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    Nfya nuclear transcription factor Y subunit alpha [ Rattus norvegicus (Norway rat) ]

    Gene ID: 29508, updated on 9-Dec-2024

    Summary

    Official Symbol
    Nfyaprovided by RGD
    Official Full Name
    nuclear transcription factor Y subunit alphaprovided by RGD
    Primary source
    RGD:70976
    See related
    EnsemblRapid:ENSRNOG00000012702 AllianceGenome:RGD:70976
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    CBF-A; CBF-B
    Summary
    Enables transcription coregulator binding activity. Predicted to be involved in positive regulation of DNA-templated transcription and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within positive regulation of transcription by RNA polymerase II. Part of CCAAT-binding activity factor complex. Orthologous to human NFYA (nuclear transcription factor Y subunit alpha). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Spleen (RPKM 81.3), Thymus (RPKM 70.6) and 9 other tissues See more
    Orthologs
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    Genomic context

    See Nfya in Genome Data Viewer
    Location:
    9q12
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (20085067..20111521)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (12587437..12613911)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (14551752..14577002)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene translocator protein 2 Neighboring gene apolipoprotein B mRNA editing enzyme catalytic subunit 2 Neighboring gene O-acyl-ADP-ribose deacylase 1 Neighboring gene triggering receptor expressed on myeloid cells-like 1 Neighboring gene triggering receptor expressed on myeloid cells 2

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables DNA binding  
    enables DNA binding  
    enables DNA-binding transcription activator activity, RNA polymerase II-specific  
    enables DNA-binding transcription factor activity  
    enables DNA-binding transcription factor activity  
    enables DNA-binding transcription factor activity, RNA polymerase II-specific  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding  
    contributes_to RNA polymerase II cis-regulatory region sequence-specific DNA binding  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding  
    enables protein binding PubMed 
    enables sequence-specific DNA binding  
    contributes_to transcription cis-regulatory region binding  
    enables transcription coregulator binding PubMed 
    Component Evidence Code Pubs
    part_of CCAAT-binding factor complex  
    part_of CCAAT-binding factor complex PubMed 
    part_of CCAAT-binding factor complex  
    part_of CCAAT-binding factor complex  
    part_of RNA polymerase II transcription regulator complex  
    located_in nucleoplasm  
    located_in nucleoplasm  
    located_in nucleoplasm  
    located_in nucleus  
    part_of protein-DNA complex  
    part_of protein-DNA complex  

    General protein information

    Preferred Names
    nuclear transcription factor Y subunit alpha
    Names
    CAAT box DNA-binding protein subunit A
    CCAAT-binding transcription factor subunit A
    CCAAT-binding transcription factor subunit B
    nuclear transcription factor Y subunit A
    nuclear transcription factor-Y alpha

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001413345.1NP_001400274.1  nuclear transcription factor Y subunit alpha isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A8L2Q8B5
      Related
      ENSRNOP00000112249.1, ENSRNOT00000125437.1
    2. NM_001413346.1NP_001400275.1  nuclear transcription factor Y subunit alpha isoform 3

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A0G2KB97, A0A8L2Q8B5
      Related
      ENSRNOP00000075707.2, ENSRNOT00000091532.3
    3. NM_012865.3NP_036997.1  nuclear transcription factor Y subunit alpha isoform 2

      See identical proteins and their annotated locations for NP_036997.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/Swiss-Prot
      P18576
      UniProtKB/TrEMBL
      A0A8L2Q8B5
      Conserved Domains (1) summary
      pfam02045
      Location:257312
      CBFB_NFYA; CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086027.1 Reference GRCr8

      Range
      20085067..20111521
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006244411.5XP_006244473.1  nuclear transcription factor Y subunit alpha isoform X2

      See identical proteins and their annotated locations for XP_006244473.1

      UniProtKB/TrEMBL
      A0A8L2Q8B5
      Conserved Domains (1) summary
      pfam02045
      Location:262317
      CBFB_NFYA; CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B
    2. XM_063266815.1XP_063122885.1  nuclear transcription factor Y subunit alpha isoform X5

      UniProtKB/TrEMBL
      A0A8L2Q8B5
    3. XM_006244410.3XP_006244472.1  nuclear transcription factor Y subunit alpha isoform X1

      See identical proteins and their annotated locations for XP_006244472.1

      UniProtKB/TrEMBL
      A0A8I5Y9Y4, A0A8L2Q8B5
      Related
      ENSRNOP00000078156.1, ENSRNOT00000115817.2
      Conserved Domains (1) summary
      pfam02045
      Location:262317
      CBFB_NFYA; CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B
    4. XM_063266814.1XP_063122884.1  nuclear transcription factor Y subunit alpha isoform X4

      UniProtKB/TrEMBL
      A0A8L2Q8B5, A6JIF1
    5. XM_006244412.5XP_006244474.1  nuclear transcription factor Y subunit alpha isoform X3

      UniProtKB/TrEMBL
      A0A8L2Q8B5
      Conserved Domains (1) summary
      pfam02045
      Location:261316
      CBFB_NFYA; CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B
    6. XM_063266816.1XP_063122886.1  nuclear transcription factor Y subunit alpha isoform X6

      UniProtKB/TrEMBL
      A0A8L2Q8B5
    7. XM_017596305.3XP_017451794.1  nuclear transcription factor Y subunit alpha isoform X7

      UniProtKB/TrEMBL
      A0A8L2Q8B5, A6JIF2
      Conserved Domains (1) summary
      pfam02045
      Location:228283
      CBFB_NFYA; CCAAT-binding transcription factor (CBF-B/NF-YA) subunit B
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