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    Lnx2 ligand of numb-protein X 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 360761, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Lnx2provided by RGD
    Official Full Name
    ligand of numb-protein X 2provided by RGD
    Primary source
    RGD:1308222
    See related
    EnsemblRapid:ENSRNOG00000000955 AllianceGenome:RGD:1308222
    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
    Summary
    Predicted to enable PDZ domain binding activity; identical protein binding activity; and ubiquitin-protein transferase activity. Predicted to act upstream of or within neural precursor cell proliferation and neuron differentiation. Predicted to be located in plasma membrane. Orthologous to human LNX2 (ligand of numb-protein X 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 42.0), Spleen (RPKM 37.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lnx2 in Genome Data Viewer
    Location:
    12p11
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 12 NC_086030.1 (13119139..13184401)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 12 NC_051347.1 (8005202..8070494)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 12 NC_005111.4 (9728415..9793428)

    Chromosome 12 - NC_086030.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120095852 Neighboring gene RNA polymerase I and III subunit D Neighboring gene uncharacterized LOC120095885 Neighboring gene uncharacterized LOC120095884 Neighboring gene mitochondrial translational initiation factor 3 Neighboring gene general transcription factor III A

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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

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    Related articles in PubMed

    1. E3 ubiquitin ligases LNX1 and LNX2 are major regulators of the presynaptic glycine transporter GlyT2. de la Rocha-Muñoz A, et al. Sci Rep, 2019 Oct 18. PMID 31628376, Free PMC Article
    2. The Lnx family proteins function as molecular scaffolds for Numb family proteins. Rice DS, et al. Mol Cell Neurosci, 2001 Nov. PMID 11922143
    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

    What's a GeneRIF?
    1. E3 ubiquitin ligases LNX1 and LNX2 are major regulators of the presynaptic glycine transporter GlyT2.
      Title: E3 ubiquitin ligases LNX1 and LNX2 are major regulators of the presynaptic glycine transporter GlyT2.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables PDZ domain binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin-protein transferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within neural precursor cell proliferation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    ligand of Numb protein X 2

    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_001108329.1 → NP_001101799.1  ligand of Numb protein X 2

      See identical proteins and their annotated locations for NP_001101799.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474012
      UniProtKB/TrEMBL
      A0A8I6AEK4, A6K1B2, D3ZRH6
      Related
      ENSRNOP00000001263.3, ENSRNOT00000001263.5
      Conserved Domains (3) summary
      smart00228
      Location:229 → 315
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:595 → 679
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd16780
      Location:46 → 90
      mRING-HC-C3HC3D_LNX2; Modified RING finger, HC subclass (C3HC3D-type), found in ligand of numb protein X 2 (LNX2)

    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_086030.1 Reference GRCr8

      Range
      13119139..13184401
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039089547.2 → XP_038945475.1  ligand of Numb protein X 2 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AEK4, A6K1B2, D3ZRH6
      Conserved Domains (3) summary
      smart00228
      Location:229 → 315
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:595 → 679
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd16780
      Location:46 → 90
      mRING-HC-C3HC3D_LNX2; Modified RING finger, HC subclass (C3HC3D-type), found in ligand of numb protein X 2 (LNX2)

    2. XM_006248835.5 → XP_006248897.1  ligand of Numb protein X 2 isoform X1

      See identical proteins and their annotated locations for XP_006248897.1

      UniProtKB/TrEMBL
      A0A8I6AEK4, A6K1B2, D3ZRH6
      Conserved Domains (3) summary
      smart00228
      Location:229 → 315
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:595 → 679
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd16780
      Location:46 → 90
      mRING-HC-C3HC3D_LNX2; Modified RING finger, HC subclass (C3HC3D-type), found in ligand of numb protein X 2 (LNX2)

    3. XM_039089545.2 → XP_038945473.1  ligand of Numb protein X 2 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AEK4, A6K1B2, D3ZRH6
      Conserved Domains (3) summary
      smart00228
      Location:229 → 315
      PDZ; Domain present in PSD-95, Dlg, and ZO-1/2
      cd00992
      Location:595 → 679
      PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
      cd16780
      Location:46 → 90
      mRING-HC-C3HC3D_LNX2; Modified RING finger, HC subclass (C3HC3D-type), found in ligand of numb protein X 2 (LNX2)
    Nucleotide Protein Strain
    Heading Accession and Version

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