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    nfyc nuclear transcription factor Y, gamma [ Danio rerio (zebrafish) ]

    Gene ID: 323445, updated on 9-Dec-2024

    Summary

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    Official Symbol
    nfycprovided by ZNC
    Official Full Name
    nuclear transcription factor Y, gammaprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-030131-2165
    See related
    Ensembl:ENSDARG00000070151 AllianceGenome:ZFIN:ZDB-GENE-030131-2165
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    fb98f01; zgc:55514; wu:fb98f01
    Summary
    Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific. Predicted to contribute to RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within retina development in camera-type eye. Predicted to be part of CCAAT-binding activity factor complex. Predicted to be active in nucleus. Is expressed in telencephalon. Orthologous to human NFYC (nuclear transcription factor Y subunit gamma). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See nfyc in Genome Data Viewer
    Location:
    chromosome: 19
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 19 NC_007130.7 (42071814..42118615)
    105 previous assembly GRCz10 (GCF_000002035.5) 19 NC_007130.6 (42486641..42549523)

    Chromosome 19 - NC_007130.7Genomic Context describing neighboring genes Neighboring gene trio Rho guanine nucleotide exchange factor a Neighboring gene si:ch211-13c6.2 Neighboring gene potassium voltage-gated channel subfamily KQT member 4 Neighboring gene uncharacterized LOC137488549 Neighboring gene si:ch211-191i18.4 Neighboring gene jumping translocation breakpoint

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. MITO-Luc/GFP zebrafish model to assess spatial and temporal evolution of cell proliferation in vivo. de Latouliere L, et al. Sci Rep, 2021 Jan 12. PMID 33436662, Free PMC Article
    2. Novel and unexpected functions of zebrafish CCAAT box binding transcription factor (NF-Y) B subunit during cartilages development. Chen YH, et al. Bone, 2009 May. PMID 19442608
    3. Identification of zebrafish insertional mutants with defects in visual system development and function. Gross JM, et al. Genetics, 2005 May. PMID 15716491, Free PMC Article
    4. Identification of 315 genes essential for early zebrafish development. Amsterdam A, et al. Proc Natl Acad Sci U S A, 2004 Aug 31. PMID 15256591, Free PMC Article
    5. Comprehensive expression map of transcription regulators in the adult zebrafish telencephalon reveals distinct neurogenic niches. Diotel N, et al. J Comp Neurol, 2015 Jun 1. PMID 25556858, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Pathways from PubChem

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    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables DNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    contributes_to RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein heterodimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within retina development in camera-type eye IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of CCAAT-binding factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    nuclear transcription factor Y subunit gamma

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_199639.1 → NP_955933.1  nuclear transcription factor Y subunit gamma

      See identical proteins and their annotated locations for NP_955933.1

      Status: PROVISIONAL

      Source sequence(s)
      BC045364
      UniProtKB/TrEMBL
      A0A0R4IG56, A0A8N7XJC9, B2GP23, Q7ZVY3
      Related
      ENSDARP00000133372.2, ENSDART00000166422.2
      Conserved Domains (1) summary
      pfam00808
      Location:40 → 103
      CBFD_NFYB_HMF; Histone-like transcription factor (CBF/NF-Y) and archaeal histone

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007130.7 Reference GRCz11 Primary Assembly

      Range
      42071814..42118615
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009294374.4 → XP_009292649.1  nuclear transcription factor Y subunit gamma isoform X1

      See identical proteins and their annotated locations for XP_009292649.1

      UniProtKB/TrEMBL
      A0A0R4IG56, A0A8N7XJC9, B2GP23, Q7ZVY3
      Related
      ENSDARP00000135886.1, ENSDART00000169067.3
      Conserved Domains (1) summary
      pfam00808
      Location:40 → 103
      CBFD_NFYB_HMF; Histone-like transcription factor (CBF/NF-Y) and archaeal histone

