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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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