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    Hnf1a HNF1 homeobox A [ Mus musculus (house mouse) ]

    Gene ID: 21405, updated on 12-May-2024

    Summary

    Official Symbol
    Hnf1aprovided by MGI
    Official Full Name
    HNF1 homeobox Aprovided by MGI
    Primary source
    MGI:MGI:98504
    See related
    Ensembl:ENSMUSG00000029556 AllianceGenome:MGI:98504
    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
    HNF1; LFB1; Tcf1; Hnf-1; Tcf-1; HNF1[a]; Hnf1alpha; HNF1-alpha
    Summary
    This gene encodes a hepatic transcription factor. The encoded protein is not a member of the T-cell factor family, and is distinct from T-cell specific transcription factor 7 which has also been referred to by the symbol Tcf1. [provided by RefSeq, Jul 2008]
    Expression
    Biased expression in small intestine adult (RPKM 18.4), duodenum adult (RPKM 16.8) and 10 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Hnf1a in Genome Data Viewer
    Location:
    5 55.99 cM; 5 F
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (115087039..115109121, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (114948980..114971062, complement)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 2210016L21 gene Neighboring gene 2'-5' oligoadenylate synthetase-like 1 Neighboring gene STARR-positive B cell enhancer ABC_E1057 Neighboring gene STARR-seq mESC enhancer starr_14093 Neighboring gene HNF1 homeobox A, opposite strand 1 Neighboring gene STARR-seq mESC enhancer starr_14096 Neighboring gene signal peptide peptidase 3 Neighboring gene STARR-seq mESC enhancer starr_14098 Neighboring gene STARR-seq mESC enhancer starr_14099 Neighboring gene predicted gene, 54336 Neighboring gene ribosomal protein L37, retrotransposed

    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 Functions

    What's a GeneRIF?

    Variation

    Alleles

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

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables DNA binding ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    enables DNA-binding transcription activator activity, RNA polymerase II-specific ISO
    Inferred from Sequence Orthology
    more info
     
    enables DNA-binding transcription factor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables DNA-binding transcription factor activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    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 RNA polymerase II cis-regulatory region sequence-specific DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables chromatin binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables identical protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein dimerization activity IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein dimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein heterodimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein homodimerization activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription cis-regulatory region binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription coactivator binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription coregulator binding ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    involved_in apoptotic nuclear changes ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within bile acid and bile salt transport IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within bile acid biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within blastocyst development IMP
    Inferred from Mutant Phenotype
    more info
     
    acts_upstream_of_or_within bone resorption IGI
    Inferred from Genetic Interaction
    more info
     
    involved_in cellular response to L-leucine ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to glucose stimulus ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to rapamycin ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within cholesterol metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within chromatin remodeling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in chromatin remodeling IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within embryonic limb morphogenesis IGI
    Inferred from Genetic Interaction
    more info
     
    acts_upstream_of_or_within fatty acid biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within fatty acid transport IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in glucose homeostasis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within glucose homeostasis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in glucose homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in glucose import IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in glucose import ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within heme biosynthetic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within insulin secretion IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in insulin secretion ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within liver development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of apoptotic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of miRNA processing ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of peptidyl-threonine phosphorylation ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in pancreas development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within paraxial mesoderm formation IGI
    Inferred from Genetic Interaction
    more info
     
    acts_upstream_of_or_within placenta development IGI
    Inferred from Genetic Interaction
    more info
     
    involved_in positive regulation of ATP biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of DNA-templated transcription IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of mitochondrial membrane potential ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of protein phosphorylation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of transcription initiation by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within protein localization IMP
    Inferred from Mutant Phenotype
    more info
     
    acts_upstream_of_or_within regulation of DNA-templated transcription IMP
    Inferred from Mutant Phenotype
    more info
     
    acts_upstream_of_or_within regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    involved_in regulation of NADP metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of Wnt signaling pathway IGI
    Inferred from Genetic Interaction
    more info
     
    acts_upstream_of_or_within regulation of hormone secretion 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
     
    acts_upstream_of_or_within regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within regulation of transcription by RNA polymerase II IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in renal glucose absorption IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in renal glucose absorption ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within reproductive structure development IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within response to glucose IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within response to oxidative stress IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within reverse cholesterol transport IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of chromatin ISO
    Inferred from Sequence Orthology
    more info
     
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
     
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    PubMed 
    located_in photoreceptor outer segment IGI
    Inferred from Genetic Interaction
    more info
     
    located_in pronucleus IDA
    Inferred from Direct Assay
    more info
     
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of transcription regulator complex IPI
    Inferred from Physical Interaction
    more info
    PubMed 

    General protein information

    Preferred Names
    hepatocyte nuclear factor 1-alpha
    Names
    liver-specific transcription factor LF-B1
    transcription factor 1

    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_009327.3NP_033353.2  hepatocyte nuclear factor 1-alpha

      See identical proteins and their annotated locations for NP_033353.2

      Status: VALIDATED

      Source sequence(s)
      AK141225, AK144051, BC080698
      Consensus CDS
      CCDS19577.1
      UniProtKB/Swiss-Prot
      E9QP86, P22361
      UniProtKB/TrEMBL
      Q66JY7
      Related
      ENSMUSP00000031535.5, ENSMUST00000031535.12
      Conserved Domains (4) summary
      cd00086
      Location:200273
      homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
      pfam04812
      Location:282538
      HNF-1B_C; Hepatocyte nuclear factor 1 (HNF-1), beta isoform C terminus
      pfam04813
      Location:540627
      HNF-1A_C; Hepatocyte nuclear factor 1 (HNF-1), alpha isoform C terminus
      pfam04814
      Location:8167
      HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N terminus

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000071.7 Reference GRCm39 C57BL/6J

      Range
      115087039..115109121 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011248192.2XP_011246494.1  hepatocyte nuclear factor 1-alpha isoform X1

      UniProtKB/TrEMBL
      Q66JY7
      Conserved Domains (4) summary
      cd00086
      Location:83156
      homeodomain; Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
      pfam04812
      Location:165421
      HNF-1B_C; Hepatocyte nuclear factor 1 (HNF-1), beta isoform C-terminus
      pfam04813
      Location:423510
      HNF-1A_C; Hepatocyte nuclear factor 1 (HNF-1), alpha isoform C-terminus
      pfam04814
      Location:151
      HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus