb-Associated Non-Coding RNAs.
LF330641 - JP 2014500723-A/138144: Polycomb-Associated Non-Coding RNAs.
JD020684 - Sequence 1708 from Patent EP1572962.
JD032042 - Sequence 13066 from Patent EP1572962.
LF330643 - JP 2014500723-A/138146: Polycomb-Associated Non-Coding RNAs.
LF330644 - JP 2014500723-A/138147: Polycomb-Associated Non-Coding RNAs.
LF330645 - JP 2014500723-A/138148: Polycomb-Associated Non-Coding RNAs.
LF330646 - JP 2014500723-A/138149: Polycomb-Associated Non-Coding RNAs.
AF070627 - Homo sapiens clone 24709 mRNA sequence.
JD026950 - Sequence 7974 from Patent EP1572962.
JD034980 - Sequence 16004 from Patent EP1572962.
LF330647 - JP 2014500723-A/138150: Polycomb-Associated Non-Coding RNAs.
MA566214 - JP 2018138019-A/138140: Polycomb-Associated Non-Coding RNAs.
MA566217 - JP 2018138019-A/138143: Polycomb-Associated Non-Coding RNAs.
MA566218 - JP 2018138019-A/138144: Polycomb-Associated Non-Coding RNAs.
MA566220 - JP 2018138019-A/138146: Polycomb-Associated Non-Coding RNAs.
MA566221 - JP 2018138019-A/138147: Polycomb-Associated Non-Coding RNAs.
MA566222 - JP 2018138019-A/138148: Polycomb-Associated Non-Coding RNAs.
MA566223 - JP 2018138019-A/138149: Polycomb-Associated Non-Coding RNAs.
MA566224 - JP 2018138019-A/138150: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9UKL0 (Reactome details) participates in the following event(s):

R-HSA-996727 REST recruits the BHC complex
R-HSA-3769447 HDAC1/2 containing-complexes deacetylate histones
R-HSA-6807077 NR2E1 associated with transcription repressors binds PTEN promoter
R-HSA-983231 Factors involved in megakaryocyte development and platelet production
R-HSA-109582 Hemostasis
R-HSA-3214815 HDACs deacetylate histones
R-HSA-8943724 Regulation of PTEN gene transcription
R-HSA-3247509 Chromatin modifying enzymes
R-HSA-6807070 PTEN Regulation
R-HSA-4839726 Chromatin organization
R-HSA-1257604 PIP3 activates AKT signaling
R-HSA-9006925 Intracellular signaling by second messengers
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000262241.1, ENST00000262241.2, ENST00000262241.3, ENST00000262241.4, ENST00000262241.5, ENST00000262241.6, J3KN32, KIAA0071, NM_015156, Q15044, Q6P2I9, Q86VG5, Q9UKL0, RCOR, RCOR1_HUMAN, uc317gyh.1, uc317gyh.2
UCSC ID: ENST00000262241.7_4
RefSeq Accession: NM_015156.4
Protein: Q9UKL0 (aka RCOR1_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.