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    cica capicua transcriptional repressor a [ Oryzias latipes (Japanese medaka) ]

    Gene ID: 101156834, updated on 8-Mar-2024

    Summary

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    Gene symbol
    cica
    Gene description
    capicua transcriptional repressor a
    See related
    EnsemblRapid:ENSORLG00000007091
    Gene type
    protein coding
    RefSeq status
    MODEL
    Organism
    Oryzias latipes
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Neoteleostei; Acanthomorphata; Ovalentaria; Atherinomorphae; Beloniformes; Adrianichthyidae; Oryziinae; Oryzias
    Orthologs
    zebrafish all
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    Genomic context

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    See cica in Genome Data Viewer
    Location:
    chromosome: 11
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    103 current ASM223467v1 (GCF_002234675.1) 11 NC_019869.2 (16751003..16795099)
    102 previous assembly ASM31367v1 (GCF_000313675.1) 11 NC_019869.1 (16177277..16221204)

    Chromosome 11 - NC_019869.2Genomic Context describing neighboring genes Neighboring gene POU class 2 homeobox 2a Neighboring gene Ets2 repressor factor Neighboring gene glycogen synthase kinase 3 alpha a Neighboring gene Zinc finger protein 706-like

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, Free PMC Article
    2. TreeGrafter: phylogenetic tree-based annotation of proteins with Gene Ontology terms and other annotations. Tang H, et al. Bioinformatics, 2019 Feb 1. PMID 30032202, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RefSeq

    Function Evidence Code Pubs
    enables DNA-binding transcription factor activity, RNA polymerase II-specific IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    protein capicua homolog

    NCBI Reference Sequences (RefSeq)

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    RefSeqs of Annotated Genomes: Oryzias latipes Annotation Release 103 details...Open this link in a new tab

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference ASM223467v1 Primary Assembly

    Genomic

    1. NC_019869.2 Reference ASM223467v1 Primary Assembly

      Range
      16751003..16795099
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011481012.3 → XP_011479314.2  protein capicua homolog isoform X1

      UniProtKB/TrEMBL
      A0A3P9IQN6, H2LS41
      Related
      ENSORLP00000008901.2, ENSORLT00000008902.3
      Conserved Domains (4) summary
      cd01388
      Location:1357 → 1428
      SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...
      pfam16090
      Location:368 → 463
      DUF4819; Domain of unknown function (DUF4819)
      cl26464
      Location:1785 → 2106
      Atrophin-1; Atrophin-1 family
      cl28033
      Location:1000 → 1353
      Herpes_ICP4_C; Herpesvirus ICP4-like protein C-terminal region

    2. XM_011481013.3 → XP_011479315.2  protein capicua homolog isoform X2

      UniProtKB/TrEMBL
      A0A3P9M5K3
      Conserved Domains (4) summary
      cd01388
      Location:1357 → 1428
      SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...
      pfam16090
      Location:368 → 463
      DUF4819; Domain of unknown function (DUF4819)
      cl25496
      Location:1668 → 1991
      Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)
      cl28033
      Location:1000 → 1353
      Herpes_ICP4_C; Herpesvirus ICP4-like protein C-terminal region

    3. XM_020707178.2 → XP_020562837.2  protein capicua homolog isoform X1

      UniProtKB/TrEMBL
      A0A3P9IQN6, H2LS41
      Conserved Domains (4) summary
      cd01388
      Location:1357 → 1428
      SOX-TCF_HMG-box; class I member of the HMG-box superfamily of DNA-binding proteins. These proteins contain a single HMG box, and bind the minor groove of DNA in a highly sequence-specific manner. Members include SRY and its homologs in insects and vertebrates, and ...
      pfam16090
      Location:368 → 463
      DUF4819; Domain of unknown function (DUF4819)
      cl26464
      Location:1785 → 2106
      Atrophin-1; Atrophin-1 family
      cl28033
      Location:1000 → 1353
      Herpes_ICP4_C; Herpesvirus ICP4-like protein C-terminal region
    Nucleotide Protein
    Heading Accession and Version

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