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    HCN3 hyperpolarization activated cyclic nucleotide gated potassium channel 3 [ Homo sapiens (human) ]

    Gene ID: 57657, updated on 27-Nov-2024

    Summary

    Official Symbol
    HCN3provided by HGNC
    Official Full Name
    hyperpolarization activated cyclic nucleotide gated potassium channel 3provided by HGNC
    Primary source
    HGNC:HGNC:19183
    See related
    Ensembl:ENSG00000143630 MIM:609973; AllianceGenome:HGNC:19183
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Summary
    This gene encodes a multi-pass membrane protein that functions as a voltage gated cation channel. The encoded protein is a member of a family of closely related cyclic adenosine monophosphate-binding channel proteins. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Aug 2012]
    Expression
    Ubiquitous expression in liver (RPKM 3.6), duodenum (RPKM 2.6) and 25 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:
    1q22
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (155277463..155289848)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (154416023..154428409)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (155247254..155259639)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene secretory carrier membrane protein 3 Neighboring gene CDC like kinase 2 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:155243888-155244388 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:155254443-155254943 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:155263898-155264430 Neighboring gene pyruvate kinase L/R Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:155275791-155276290 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1812 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1813 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1814 Neighboring gene farnesyl diphosphate synthase Neighboring gene RUSC1 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1400 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:155291392-155292375 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1401 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1402 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1403 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1404 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1405 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1815 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:155295943-155296500 Neighboring gene RUN and SH3 domain containing 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    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

    Clone Names

    • KIAA1535, MGC131493

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables cAMP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables voltage-gated potassium channel activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables voltage-gated potassium channel activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables voltage-gated potassium channel activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    enables voltage-gated sodium channel activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables voltage-gated sodium channel activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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 cone cell pedicle IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in dendrite IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in neuronal cell body IEA
    Inferred from Electronic Annotation
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    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_020897.3NP_065948.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3

      See identical proteins and their annotated locations for NP_065948.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the protein.
      Source sequence(s)
      AB040968, AL713999, BC028024, DA127524
      Consensus CDS
      CCDS1108.1
      UniProtKB/Swiss-Prot
      D3DV90, Q4VX12, Q8N6W6, Q9BWQ2, Q9P1Z3
      UniProtKB/TrEMBL
      Q86WJ5
      Related
      ENSP00000357342.3, ENST00000368358.4
      Conserved Domains (4) summary
      COG0664
      Location:422560
      Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
      cd00038
      Location:428536
      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:111358
      Ion_trans; Ion transport protein
      pfam08412
      Location:4991
      Ion_trans_N; Ion transport protein N-terminal

    RNA

    1. NR_073074.2 RNA Sequence

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) differs at the 3' end and uses an alternate internal splice site, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      AK299333, AL713999

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      155277463..155289848
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011509817.3XP_011508119.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X2

      See identical proteins and their annotated locations for XP_011508119.1

      UniProtKB/TrEMBL
      Q86WJ5
      Conserved Domains (4) summary
      COG0664
      Location:368506
      Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
      cd00038
      Location:374482
      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:111304
      Ion_trans; Ion transport protein
      pfam08412
      Location:4991
      Ion_trans_N; Ion transport protein N-terminal
    2. XM_011509816.4XP_011508118.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X1

      See identical proteins and their annotated locations for XP_011508118.1

      UniProtKB/TrEMBL
      Q86WJ5
      Conserved Domains (3) summary
      COG0664
      Location:375513
      Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
      cd00038
      Location:381489
      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:64311
      Ion_trans; Ion transport protein
    3. XM_047426226.1XP_047282182.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X3

    4. XM_011509818.2XP_011508120.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X4

      See identical proteins and their annotated locations for XP_011508120.1

      UniProtKB/TrEMBL
      B7Z5R8
      Conserved Domains (3) summary
      COG0664
      Location:183321
      Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
      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 ...
      pfam00520
      Location:5119
      Ion_trans; Ion transport protein
    5. XM_017001918.2XP_016857407.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X4

      UniProtKB/TrEMBL
      B7Z5R8
      Conserved Domains (3) summary
      COG0664
      Location:183321
      Crp; cAMP-binding domain of CRP or a regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]
      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 ...
      pfam00520
      Location:5119
      Ion_trans; Ion transport protein

    RNA

    1. XR_921904.3 RNA Sequence

    2. XR_921903.3 RNA Sequence

    3. XR_007062431.1 RNA Sequence

    4. XR_921905.3 RNA Sequence

    5. XR_007062434.1 RNA Sequence

    6. XR_007062432.1 RNA Sequence

    7. XR_007062433.1 RNA Sequence

    8. XR_007062435.1 RNA Sequence

    Reference GRCh38.p14 ALT_REF_LOCI_1

    Genomic

    1. NW_003315906.1 Reference GRCh38.p14 ALT_REF_LOCI_1

      Range
      82486..94871
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054329479.1XP_054185454.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X2

    2. XM_054329478.1XP_054185453.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X1

    3. XM_054329480.1XP_054185455.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X3

    4. XM_054329481.1XP_054185456.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X4

    5. XM_054329482.1XP_054185457.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X4

    RNA

    1. XR_008485643.1 RNA Sequence

    2. XR_008485642.1 RNA Sequence

    3. XR_008485645.1 RNA Sequence

    4. XR_008485644.1 RNA Sequence

    5. XR_008485648.1 RNA Sequence

    6. XR_008485646.1 RNA Sequence

    7. XR_008485647.1 RNA Sequence

    8. XR_008485649.1 RNA Sequence

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      154416023..154428409
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054337899.1XP_054193874.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X1

    2. XM_054337900.1XP_054193875.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X3

    3. XM_054337901.1XP_054193876.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X4

    4. XM_054337902.1XP_054193877.1  potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 isoform X4

    RNA

    1. XR_008486122.1 RNA Sequence

    2. XR_008486121.1 RNA Sequence

    3. XR_008486124.1 RNA Sequence

    4. XR_008486123.1 RNA Sequence

    5. XR_008486127.1 RNA Sequence

    6. XR_008486125.1 RNA Sequence

    7. XR_008486126.1 RNA Sequence

    8. XR_008486128.1 RNA Sequence