U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Nipa1 NIPA magnesium transporter 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 308668, updated on 4-Jan-2025

    Summary

    Go to the top of the page Help
    Official Symbol
    Nipa1provided by RGD
    Official Full Name
    NIPA magnesium transporter 1provided by RGD
    Primary source
    RGD:1305401
    See related
    EnsemblRapid:ENSRNOG00000042702 AllianceGenome:RGD:1305401
    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
    Spg6; SLC56A1
    Summary
    Predicted to enable magnesium ion transmembrane transporter activity. Predicted to be involved in magnesium ion transport. Predicted to be located in early endosome and plasma membrane. Predicted to be active in membrane. Human ortholog(s) of this gene implicated in hereditary spastic paraplegia 6. Orthologous to human NIPA1 (NIPA magnesium transporter 1). [provided by Alliance of Genome Resources, Jan 2025]
    Expression
    Biased expression in Brain (RPKM 174.7), Adrenal (RPKM 125.2) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Nipa1 in Genome Data Viewer
    Location:
    1q22
    Exon count:
    7
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (115608221..116010503, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (106834000..106875148, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (114385484..114422741, complement)

    Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene heterogeneous nuclear ribonucleoprotein A1, pseudogene 16 Neighboring gene RNA, U6 small nuclear 1195 Neighboring gene U7 small nuclear RNA Neighboring gene U7 small nuclear RNA Neighboring gene sialic acid binding Ig-like lectin H Neighboring gene uncharacterized LOC134483327 Neighboring gene dynein light chain 1, cytoplasmic-like Neighboring gene ras homolog family member Q, pseudogene 1 Neighboring gene tubulin gamma complex component 5 Neighboring gene U6 spliceosomal RNA Neighboring gene cytoplasmic FMR1 interacting protein 1 Neighboring gene peroxiredoxin 3, pseudogene 1 Neighboring gene uncharacterized LOC108348727 Neighboring gene uncharacterized LOC134483328 Neighboring gene NIPA magnesium transporter 2 Neighboring gene HECT and RLD domain containing E3 ubiquitin protein ligase 2 Neighboring gene DNA methyltransferase 3 alpha, pseudogene 3 Neighboring gene OCA2 melanosomal transmembrane protein Neighboring gene DNA polymerase epsilon 3, accessory subunit, pseudogene 1

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    Related articles in PubMed

    1. The effect of HSP-causing mutations in SPG3A and NIPA1 on the assembly, trafficking, and interaction between atlastin-1 and NIPA1. Botzolakis EJ, et al. Mol Cell Neurosci, 2011 Jan. PMID 20816793, Free PMC Article
    2. NIPA1(SPG6), the basis for autosomal dominant form of hereditary spastic paraplegia, encodes a functional Mg2+ transporter. Goytain A, et al. J Biol Chem, 2007 Mar 16. PMID 17166836
    3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables magnesium ion transmembrane transporter activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in magnesium ion transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in magnesium ion transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in magnesium ion transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in early endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    magnesium transporter NIPA1
    Names
    non imprinted in Prader-Willi/Angelman syndrome 1 homolog
    solute carrier family 56 member 1
    spastic paraplegia 6 (autosomal dominant)

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001107519.1 → NP_001100989.1  magnesium transporter NIPA1

      See identical proteins and their annotated locations for NP_001100989.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474036
      UniProtKB/TrEMBL
      A6KD33, F1M5J3
      Related
      ENSRNOP00000107199.1, ENSRNOT00000155973.1
      Conserved Domains (1) summary
      cl23754
      Location:25 → 307
      EamA; EamA-like transporter family

    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_086019.1 Reference GRCr8

      Range
      115608221..116010503 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063262421.1 → XP_063118491.1  magnesium transporter NIPA1 isoform X1

    2. XM_039112586.2 → XP_038968514.1  magnesium transporter NIPA1 isoform X2

      Related
      ENSRNOP00000061757.4, ENSRNOT00000068501.4
      Conserved Domains (1) summary
      cl23754
      Location:22 → 281
      EamA; EamA-like transporter family
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous