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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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