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    Tcf21 transcription factor 21 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 252856, updated on 27-Nov-2024

    Summary

    Official Symbol
    Tcf21provided by RGD
    Official Full Name
    transcription factor 21provided by RGD
    Primary source
    RGD:620523
    See related
    EnsemblRapid:ENSRNOG00000016700 AllianceGenome:RGD:620523
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Pod1; Msf-1; Capsulin
    Summary
    Predicted to enable several functions, including DNA-binding transcription factor activity, RNA polymerase II-specific; DNA-binding transcription factor binding activity; and E-box binding activity. Involved in Sertoli cell differentiation; embryonic digestive tract morphogenesis; and gland development. Predicted to be located in nucleoplasm. Predicted to be part of transcription regulator complex. Human ortholog(s) of this gene implicated in coronary artery disease and ventricular septal defect. Orthologous to human TCF21 (transcription factor 21). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Lung (RPKM 332.5), Kidney (RPKM 161.5) and 6 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Tcf21 in Genome Data Viewer
    Location:
    1p12
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (24520499..24523358)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (22701353..22704212)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (23906717..23909576)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene EYA transcriptional coactivator and phosphatase 4 Neighboring gene uncharacterized LOC120098871 Neighboring gene uncharacterized LOC102555465 Neighboring gene uncharacterized LOC120098885 Neighboring gene TATA-box binding protein like 1

    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?

    General gene information

    Markers

    Clone Names

    • MGC112908

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in Sertoli cell differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within animal organ morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within branching involved in ureteric bud morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in branching involved in ureteric bud morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in branchiomeric skeletal muscle development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in branchiomeric skeletal muscle development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within bronchiole development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in bronchiole development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in developmental process IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in diaphragm development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in diaphragm development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in embryonic digestive tract morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within epithelial cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in epithelial cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in gland development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within glomerulus development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in glomerulus development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within kidney development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within lung alveolus development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lung alveolus development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within lung morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lung morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within lung vasculature development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in lung vasculature development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in metanephric glomerular capillary formation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in metanephric glomerular capillary formation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in metanephric mesenchymal cell differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in metanephric mesenchymal cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within morphogenesis of a branching structure ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in morphogenesis of a branching structure ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of androgen receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of androgen receptor signaling pathway ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of transcription by RNA polymerase II ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within reproductive structure development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in reproductive structure development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within respiratory system development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in respiratory system development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in roof of mouth development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in roof of mouth development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within sex determination ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in sex determination ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within sex differentiation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in spleen development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in spleen development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within ureteric bud development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in ureteric bud development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    acts_upstream_of_or_within vasculature development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in vasculature development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    located_in nucleus ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    part_of transcription regulator complex ISO
    Inferred from Sequence Orthology
    more info
     

    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_001032397.1NP_001027569.1  transcription factor 21

      See identical proteins and their annotated locations for NP_001027569.1

      Status: PROVISIONAL

      Source sequence(s)
      BC100106
      UniProtKB/TrEMBL
      A6JUP4, F7F049, Q498R2
      Related
      ENSRNOP00000022798.4, ENSRNOT00000022798.7
      Conserved Domains (1) summary
      cd19704
      Location:77140
      bHLH_TS_TCF21_capsulin; basic helix-loop-helix (bHLH) domain found in transcription factor 21 (TCF-21) and similar proteins

    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_086019.1 Reference GRCr8

      Range
      24520499..24523358
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)