Cone-rod homeobox protein

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functionⁱ

Regions

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functionⁱ

• chromatin binding Source: MGI <p>Inferred from Direct Assay</p> <p>Used to indicate a direct assay for the function, process or component indicated by the GO term.</p> <p>More information in the <a href="http://geneontology.org/page/guide%2Dgo%2Devidence%2Dcodes#ida">GO evidence code guide</a></p> Inferred from direct assayⁱ
  • "Interference of Crx-dependent transcription by ataxin-7 involves interaction between the glutamine regions and requires the ataxin-7 carboxy-terminal region for nuclear localization."
    Chen S., Peng G.H., Wang X., Smith A.C., Grote S.K., Sopher B.L., La Spada A.R.
    Hum Mol Genet 13:53-67(2004) [PubMed] [Europe PMC] [Abstract]
• DNA binding Source: MGI
• DNA-binding transcription activator activity Source: ARUK-UCL
• DNA-binding transcription activator activity, RNA polymerase II-specific Source: MGI
• DNA-binding transcription factor activity Source: UniProtKBInferred from direct assayⁱ
  • Ref.3

    "Activation of the blue opsin gene in cone photoreceptor development by retinoid-related orphan receptor beta."
    Srinivas M., Ng L., Liu H., Jia L., Forrest D.
    Mol. Endocrinol. 20:1728-1741(2006) [PubMed] [Europe PMC] [Abstract]

    Cited for: FUNCTION AS TRANSCRIPTION ACTIVATOR, SUBCELLULAR LOCATION, DNA-BINDING, INTERACTION WITH NRL AND RORB, DEVELOPMENTAL STAGE, TISSUE SPECIFICITY.
• DNA-binding transcription factor activity, RNA polymerase II-specific Source: GO_Central <p>Inferred from Biological aspect of Ancestor</p> <p>A type of phylogenetic evidence whereby an aspect of a descendent is inferred through the characterization of an aspect of a ancestral gene.</p> <p>More information in the <a href="http://geneontology.org/page/guide%2Dgo%2Devidence%2Dcodes#iba">GO evidence code guide</a></p> Inferred from biological aspect of ancestorⁱ
  • "Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium."
    Gaudet P., Livstone M.S., Lewis S.E., Thomas P.D.
    Brief Bioinform 12:449-462(2011) [PubMed] [Europe PMC] [Abstract]
• leucine zipper domain binding Source: MGI
• nuclear hormone receptor binding Source: UniProtKB <p>Inferred from Physical Interaction</p> <p>Covers physical interactions between the gene product of interest and another molecule (or ion, or complex).</p> <p>More information in the <a href="http://geneontology.org/page/guide%2Dgo%2Devidence%2Dcodes#ipi">GO evidence code guide</a></p> Inferred from physical interactionⁱ
  • Ref.3

    "Activation of the blue opsin gene in cone photoreceptor development by retinoid-related orphan receptor beta."
    Srinivas M., Ng L., Liu H., Jia L., Forrest D.
    Mol. Endocrinol. 20:1728-1741(2006) [PubMed] [Europe PMC] [Abstract]

    Cited for: FUNCTION AS TRANSCRIPTION ACTIVATOR, SUBCELLULAR LOCATION, DNA-BINDING, INTERACTION WITH NRL AND RORB, DEVELOPMENTAL STAGE, TISSUE SPECIFICITY.
• RNA polymerase II cis-regulatory region sequence-specific DNA binding Source: MGI
• RNA polymerase II transcription factor binding Source: ARUK-UCL
• RNA polymerase II transcription regulatory region sequence-specific DNA binding Source: MGIInferred from direct assayⁱ
  • "Panky, a novel photoreceptor-specific ankyrin repeat protein, is a transcriptional cofactor that suppresses CRX-regulated photoreceptor genes."
    Sanuki R., Omori Y., Koike C., Sato S., Furukawa T.
    FEBS Lett. 584:753-758(2010) [PubMed] [Europe PMC] [Abstract]
• sequence-specific double-stranded DNA binding Source: MGI

GO - Biological processⁱ

• cell differentiation Source: UniProtKB-KW
• nervous system development Source: UniProtKB-KW
• positive regulation of transcription by RNA polymerase II Source: MGIInferred from direct assayⁱ
  • "Distinct functions of photoreceptor cell-specific nuclear receptor, thyroid hormone receptor beta2 and CRX in one photoreceptor development."
    Yanagi Y., Takezawa S., Kato S.
    Invest Ophthalmol Vis Sci 43:3489-3494(2002) [PubMed] [Europe PMC] [Abstract]
  • "Interference of Crx-dependent transcription by ataxin-7 involves interaction between the glutamine regions and requires the ataxin-7 carboxy-terminal region for nuclear localization."
    Chen S., Peng G.H., Wang X., Smith A.C., Grote S.K., Sopher B.L., La Spada A.R.
    Hum Mol Genet 13:53-67(2004) [PubMed] [Europe PMC] [Abstract]
  • "The photoreceptor-specific nuclear receptor Nr2e3 interacts with Crx and exerts opposing effects on the transcription of rod versus cone genes."
    Peng G.H., Ahmad O., Ahmad F., Liu J., Chen S.
    Hum. Mol. Genet. 14:747-764(2005) [PubMed] [Europe PMC] [Abstract]
  • "Cloning and characterization of mr-s, a novel SAM domain protein, predominantly expressed in retinal photoreceptor cells."
    Inoue T., Terada K., Furukawa A., Koike C., Tamaki Y., Araie M., Furukawa T.
    BMC Dev. Biol. 6:15-15(2006) [PubMed] [Europe PMC] [Abstract]
  • "Panky, a novel photoreceptor-specific ankyrin repeat protein, is a transcriptional cofactor that suppresses CRX-regulated photoreceptor genes."
    Sanuki R., Omori Y., Koike C., Sato S., Furukawa T.
    FEBS Lett. 584:753-758(2010) [PubMed] [Europe PMC] [Abstract]
• regulation of transcription, DNA-templated Source: UniProtKBInferred from direct assayⁱ
  • Ref.3

