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    Hnf1a HNF1 homeobox A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 24817, updated on 27-Nov-2024

    Summary

    Official Symbol
    Hnf1aprovided by RGD
    Official Full Name
    HNF1 homeobox Aprovided by RGD
    Primary source
    RGD:3828
    See related
    EnsemblRapid:ENSRNOG00000001183 AllianceGenome:RGD:3828
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    HNF1; Lfb1; Tcf1; LF-B1
    Summary
    Enables DNA binding activity; DNA-binding transcription activator activity, RNA polymerase II-specific; and transcription coactivator binding activity. Involved in several processes, including positive regulation of cell communication; regulation of gene expression; and regulation of phosphate metabolic process. Located in chromatin and nucleus. Part of protein-containing complex. Used to study hepatocellular adenoma and hepatocellular carcinoma. Biomarker of extrahepatic cholestasis and kidney disease. Human ortholog(s) of this gene implicated in several diseases, including artery disease (multiple); cerebral infarction; glucose metabolism disease (multiple); liver disease (multiple); and renal cell carcinoma. Orthologous to human HNF1A (HNF1 homeobox A). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Kidney (RPKM 154.8), Liver (RPKM 66.8) and 1 other tissue See more
    Orthologs
    NEW
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    Genomic context

    See Hnf1a in Genome Data Viewer
    Location:
    12q16
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (47299171..47333457)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (41638536..41672806)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (47407811..47433342)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene acyl-CoA dehydrogenase short chain Neighboring gene signal peptide peptidase like 3 Neighboring gene similar to human chromosome 12 open reading frame 43 Neighboring gene uncharacterized LOC134481304 Neighboring gene 2'-5'-oligoadenylate synthetase-like Neighboring gene uncharacterized LOC120096007 Neighboring gene 2'-5' oligoadenylate synthetase-like 2

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by RGD

    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
     
    enables DNA-binding transcription activator activity, RNA polymerase II-specific IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables DNA-binding transcription factor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables DNA-binding transcription factor activity ISO
    Inferred from Sequence Orthology
    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 RNA polymerase II cis-regulatory region sequence-specific DNA binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables double-stranded DNA binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables transcription cis-regulatory region binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables transcription cis-regulatory region binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables transcription coactivator binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables transcription coregulator binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in D-glucose import ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in activation of protein kinase activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in apoptotic nuclear changes IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within bile acid and bile salt transport ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within bile acid biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within blastocyst development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within bone resorption ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to L-leucine IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cellular response to glucose stimulus IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in cellular response to rapamycin IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within cholesterol metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in chromatin remodeling ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within embryonic limb morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within fatty acid biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within fatty acid transport ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within glucose homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in glucose homeostasis ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within heme biosynthetic process ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within insulin secretion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in insulin secretion ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within liver development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of miRNA processing IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of peptidyl-threonine phosphorylation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in pancreas development IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within paraxial mesoderm formation ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within placenta development ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of ATP biosynthetic process 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
     
    involved_in positive regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of DNA-templated transcription ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of gene expression IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of insulin secretion IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in positive regulation of mitochondrial membrane potential IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in positive regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within 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 ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of NADP metabolic process IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within regulation of Wnt signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within regulation of hormone secretion ISO
    Inferred from Sequence Orthology
    more info
     
    NOT involved_in regulation of pronephros size ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of protein phosphorylation 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 ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in renal D-glucose absorption ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within reproductive structure development ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within response to glucose ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within response to oxidative stress ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within reverse cholesterol transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in transcription by RNA polymerase II IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    located_in chromatin IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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
     
    located_in photoreceptor outer segment ISO
    Inferred from Sequence Orthology
    more info
     
    located_in pronucleus ISO
    Inferred from Sequence Orthology
    more info
     
    part_of protein-containing complex IDA
    Inferred from Direct Assay
    more info
    PubMed 
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     
    part_of transcription regulator complex ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    hepatocyte nuclear factor 1-alpha
    Names
    HNF-1-alpha
    HNF-1A
    LF-B1, hepatic nuclear factor (HNF1): albumin proximal factor, also TCF1
    TCF-1
    Transcription factor 1, hepatic
    albumin proximal factor
    hepatic nuclear factor 1
    hepatic nuclear factor-1-alpha
    liver-specific transcription factor LF-B1

    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_012669.1NP_036801.1  hepatocyte nuclear factor 1-alpha

      See identical proteins and their annotated locations for NP_036801.1

      Status: PROVISIONAL

      Source sequence(s)
      J03170
      UniProtKB/Swiss-Prot
      P15257
      UniProtKB/TrEMBL
      A6J1X4
      Related
      ENSRNOP00000001565.2, ENSRNOT00000001565.5
      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_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086030.1 Reference GRCr8

      Range
      47299171..47333457
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039089095.2XP_038945023.1  hepatocyte nuclear factor 1-alpha isoform X1

      Conserved Domains (4) summary
      cd00086
      Location:93166
      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:175431
      HNF-1B_C; Hepatocyte nuclear factor 1 (HNF-1), beta isoform C-terminus
      pfam04813
      Location:433520
      HNF-1A_C; Hepatocyte nuclear factor 1 (HNF-1), alpha isoform C-terminus
      pfam04814
      Location:161
      HNF-1_N; Hepatocyte nuclear factor 1 (HNF-1), N-terminus