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    Tcf12 transcription factor 12 [ Mus musculus (house mouse) ]

    Gene ID: 21406, updated on 2-Apr-2019

    Summary

    Official Symbol
    Tcf12provided by MGI
    Official Full Name
    transcription factor 12provided by MGI
    Primary source
    MGI:MGI:101877
    See related
    Ensembl:ENSMUSG00000032228
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    HEB; ME1; REB; ALF1; HTF4; HTF-4; HEBAlt; bHLHb20; A130037E08Rik
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 41.6), limb E14.5 (RPKM 34.8) and 27 other tissues See more
    Orthologs

    Genomic context

    See Tcf12 in Genome Data Viewer
    Location:
    9 D; 9 39.85 cM
    Exon count:
    24
    Annotation release Status Assembly Chr Location
    106 current GRCm38.p4 (GCF_000001635.24) 9 NC_000075.6 (71844252..72111819, complement)
    Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 9 NC_000075.5 (71692059..71959626, complement)

    Chromosome 9 - NC_000075.6Genomic Context describing neighboring genes Neighboring gene dynein light chain 1, cytoplasmic-like Neighboring gene cingulin-like 1 Neighboring gene splicing factor, arginine/serine-rich 7 pseudogene Neighboring gene ribosomal protein L15, pseudogene 2 Neighboring gene ribosomal protein L7A pseudogene Neighboring gene ubitquitin A-52 residue ribosomal protein fusion product 1, pseudogene

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Pathways from BioSystems

    • Id Signaling Pathway, organism-specific biosystem (from WikiPathways)
      Id Signaling Pathway, organism-specific biosystemInhibitor of DNA binding (ID) proteins are members of the helix-loop-helix (HLH) family of proteins which lack a DNA binding domain themselves but bind to other family members inhibiting their DNA bi...

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    DNA-binding transcription activator activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
     
    DNA-binding transcription factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
     
    E-box binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    HMG box domain binding ISO
    Inferred from Sequence Orthology
    more info
     
    RNA polymerase II proximal promoter sequence-specific DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    RNA polymerase II proximal promoter sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    SMAD binding ISO
    Inferred from Sequence Orthology
    more info
     
    bHLH transcription factor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    bHLH transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    cAMP response element binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein dimerization activity IEA
    Inferred from Electronic Annotation
    more info
     
    protein heterodimerization activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    protein heterodimerization activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein homodimerization activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
     
    contributes_to transcription regulatory region DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    cell differentiation IEA
    Inferred from Electronic Annotation
    more info
     
    multicellular organism development IEA
    Inferred from Electronic Annotation
    more info
     
    nervous system development IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of neuron differentiation IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of neuron differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    positive regulation of transcription by RNA polymerase II IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of transcription, DNA-templated IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    RNA polymerase II transcription factor complex ISO
    Inferred from Sequence Orthology
    more info
     
    cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
     
    nuclear chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    nuclear speck ISO
    Inferred from Sequence Orthology
    more info
     
    nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    nucleus ISO
    Inferred from Sequence Orthology
    more info
     
    transcription factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    transcription factor complex IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    transcription factor 12
    Names
    DNA-binding protein HTF4
    E-box-binding protein
    TCF-12
    class A helix-loop-helix transcription factor ME1
    transcription factor HTF-4

    NCBI Reference Sequences (RefSeq)

    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_001253862.1NP_001240791.1  transcription factor 12 isoform 2

      See identical proteins and their annotated locations for NP_001240791.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses a different segment for its 5' UTR and lacks an alternate exon in the 3' coding region, compared to variant 1. The resulting protein (isoform 2) is shorter when it is compared to isoform 1.
      Source sequence(s)
      AK133958, AK134037, AK134502, BQ127642
      Consensus CDS
      CCDS72272.1
      UniProtKB/TrEMBL
      Q3UZ69, Q3UZA4
      Conserved Domains (1) summary
      smart00353
      Location:583636
      HLH; helix loop helix domain
    2. NM_001253863.1NP_001240792.1  transcription factor 12 isoform 3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) has a different 5' end and lacks several exon in the coding region, which results in the use of a downstream start codon, compared to variant 1. The resulting protein (isoform 3) is shorter and has a distinct N-terminus when it is compared to isoform 1.
      Source sequence(s)
      AK133958, AK134502, AK135376, BQ127642, CJ164494
      Consensus CDS
      CCDS72271.1
      UniProtKB/TrEMBL
      Q3UXQ3, Q3UZA4, V9GX46
      Related
      ENSMUSP00000138978.1, ENSMUST00000183918.7
      Conserved Domains (2) summary
      smart00353
      Location:437490
      HLH; helix loop helix domain
      pfam09786
      Location:105292
      CytochromB561_N; Cytochrome B561, N terminal
    3. NM_001253864.1NP_001240793.1  transcription factor 12 isoform 4

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) has a different 5' end and lacks several exons in the coding region, which results in the use of a downstream start codon, compared to variant 1. The resulting protein (isoform 4) is shorter and has a distinct N-terminus when it is compared to isoform 1.
      Source sequence(s)
      AK133958, AK134502, AK135376, BQ127642, CJ164494
      UniProtKB/TrEMBL
      Q3UXQ3, Q3UZA4
      Related
      ENSMUSP00000139334.1, ENSMUST00000184448.7
      Conserved Domains (1) summary
      smart00353
      Location:413466
      HLH; helix loop helix domain
    4. NM_001253865.1NP_001240794.1  transcription factor 12 isoform 5

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) lacks several exons in the coding region, compared to variant 1. The resulting protein (isoform 5) is shorter when it is compared to isoform 1.
      Source sequence(s)
      AK133958, AK134502, BQ127642, BY739497, X64840
      UniProtKB/Swiss-Prot
      Q61286
      UniProtKB/TrEMBL
      Q3UZA4
      Conserved Domains (1) summary
      smart00353
      Location:364417
      HLH; helix loop helix domain
    5. NM_011544.3NP_035674.2  transcription factor 12 isoform 1

      See identical proteins and their annotated locations for NP_035674.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and it encodes the longest protein (isoform 1).
      Source sequence(s)
      AK133958, AK134502, AK143246, BQ127642, BY739497, X64840
      Consensus CDS
      CCDS23329.1
      UniProtKB/Swiss-Prot
      Q61286
      UniProtKB/TrEMBL
      Q3TE72, Q3UZA4
      Related
      ENSMUSP00000139365.1, ENSMUST00000183404.7
      Conserved Domains (2) summary
      smart00353
      Location:607660
      HLH; helix loop helix domain
      pfam09786
      Location:275462
      CytochromB561_N; Cytochrome B561, N terminal

    RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

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

    Reference GRCm38.p4 C57BL/6J

    Genomic

    1. NC_000075.6 Reference GRCm38.p4 C57BL/6J

      Range
      71844252..72111819 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006510998.2XP_006511061.1  transcription factor 12 isoform X5

      Conserved Domains (1) summary
      smart00353
      Location:582635
      HLH; helix loop helix domain
    2. XM_006510999.2XP_006511062.1  transcription factor 12 isoform X6

      Conserved Domains (1) summary
      smart00353
      Location:582635
      HLH; helix loop helix domain
    3. XM_006510997.2XP_006511060.1  transcription factor 12 isoform X4

      See identical proteins and their annotated locations for XP_006511060.1

      UniProtKB/Swiss-Prot
      Q61286
      Related
      ENSMUSP00000034755.6, ENSMUST00000034755.12
      Conserved Domains (1) summary
      smart00353
      Location:583636
      HLH; helix loop helix domain
    4. XM_006510995.2XP_006511058.1  transcription factor 12 isoform X2

      Conserved Domains (2) summary
      smart00353
      Location:606659
      HLH; helix loop helix domain
      pfam09786
      Location:275461
      CytochromB561_N; Cytochrome B561, N terminal
    5. XM_006510996.2XP_006511059.1  transcription factor 12 isoform X3

      Conserved Domains (2) summary
      smart00353
      Location:606659
      HLH; helix loop helix domain
      pfam09786
      Location:275462
      CytochromB561_N; Cytochrome B561, N terminal
    6. XM_017313270.1XP_017168759.1  transcription factor 12 isoform X8

    7. XM_006511000.3XP_006511063.1  transcription factor 12 isoform X7

      Related
      ENSMUSP00000138832.1, ENSMUST00000184523.7
      Conserved Domains (2) summary
      smart00353
      Location:549602
      HLH; helix loop helix domain
      pfam09786
      Location:217404
      CytochromB561_N; Cytochrome B561, N terminal
    8. XM_006510994.3XP_006511057.1  transcription factor 12 isoform X1

      See identical proteins and their annotated locations for XP_006511057.1

      UniProtKB/Swiss-Prot
      Q61286
      Conserved Domains (2) summary
      smart00353
      Location:607660
      HLH; helix loop helix domain
      pfam09786
      Location:275462
      CytochromB561_N; Cytochrome B561, N terminal
    9. XM_006511002.1XP_006511065.1  transcription factor 12 isoform X9

      Conserved Domains (1) summary
      smart00353
      Location:446499
      HLH; helix loop helix domain
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