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    Kirrel3 kirre like nephrin family adhesion molecule 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 315546, updated on 6-Jun-2024

    Summary

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    Official Symbol
    Kirrel3provided by RGD
    Official Full Name
    kirre like nephrin family adhesion molecule 3provided by RGD
    Primary source
    RGD:1311382
    See related
    Ensembl:ENSRNOG00000009772 AllianceGenome:RGD:1311382
    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 cell adhesion molecule binding activity. Predicted to be involved in hemopoiesis; homophilic cell adhesion via plasma membrane adhesion molecules; and nervous system development. Predicted to act upstream of or within glomerulus morphogenesis; inter-male aggressive behavior; and nervous system development. Predicted to be located in several cellular components, including axon; dendritic shaft; and synaptic vesicle. Predicted to be integral component of membrane. Predicted to be active in cell-cell junction. Predicted to be integral component of plasma membrane. Human ortholog(s) of this gene implicated in autosomal dominant non-syndromic intellectual disability 4. Orthologous to human KIRREL3 (kirre like nephrin family adhesion molecule 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 107.6), Testes (RPKM 16.9) and 4 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Kirrel3 in Genome Data Viewer
    Location:
    8q21
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 8 NC_086026.1 (41123692..41663528)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 8 NC_051343.1 (32865779..33407555)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 8 NC_005107.4 (35692525..36254755)

    Chromosome 8 - NC_086026.1Genomic Context describing neighboring genes Neighboring gene ubiquitin-60S ribosomal protein L40 pseudogene Neighboring gene ubiquitin and ribosomal protein L40-like Neighboring gene uncharacterized LOC102555390 Neighboring gene uncharacterized LOC120094326 Neighboring gene uncharacterized LOC120094325 Neighboring gene uncharacterized LOC134480156 Neighboring gene ST3 beta-galactoside alpha-2,3-sialyltransferase 4 Neighboring gene small nucleolar RNA SNORA48 Neighboring gene decapping enzyme, scavenger

    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. The intellectual disability gene Kirrel3 regulates target-specific mossy fiber synapse development in the hippocampus. Martin EA, et al. Elife, 2015 Nov 17. PMID 26575286, Free PMC Article
    2. A stromal cell-derived membrane protein that supports hematopoietic stem cells. Ueno H, et al. Nat Immunol, 2003 May. PMID 12665856
    3. Neuronal expression and interaction with the synaptic protein CASK suggest a role for Neph1 and Neph2 in synaptogenesis. Gerke P, et al. J Comp Neurol, 2006 Oct 1. PMID 16874800
    4. Autism and Intellectual Disability-Associated KIRREL3 Interacts with Neuronal Proteins MAP1B and MYO16 with Potential Roles in Neurodevelopment. Liu YF, et al. PLoS One, 2015. PMID 25902260, Free PMC Article
    5. Role of Neph2 in pontine nuclei formation in the developing hindbrain. Nishida K, et al. Mol Cell Neurosci, 2011 Mar. PMID 21241806

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables cell adhesion molecule binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell-cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within glomerulus morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in hemopoiesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in hippocampus development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within inter-male aggressive behavior ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neuron migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within neuron projection morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within principal sensory nucleus of trigeminal nerve development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in synapse assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in synapse assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in axon ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cell-cell junction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in dendrite ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in dendritic shaft ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in extracellular region ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in synaptic vesicle ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    kin of IRRE-like protein 3
    Names
    kin of IRRE like 3

    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_001048215.1 → NP_001041680.1  kin of IRRE-like protein 3 precursor

      See identical proteins and their annotated locations for NP_001041680.1

      Status: PROVISIONAL

      Source sequence(s)
      DQ902828
      UniProtKB/TrEMBL
      E9PTD7, Q09GS6
      Related
      ENSRNOP00000073469.2, ENSRNOT00000088046.2
      Conserved Domains (7) summary
      cd05759
      Location:165 → 246
      Ig2_KIRREL3-like; Second immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 (also known as Neph2)
      cd05898
      Location:418 → 515
      Ig5_KIRREL3; Fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein (also known as Neph2)
      smart00408
      Location:349 → 400
      IGc2; Immunoglobulin C-2 Type
      smart00410
      Location:426 → 515
      IG_like; Immunoglobulin like
      pfam07679
      Location:335 → 416
      I-set; Immunoglobulin I-set domain
      pfam13927
      Location:254 → 318
      Ig_3; Immunoglobulin domain
      cl11960
      Location:52 → 143
      Ig; Immunoglobulin domain

