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    Slc22a4 solute carrier family 22 (organic cation transporter), member 4 [ Mus musculus (house mouse) ]

    Gene ID: 30805, updated on 9-Dec-2024

    Summary

    Official Symbol
    Slc22a4provided by MGI
    Official Full Name
    solute carrier family 22 (organic cation transporter), member 4provided by MGI
    Primary source
    MGI:MGI:1353479
    See related
    Ensembl:ENSMUSG00000020334 AllianceGenome:MGI:1353479
    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
    Octn1
    Summary
    Enables carnitine transmembrane transporter activity. Acts upstream of or within carnitine metabolic process; carnitine transport; and triglyceride metabolic process. Located in apical plasma membrane and mitochondrial membrane. Is expressed in several structures, including integumental system; liver; musculoskeletal system; nervous system; and nose. Used to study inflammatory bowel disease 1. Human ortholog(s) of this gene implicated in rheumatoid arthritis. Orthologous to human SLC22A4 (solute carrier family 22 member 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in kidney adult (RPKM 12.0), liver E14.5 (RPKM 10.1) and 17 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Slc22a4 in Genome Data Viewer
    Location:
    11 B1.3; 11 32.07 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (53873941..53920866, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (53983115..54030040, complement)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 22 (organic cation transporter), member 4 pseudogene Neighboring gene solute carrier family 22 (organic cation transporter), member 21 Neighboring gene predicted gene 12219 Neighboring gene predicted gene, 30927 Neighboring gene VISTA enhancer mm51 Neighboring gene PDZ and LIM domain 4 Neighboring gene STARR-positive B cell enhancer mm9_chr11:53905235-53905536 Neighboring gene procollagen-proline, 2-oxoglutarate 4-dioxygenase (proline 4-hydroxylase), alpha II polypeptide

    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)
    • Endonuclease-mediated (2) 
    • Targeted (3)  1 citation

    Pathways from PubChem

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables PDZ domain binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables PDZ domain binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables acetylcholine transmembrane transporter activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables acetylcholine transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables amino acid transmembrane transporter activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables amino acid transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables amino-acid betaine transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables amino-acid betaine transmembrane transporter activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables carnitine transmembrane transporter activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables carnitine transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables organic cation transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables quaternary ammonium group transmembrane transporter activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables quaternary ammonium group transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables symporter activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in acetate ester transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in amino acid import across plasma membrane IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in amino acid import across plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    acts_upstream_of_or_within carnitine metabolic process IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in carnitine transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within carnitine transport IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within carnitine transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in neurotransmitter transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in quaternary ammonium group transport IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within quaternary ammonium group transport IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in quaternary ammonium group transport ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in sodium ion transport IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within triglyceride metabolic process IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    involved_in xenobiotic transport IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in xenobiotic transport ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in apical plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in apical plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in basal plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in basal plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in mitochondrial membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in mitochondrial membrane ISO
    Inferred from Sequence Orthology
    more info
     
    located_in mitochondrion HDA PubMed 
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in mitochondrion ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    solute carrier family 22 member 4
    Names
    LSTP-Like 2
    organic cation/carnitine transporter 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_001330304.1NP_001317233.1  solute carrier family 22 member 4 isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks a 5' exon compared to variant 1. This variant represents translation initiation at a downstream AUG compared to variant 1; the 5'-most initiation codon, as used in variant 1, is associated with a truncated ORF that would render the transcript a candidate for nonsense-mediated decay (NMD). Leaky scanning may allow translation initiation at the downstream AUG to encode an isoform (2) that has a shorter N-terminus, compared to isoform 1.
      Source sequence(s)
      AK143595, AL596444, CD773920
      Conserved Domains (1) summary
      cl28910
      Location:1334
      MFS; Major Facilitator Superfamily
    2. NM_019687.4NP_062661.1  solute carrier family 22 member 4 isoform 1

      See identical proteins and their annotated locations for NP_062661.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AB016257, AK143595, AL596444, CD773920
      Consensus CDS
      CCDS24689.1
      UniProtKB/Swiss-Prot
      Q9Z306
      Related
      ENSMUSP00000020586.7, ENSMUST00000020586.7
      Conserved Domains (2) summary
      cd06174
      Location:123510
      MFS; The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of ...
      TIGR00898
      Location:12519
      2A0119; cation transport protein

    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_000077.7 Reference GRCm39 C57BL/6J

      Range
      53873941..53920866 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017314588.3XP_017170077.1  solute carrier family 22 member 4 isoform X1

      Conserved Domains (1) summary
      cl28910
      Location:1334
      MFS; Major Facilitator Superfamily
    2. XM_006533512.4XP_006533575.1  solute carrier family 22 member 4 isoform X1

      See identical proteins and their annotated locations for XP_006533575.1

      Conserved Domains (1) summary
      cl28910
      Location:1334
      MFS; Major Facilitator Superfamily
    3. XM_011249065.3XP_011247367.1  solute carrier family 22 member 4 isoform X1

      See identical proteins and their annotated locations for XP_011247367.1

      Conserved Domains (1) summary
      cl28910
      Location:1334
      MFS; Major Facilitator Superfamily

    RNA

    1. XR_003949460.2 RNA Sequence

    2. XR_003949459.2 RNA Sequence