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Nkx2-1 NK2 homeobox 1 [ Mus musculus (house mouse) ]

Gene ID: 21869, updated on 18-Sep-2018

Summary

Official Symbol
Nkx2-1provided by MGI
Official Full Name
NK2 homeobox 1provided by MGI
Primary source
MGI:MGI:108067
See related
Ensembl:ENSMUSG00000001496 Vega:OTTMUSG00000044396
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
T/EBP; Titf1; Ttf-1; Nkx2.1; AV026640
Annotation information
Note: Ttf1 (GeneID 22130) and Nkx2-1 (GeneID 21869) loci share the Ttf1 symbol/alias in common. Ttf1 is a widely used alternative name for thyroid transcription factor 1 (Nkx2-1) conflicting with the official symbol for transcription termination factor, RNA polymerase I (Ttf1). [13 Feb 2013]
Expression
Biased expression in lung adult (RPKM 102.7), whole brain E14.5 (RPKM 11.8) and 1 other tissue See more
Orthologs

Genomic context

See Nkx2-1 in Genome Data Viewer
Location:
12 C1; 12 24.42 cM
Exon count:
5
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 12 NC_000078.6 (56531935..56536908, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 12 NC_000078.5 (57632922..57637895, complement)

Chromosome 12 - NC_000078.6Genomic Context describing neighboring genes Neighboring gene predicted gene, 18027 Neighboring gene surfactant associated 3, pseudogene Neighboring gene predicted gene, 26973 Neighboring gene expressed sequence C87198 Neighboring gene NK2 homeobox 9

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)

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 ISO
Inferred from Sequence Orthology
more info
 
DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
DNA-binding transcription factor activity ISO
Inferred from Sequence Orthology
more info
 
RNA polymerase II distal enhancer sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA polymerase II proximal promoter sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA polymerase II regulatory region DNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
RNA polymerase II regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA polymerase II regulatory region sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
TBP-class protein binding ISO
Inferred from Sequence Orthology
more info
 
core promoter binding ISO
Inferred from Sequence Orthology
more info
 
enzyme binding ISO
Inferred from Sequence Orthology
more info
 
intronic transcription regulatory region DNA binding ISO
Inferred from Sequence Orthology
more info
PubMed 
intronic transcription regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein homodimerization activity ISO
Inferred from Sequence Orthology
more info
 
sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
 
transcription factor activity, RNA polymerase II distal enhancer sequence-specific binding IDA
Inferred from Direct Assay
more info
PubMed 
transcription factor binding ISO
Inferred from Sequence Orthology
more info
 
transcription regulatory region DNA binding IDA
Inferred from Direct Assay
more info
PubMed 
transcription regulatory region DNA binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
Clara cell differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
Leydig cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
anatomical structure formation involved in morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
animal organ morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
axon guidance IMP
Inferred from Mutant Phenotype
more info
PubMed 
brain development IGI
Inferred from Genetic Interaction
more info
PubMed 
brain development IMP
Inferred from Mutant Phenotype
more info
PubMed 
brain development ISO
Inferred from Sequence Orthology
more info
 
cerebral cortex GABAergic interneuron differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
cerebral cortex cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
cerebral cortex neuron differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
cerebral cortex neuron differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
developmental induction IMP
Inferred from Mutant Phenotype
more info
PubMed 
endoderm development IMP
Inferred from Mutant Phenotype
more info
PubMed 
feeding behavior ISO
Inferred from Sequence Orthology
more info
 
forebrain dorsal/ventral pattern formation IMP
Inferred from Mutant Phenotype
more info
PubMed 
forebrain neuron differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
forebrain neuron fate commitment IGI
Inferred from Genetic Interaction
more info
PubMed 
forebrain neuron fate commitment IMP
Inferred from Mutant Phenotype
more info
PubMed 
globus pallidus development IMP
Inferred from Mutant Phenotype
more info
PubMed 
globus pallidus development ISO
Inferred from Sequence Orthology
more info
 