    2. XM_009294380.4 → XP_009292655.1  nuclear transcription factor Y subunit gamma isoform X3

      See identical proteins and their annotated locations for XP_009292655.1

      UniProtKB/TrEMBL
      A0A2R8QT72, A0A8M3B3Q2
      Related
      ENSDARP00000156799.1, ENSDART00000183436.1
      Conserved Domains (1) summary
      pfam00808
      Location:40 → 103
      CBFD_NFYB_HMF; Histone-like transcription factor (CBF/NF-Y) and archaeal histone

    3. XM_009294377.4 → XP_009292652.1  nuclear transcription factor Y subunit gamma isoform X2

      See identical proteins and their annotated locations for XP_009292652.1

      UniProtKB/TrEMBL
      A0A8M9PRB6, Q6P0F1
      Conserved Domains (1) summary
      cl28542
      Location:15 → 120
      BUR6; Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]

    4. XM_009294382.4 → XP_009292657.1  nuclear transcription factor Y subunit gamma isoform X4

      UniProtKB/TrEMBL
      A0A8M9PN42
      Conserved Domains (1) summary
      cl28542
      Location:15 → 120
      BUR6; Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]

    5. XM_009294381.4 → XP_009292656.1  nuclear transcription factor Y subunit gamma isoform X3

      See identical proteins and their annotated locations for XP_009292656.1

      UniProtKB/TrEMBL
      A0A2R8QT72, A0A8M3B3Q2
      Conserved Domains (1) summary
      pfam00808
      Location:40 → 103
      CBFD_NFYB_HMF; Histone-like transcription factor (CBF/NF-Y) and archaeal histone

    6. XM_009294378.4 → XP_009292653.1  nuclear transcription factor Y subunit gamma isoform X2

      See identical proteins and their annotated locations for XP_009292653.1

      UniProtKB/TrEMBL
      A0A8M9PRB6, Q6P0F1
      Related
      ENSDARP00000157483.1, ENSDART00000191058.1
      Conserved Domains (1) summary
      cl28542
      Location:15 → 120
      BUR6; Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]

    7. XM_068215036.1 → XP_068071137.1  nuclear transcription factor Y subunit gamma isoform X4

      UniProtKB/TrEMBL
      A0A8M9PN42

    8. XM_009294375.4 → XP_009292650.1  nuclear transcription factor Y subunit gamma isoform X1

      See identical proteins and their annotated locations for XP_009292650.1

      UniProtKB/TrEMBL
      A0A0R4IG56, A0A8N7XJC9, B2GP23, Q7ZVY3
      Conserved Domains (1) summary
      pfam00808
      Location:40 → 103
      CBFD_NFYB_HMF; Histone-like transcription factor (CBF/NF-Y) and archaeal histone

    9. XM_009294379.4 → XP_009292654.1  nuclear transcription factor Y subunit gamma isoform X2

      See identical proteins and their annotated locations for XP_009292654.1

      UniProtKB/TrEMBL
      A0A8M9PRB6, Q6P0F1
      Conserved Domains (1) summary
      cl28542
      Location:15 → 120
      BUR6; Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]

    10. XM_009294376.4 → XP_009292651.1  nuclear transcription factor Y subunit gamma isoform X1

      See identical proteins and their annotated locations for XP_009292651.1

      UniProtKB/TrEMBL
      A0A0R4IG56, A0A8N7XJC9, B2GP23, Q7ZVY3
      Conserved Domains (1) summary
      pfam00808
      Location:40 → 103
      CBFD_NFYB_HMF; Histone-like transcription factor (CBF/NF-Y) and archaeal histone

    11. XM_021467995.2 → XP_021323670.1  nuclear transcription factor Y subunit gamma isoform X2

      UniProtKB/TrEMBL
      A0A8M9PRB6, Q6P0F1
      Conserved Domains (1) summary
      cl28542
      Location:15 → 120
      BUR6; Class 2 transcription repressor NC2, alpha subunit (DRAP1 homolog) [Transcription]
    Nucleotide Protein Strain
    Heading Accession and Version

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