Human Gene RCOR2 (ENST00000301459.5) from GENCODE V44
  Description: Homo sapiens REST corepressor 2 (RCOR2), transcript variant 1, mRNA. (from RefSeq NM_173587)
Gencode Transcript: ENST00000301459.5
Gencode Gene: ENSG00000167771.6
Transcript (Including UTRs)
   Position: hg38 chr11:63,911,230-63,917,164 Size: 5,935 Total Exon Count: 12 Strand: -
Coding Region
   Position: hg38 chr11:63,911,865-63,916,456 Size: 4,592 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesMethods
Data last updated at UCSC: 2023-08-18 00:09:47

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:63,911,230-63,917,164)mRNA (may differ from genome)Protein (523 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGencodeGeneCards
HGNCHPRDLynxMGIneXtProtOMIM
PubMedUniProtKBBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RCOR2_HUMAN
DESCRIPTION: RecName: Full=REST corepressor 2;
FUNCTION: May act as a component of a corepressor complex that represses transcription (Potential).
SUBCELLULAR LOCATION: Nucleus (By similarity).
SIMILARITY: Belongs to the CoREST family.
SIMILARITY: Contains 1 ELM2 domain.
SIMILARITY: Contains 2 SANT domains.
SEQUENCE CAUTION: Sequence=AAH10608.1; Type=Miscellaneous discrepancy; Note=Chimera;

-  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

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 5.62 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 69.85 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 -411.70708-0.581 Picture PostScript Text
3' UTR -272.00635-0.428 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:
PF01448 - ELM2 domain
PF00249 - Myb-like DNA-binding domain

ModBase Predicted Comparative 3D Structure on Q8IZ40
FrontTopSide
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
Genome BrowserGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
MGIRGDEnsembl   
Protein SequenceProtein SequenceProtein Sequence   
AlignmentAlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0003714 transcription corepressor activity
GO:0005515 protein binding
GO:0008134 transcription factor binding
GO:0019899 enzyme binding
GO:0044212 transcription regulatory region DNA binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0045892 negative regulation of transcription, DNA-templated

Cellular Component:
GO:0005634 nucleus
GO:0005667 transcription factor complex
GO:0017053 transcriptional repressor complex


-  Descriptions from all associated GenBank mRNAs
  BC023587 - Homo sapiens REST corepressor 2, mRNA (cDNA clone MGC:23462 IMAGE:4762190), complete cds.
BC010608 - Homo sapiens REST corepressor 2, mRNA (cDNA clone IMAGE:4157757), partial cds.
AB593132 - Homo sapiens RCOR2 mRNA for REST corepressor 2, complete cds, clone: HP08658-RBd91D02.
JD456608 - Sequence 437632 from Patent EP1572962.
JD465725 - Sequence 446749 from Patent EP1572962.
JD195229 - Sequence 176253 from Patent EP1572962.
JD426431 - Sequence 407455 from Patent EP1572962.
JD525007 - Sequence 506031 from Patent EP1572962.
JD243439 - Sequence 224463 from Patent EP1572962.
JD060343 - Sequence 41367 from Patent EP1572962.
JD395807 - Sequence 376831 from Patent EP1572962.
JD255501 - Sequence 236525 from Patent EP1572962.
JD233596 - Sequence 214620 from Patent EP1572962.
JD545285 - Sequence 526309 from Patent EP1572962.
JD404055 - Sequence 385079 from Patent EP1572962.
JD457904 - Sequence 438928 from Patent EP1572962.
JD116633 - Sequence 97657 from Patent EP1572962.
KJ900545 - Synthetic construct Homo sapiens clone ccsbBroadEn_09939 RCOR2 gene, encodes complete protein.
JD420434 - Sequence 401458 from Patent EP1572962.
JD189613 - Sequence 170637 from Patent EP1572962.
JD470584 - Sequence 451608 from Patent EP1572962.
JD205011 - Sequence 186035 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000301459.1, ENST00000301459.2, ENST00000301459.3, ENST00000301459.4, NM_173587, Q8IZ40, Q96FP3, RCOR2_HUMAN, uc001nyc.1, uc001nyc.2, uc001nyc.3, uc001nyc.4
UCSC ID: ENST00000301459.5
RefSeq Accession: NM_173587
Protein: Q8IZ40 (aka RCOR2_HUMAN)
CCDS: CCDS8052.1

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