hippocampus development IMP
Inferred from Mutant Phenotype
more info
PubMed 
hyperosmotic salinity response ISO
Inferred from Sequence Orthology
more info
 
locomotory behavior IMP
Inferred from Mutant Phenotype
more info
PubMed 
locomotory behavior ISO
Inferred from Sequence Orthology
more info
 
lung development IGI
Inferred from Genetic Interaction
more info
PubMed 
lung development IMP
Inferred from Mutant Phenotype
more info
PubMed 
lung development ISO
Inferred from Sequence Orthology
more info
 
lung saccule development IGI
Inferred from Genetic Interaction
more info
PubMed 
menarche IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of cell migration ISO
Inferred from Sequence Orthology
more info
 
negative regulation of epithelial to mesenchymal transition ISO
Inferred from Sequence Orthology
more info
 
negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
PubMed 
negative regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of transforming growth factor beta receptor signaling pathway ISO
Inferred from Sequence Orthology
more info
 
neuron fate commitment IMP
Inferred from Mutant Phenotype
more info
PubMed 
neuron migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
oligodendrocyte differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
pattern specification process IGI
Inferred from Genetic Interaction
more info
PubMed 
phospholipid metabolic process IGI
Inferred from Genetic Interaction
more info
PubMed 
pituitary gland development IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of circadian rhythm IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
 
positive regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription by RNA polymerase II IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
PubMed 
positive regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
positive regulation of transcription, DNA-templated IGI
Inferred from Genetic Interaction
more info
PubMed 
positive regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
regulation of blood volume by renin-angiotensin ISO
Inferred from Sequence Orthology
more info
 
regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
PubMed 
regulation of transcription, DNA-templated IDA
Inferred from Direct Assay
more info
PubMed 
regulation of transcription, DNA-templated ISO
Inferred from Sequence Orthology
more info
 
response to lipopolysaccharide ISO
Inferred from Sequence Orthology
more info
 
rhythmic process IEA
Inferred from Electronic Annotation
more info
 
telencephalon cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
telencephalon development IMP
Inferred from Mutant Phenotype
more info
PubMed 
thyroid gland development IGI
Inferred from Genetic Interaction
more info
PubMed 
thyroid gland development IMP
Inferred from Mutant Phenotype
more info
PubMed 
thyroid gland development ISO
Inferred from Sequence Orthology
more info
 
transcription, DNA-templated IEA
Inferred from Electronic Annotation
more info
 
type II pneumocyte differentiation IGI
Inferred from Genetic Interaction
more info
PubMed 
Component Evidence Code Pubs
nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
nucleus ISO
Inferred from Sequence Orthology
more info
 
transcription factor complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
homeobox protein Nkx-2.1
Names
thyroid nuclear factor 1
thyroid transcription factor 1
thyroid-specific enhancer-binding protein
tinman

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_009385.3NP_033411.3  homeobox protein Nkx-2.1

    See identical proteins and their annotated locations for NP_033411.3

    Status: VALIDATED

    Source sequence(s)
    AC160393, BC057607
    Consensus CDS
    CCDS25922.1
    UniProtKB/Swiss-Prot
    P50220
    UniProtKB/TrEMBL
    Q6PFE0
    Related
    ENSMUSP00000001536.7, OTTMUSP00000065279, ENSMUST00000001536.8, OTTMUST00000116869
    Conserved Domains (1) summary
    pfam00046
    Location:164217
    Homeobox; Homeobox domain

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_000078.6 Reference GRCm38.p4 C57BL/6J

    Range
    56531935..56536908 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006515791.2XP_006515854.1  homeobox protein Nkx-2.1 isoform X2

    Conserved Domains (1) summary
    pfam00046
    Location:194247
    Homeobox; Homeobox domain
  2. XM_011244101.2XP_011242403.1  homeobox protein Nkx-2.1 isoform X1

    Conserved Domains (1) summary
    pfam00046
    Location:215268
    Homeobox; Homeobox domain

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001146198.1: Suppressed sequence

    Description
    NM_001146198.1: This RefSeq was removed because currently there is insufficient support for the transcript.
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