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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
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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)

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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