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    tcf12 transcription factor 12 [ Danio rerio (zebrafish) ]

    Gene ID: 407985, updated on 14-Nov-2024

    Summary

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    Official Symbol
    tcf12provided by ZNC
    Official Full Name
    transcription factor 12provided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040516-11
    See related
    Ensembl:ENSDARG00000004714 AllianceGenome:ZFIN:ZDB-GENE-040516-11
    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
    TCF-12; zgc:85956; wu:fb74g05; wu:fc43e06; zgc:110341
    Summary
    Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within neuron projection development. Predicted to be located in chromatin. Predicted to be part of transcription regulator complex. Is expressed in several structures, including cranial vault; mesoderm; nervous system; neural tube; and presumptive diencephalon. Human ortholog(s) of this gene implicated in craniosynostosis and hypogonadotropic hypogonadism. Orthologous to human TCF12 (transcription factor 12). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See tcf12 in Genome Data Viewer
    Location:
    chromosome: 7
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 7 NC_007118.7 (52516711..52709860, complement)
    105 previous assembly GRCz10 (GCF_000002035.5) 7 NC_007118.6 (52241639..52434819, complement)

    Chromosome 7 - NC_007118.7Genomic Context describing neighboring genes Neighboring gene myocardial zonula adherens protein Neighboring gene cingulin-like 1 Neighboring gene zinc finger protein 280D Neighboring gene mitochondrial methionyl-tRNA formyltransferase

    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. On the traces of tcf12: Investigation of the gene expression pattern during development and cranial suture patterning in zebrafish (Danio rerio). Blümel R, et al. PLoS One, 2019. PMID 31188878, Free PMC Article
    2. Dithiocarbamates induce craniofacial abnormalities and downregulate sox9a during zebrafish development. van Boxtel AL, et al. Toxicol Sci, 2010 Sep. PMID 20530235
    3. TCF12 haploinsufficiency causes autosomal dominant Kallmann syndrome and reveals network-level interactions between causal loci. Davis EE, et al. Hum Mol Genet, 2020 Aug 11. PMID 32620954, Free PMC Article
    4. Altered bone growth dynamics prefigure craniosynostosis in a zebrafish model of Saethre-Chotzen syndrome. Teng CS, et al. Elife, 2018 Oct 25. PMID 30375332, Free PMC Article
    5. Analysis of gene network bifurcation during optic cup morphogenesis in zebrafish. Buono L, et al. Nat Commun, 2021 Jun 23. PMID 34162866, Free PMC Article

    See all (16) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. TCF12 haploinsufficiency causes autosomal dominant Kallmann syndrome and reveals network-level interactions between causal loci.
      Title: TCF12 haploinsufficiency causes autosomal dominant Kallmann syndrome and reveals network-level interactions between causal loci.
    2. we show that combinatorial loss of TCF12 and TWIST1 homologs in zebrafish also results in specific loss of the coronal suture
      Title: Altered bone growth dynamics prefigure craniosynostosis in a zebrafish model of Saethre-Chotzen syndrome.
    Submit: New GeneRIF Correction

    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 factor activity, RNA polymerase II-specific IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA polymerase II cis-regulatory region sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein dimerization activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within camera-type eye development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within cell differentiation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within nervous system development IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within neuron projection development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Component Evidence Code Pubs
    located_in chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of transcription regulator complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    transcription factor 12
    Names
    TF12

    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_214816.1 → NP_999981.1  transcription factor 12

      See identical proteins and their annotated locations for NP_999981.1

      Status: PROVISIONAL

      Source sequence(s)
      BC070024
      Related
      ENSDARP00000004196.8, ENSDART00000009938.11
      Conserved Domains (1) summary
      smart00353
      Location:434 → 487
      HLH; helix loop helix domain

    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_007118.7 Reference GRCz11 Primary Assembly

      Range
      52516711..52709860 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005166511.4 → XP_005166568.1  transcription factor 12 isoform X6

      UniProtKB/TrEMBL
      A0A1L1QZA0, A0A8M2BE12
      Related
      ENSDARP00000143021.1, ENSDART00000174117.2
      Conserved Domains (1) summary
      smart00353
      Location:590 → 643
      HLH; helix loop helix domain

    2. XM_005166508.4 → XP_005166565.1  transcription factor 12 isoform X3

      UniProtKB/TrEMBL
      A0A1L1QZH9, A0A8M2BDZ9
      Related
      ENSDARP00000143100.1, ENSDART00000174355.2
      Conserved Domains (1) summary
      smart00353
      Location:614 → 667
      HLH; helix loop helix domain

    3. XM_005166510.4 → XP_005166567.1  transcription factor 12 isoform X5

      UniProtKB/TrEMBL
      A0A8M2BDZ2
      Conserved Domains (1) summary
      smart00353
      Location:597 → 650
      HLH; helix loop helix domain

    4. XM_009303437.3 → XP_009301712.1  transcription factor 12 isoform X4

      UniProtKB/TrEMBL
      A0A8M3BB85
      Related
      ENSDARP00000123095.1, ENSDART00000131282.3
      Conserved Domains (1) summary
      smart00353
      Location:603 → 656
      HLH; helix loop helix domain

    5. XM_009303436.3 → XP_009301711.1  transcription factor 12 isoform X2

      UniProtKB/TrEMBL
      A0A8M3AUI8
      Conserved Domains (1) summary
      smart00353
      Location:621 → 674
      HLH; helix loop helix domain

    6. XM_009303435.4 → XP_009301710.1  transcription factor 12 isoform X1

      UniProtKB/Swiss-Prot
      A0A0R4IBL7, A0A8M1PFS7, E9QDA6, Q6NSM7
      Related
      ENSDARP00000132258.1, ENSDART00000161387.3
      Conserved Domains (1) summary
      smart00353
      Location:627 → 680
      HLH; helix loop helix domain

    7. XM_009303439.3 → XP_009301714.1  transcription factor 12 isoform X7

      UniProtKB/TrEMBL
      A0A1L1QZR8, A0A8M3B4D1
      Related
      ENSDARP00000143194.1, ENSDART00000174292.2
      Conserved Domains (1) summary
      smart00353
      Location:452 → 505
      HLH; helix loop helix domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A0A0R4IBL7.1 GenPept UniProtKB/Swiss-Prot:A0A0R4IBL7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.