    "Activation of the blue opsin gene in cone photoreceptor development by retinoid-related orphan receptor beta."
    Srinivas M., Ng L., Liu H., Jia L., Forrest D.
    Mol. Endocrinol. 20:1728-1741(2006) [PubMed] [Europe PMC] [Abstract]

    Cited for: FUNCTION AS TRANSCRIPTION ACTIVATOR, SUBCELLULAR LOCATION, DNA-BINDING, INTERACTION WITH NRL AND RORB, DEVELOPMENTAL STAGE, TISSUE SPECIFICITY.
• regulation of transcription by RNA polymerase II Source: GO_CentralInferred from biological aspect of ancestorⁱ
  • "Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium."
    Gaudet P., Livstone M.S., Lewis S.E., Thomas P.D.
    Brief Bioinform 12:449-462(2011) [PubMed] [Europe PMC] [Abstract]
• response to stimulus Source: UniProtKB-KW
• retina development in camera-type eye Source: MGI <p>Inferred from Mutant Phenotype</p> <p>Describes annotations that are concluded from looking at variations or changes in a gene product such as mutations or abnormal levels and includes techniques such as knockouts, overexpression, anti-sense experiments and use of specific protein inhibitors.</p> <p>More information in the <a href="http://geneontology.org/page/guide%2Dgo%2Devidence%2Dcodes#imp">GO evidence code guide</a></p> Inferred from mutant phenotypeⁱ
  • "Mouse model resources for vision research."
    Won J., Shi L.Y., Hicks W., Wang J., Hurd R., Naggert J.K., Chang B., Nishina P.M.
    J Ophthalmol 2011:391384-391384(2011) [PubMed] [Europe PMC] [Abstract]
• visual perception Source: UniProtKB-KW

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsⁱ

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyⁱ

Organism-specific databases

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationⁱ

• UniProt annotation
• GO - Cellular component

Keywords - Cellular componentⁱ

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingⁱ

Molecule processing

Proteomic databases

PTM databases

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressionⁱ

<p>This subsection of the 'Expression' section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified 'at protein level'.<br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityⁱ

<p>This subsection of the 'Expression' section provides information on the expression of the gene product at various stages of a cell, tissue or organism development. By default, the information is derived from experiments at the mRNA level, unless specified 'at the protein level'.<p><a href='/help/developmental_stage' target='_top'>More...</a></p>Developmental stageⁱ

Gene expression databases

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactionⁱ

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structureⁱ

GO - Molecular functionⁱ

• leucine zipper domain binding Source: MGI
• nuclear hormone receptor binding Source: UniProtKBInferred from physical interactionⁱ
  • Ref.3

    "Activation of the blue opsin gene in cone photoreceptor development by retinoid-related orphan receptor beta."
    Srinivas M., Ng L., Liu H., Jia L., Forrest D.
    Mol. Endocrinol. 20:1728-1741(2006) [PubMed] [Europe PMC] [Abstract]

    Cited for: FUNCTION AS TRANSCRIPTION ACTIVATOR, SUBCELLULAR LOCATION, DNA-BINDING, INTERACTION WITH NRL AND RORB, DEVELOPMENTAL STAGE, TISSUE SPECIFICITY.
• RNA polymerase II transcription factor binding Source: ARUK-UCL

Protein-protein interaction databases

Miscellaneous databases

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structureⁱ

3D structure databases

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsⁱ

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesⁱ

Keywords - Domainⁱ

Phylogenomic databases

Family and domain databases

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequence (1+)ⁱ

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusⁱ: Complete.

This entry has 1 described isoform and 3 potential isoforms that are computationally mapped.Show allAlign All

        10         20         30         40         50
MMAYMNPGPH YSVNALALSG PNVDLMHQAV PYSSAPRKQR RERTTFTRSQ 
        60         70         80         90        100
LEELEALFAK TQYPDVYARE EVALKINLPE SRVQVWFKNR RAKCRQQRQQ 
       110        120        130        140        150
QKQQQQPPGA QTKARPAKRK AGTSPRPSTD VCTDPLGISD SYSPSLPGPS 
       160        170        180        190        200
GSPTTAVATV SIWSPASEAP LPEAQRAGLV ASGPSLTSAP YAMTYAPASA 
       210        220        230        240        250
FCSSPSAYAS PSSYFSGLDP YLSPMVPQLG GPALSPLSGP SVGPSLAQSP 
       260        270        280        290 
TSLSGQSYST YSPVDSLEFK DPTGTWKFTY NPMDPLDYKD QSAWKFQIL  

Sequence databases

Genome annotation databases

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsⁱ

• 100% Identity
• 90% Identity
• 50% Identity

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesⁱ

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Miscellaneous databases

Gene expression databases

Family and domain databases

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationⁱ

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousⁱ

Keywords - Technical termⁱ

Documents

1. MGD cross-references
   Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
2. SIMILARITY comments
   Index of protein domains and families