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    Hcn3 hyperpolarization-activated cyclic nucleotide-gated potassium channel 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 114245, updated on 27-Nov-2024

    Summary

    Official Symbol
    Hcn3provided by RGD
    Official Full Name
    hyperpolarization-activated cyclic nucleotide-gated potassium channel 3provided by RGD
    Primary source
    RGD:620691
    See related
    EnsemblRapid:ENSRNOG00000020444 AllianceGenome:RGD:620691
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable voltage-gated potassium channel activity and voltage-gated sodium channel activity. Involved in cellular response to dopamine. Located in cone cell pedicle; dendrite; and neuronal cell body. Biomarker of Parkinson's disease. Orthologous to human HCN3 (hyperpolarization activated cyclic nucleotide gated potassium channel 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 22.0), Liver (RPKM 14.6) and 4 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Hcn3 in Genome Data Viewer
    Location:
    2q34
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (176849635..176867726, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (174551861..174567459, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (188458851..188471916, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene RUN and SH3 domain containing 1 Neighboring gene RNA, U6 small nuclear 909 Neighboring gene farnesyl diphosphate synthase Neighboring gene pyruvate kinase L/R Neighboring gene CDC-like kinase 2 Neighboring gene microRNA 3541 Neighboring gene secretory carrier membrane protein 3

    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

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables cAMP binding IEA
    Inferred from Electronic Annotation
    more info
     
    NOT enables intracellularly cAMP-activated cation channel activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables voltage-gated potassium channel activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables voltage-gated potassium channel activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables voltage-gated sodium channel activity ISO
    Inferred from Sequence Orthology
    more info
     
    Process Evidence Code Pubs
    NOT involved_in cellular response to cAMP ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cellular response to dopamine IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    involved_in potassium ion transmembrane transport IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in potassium ion transmembrane transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of membrane depolarization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in regulation of membrane potential ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in sodium ion transmembrane transport IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in sodium ion transmembrane transport ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    part_of HCN channel complex IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    is_active_in axon IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in axon IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cone cell pedicle IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in dendrite IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in dendrite IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in neuronal cell body IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3

    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_053685.2NP_446137.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3

      See identical proteins and their annotated locations for NP_446137.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/Swiss-Prot
      Q9JKA8
      Related
      ENSRNOP00000027785.2, ENSRNOT00000027785.5
      Conserved Domains (4) summary
      COG0664
      Location:421557
      Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
      cd00038
      Location:427535
      CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...
      pfam00520
      Location:110357
      Ion_trans; Ion transport protein
      pfam08412
      Location:4890
      Ion_trans_N; Ion transport protein N-terminal

    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_086020.1 Reference GRCr8

      Range
      176849635..176867726 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063281145.1XP_063137215.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X1

      UniProtKB/TrEMBL
      A6J6C2
      Related
      ENSRNOP00000101628.1, ENSRNOT00000134927.1
    2. XM_063281147.1XP_063137217.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X2

    3. XM_063281144.1XP_063137214.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X1

      UniProtKB/TrEMBL
      A6J6C2
      Related
      ENSRNOP00000110689.1, ENSRNOT00000153967.1
    4. XM_039101557.2XP_038957485.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X2

      Conserved Domains (3) summary
      PLN03192
      Location:37305
      PLN03192; Voltage-dependent potassium channel; Provisional
      PHA03247
      Location:388564
      PHA03247; large tegument protein UL36; Provisional
      cd00038
      Location:216324
      CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...
    5. XM_039101558.2XP_038957486.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X2

      Conserved Domains (3) summary
      PLN03192
      Location:37305
      PLN03192; Voltage-dependent potassium channel; Provisional
      PHA03247
      Location:388564
      PHA03247; large tegument protein UL36; Provisional
      cd00038
      Location:216324
      CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...
    6. XM_039101556.2XP_038957484.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X1

      UniProtKB/TrEMBL
      A6J6C2
      Conserved Domains (3) summary
      PHA03307
      Location:491674
      PHA03307; transcriptional regulator ICP4; Provisional
      cd00038
      Location:329437
      CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...
      pfam00520
      Location:1259
      Ion_trans; Ion transport protein
    7. XM_039101559.2XP_038957487.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X3

      Conserved Domains (3) summary
      PLN03192
      Location:10278
      PLN03192; Voltage-dependent potassium channel; Provisional
      PHA03247
      Location:361537
      PHA03247; large tegument protein UL36; Provisional
      cd00038
      Location:189297
      CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...