    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_086026.1 Reference GRCr8

      Range
      41123692..41663528
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039081393.2 → XP_038937321.1  kin of IRRE-like protein 3 isoform X2

      Conserved Domains (5) summary
      smart00410
      Location:54 → 143
      IG_like; Immunoglobulin like
      cd00096
      Location:343 → 347
      Ig; Ig strand A' [structural motif]
      cd05759
      Location:149 → 246
      IgI_2_KIRREL3-like; Second immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05898
      Location:418 → 515
      IgI_5_KIRREL3; Fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:335 → 416
      Ig; Immunoglobulin domain

    2. XM_039081392.2 → XP_038937320.1  kin of IRRE-like protein 3 isoform X1

      Conserved Domains (5) summary
      smart00410
      Location:54 → 143
      IG_like; Immunoglobulin like
      cd00096
      Location:343 → 347
      Ig; Ig strand A' [structural motif]
      cd05759
      Location:149 → 246
      IgI_2_KIRREL3-like; Second immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05898
      Location:418 → 515
      IgI_5_KIRREL3; Fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:335 → 416
      Ig; Immunoglobulin domain

    3. XM_039081396.2 → XP_038937324.1  kin of IRRE-like protein 3 isoform X5

      UniProtKB/TrEMBL
      A0A8I5ZQV3, E9PTD7
      Related
      ENSRNOP00000080508.1
      Conserved Domains (5) summary
      smart00410
      Location:54 → 143
      IG_like; Immunoglobulin like
      cd00096
      Location:343 → 347
      Ig; Ig strand A' [structural motif]
      cd05759
      Location:149 → 246
      IgI_2_KIRREL3-like; Second immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05898
      Location:418 → 515
      IgI_5_KIRREL3; Fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:335 → 416
      Ig; Immunoglobulin domain

    4. XM_063265411.1 → XP_063121481.1  kin of IRRE-like protein 3 isoform X6

      UniProtKB/TrEMBL
      A0A0G2K5L4, E9PTD7

    5. XM_039081395.2 → XP_038937323.1  kin of IRRE-like protein 3 isoform X4

      Conserved Domains (5) summary
      smart00410
      Location:54 → 143
      IG_like; Immunoglobulin like
      cd00096
      Location:343 → 347
      Ig; Ig strand A' [structural motif]
      cd05759
      Location:149 → 246
      IgI_2_KIRREL3-like; Second immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05898
      Location:418 → 515
      IgI_5_KIRREL3; Fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:335 → 416
      Ig; Immunoglobulin domain

    6. XM_039081394.2 → XP_038937322.1  kin of IRRE-like protein 3 isoform X3

      Conserved Domains (5) summary
      smart00410
      Location:54 → 143
      IG_like; Immunoglobulin like
      cd00096
      Location:343 → 347
      Ig; Ig strand A' [structural motif]
      cd05759
      Location:149 → 246
      IgI_2_KIRREL3-like; Second immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05898
      Location:418 → 515
      IgI_5_KIRREL3; Fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:335 → 416
      Ig; Immunoglobulin domain

    7. XM_039081397.2 → XP_038937325.1  kin of IRRE-like protein 3 isoform X7

      UniProtKB/TrEMBL
      E9PTD7
      Conserved Domains (5) summary
      smart00410
      Location:54 → 143
      IG_like; Immunoglobulin like
      cd00096
      Location:343 → 347
      Ig; Ig strand A' [structural motif]
      cd05759
      Location:149 → 246
      IgI_2_KIRREL3-like; Second immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3, and similar domains; member of the I-set of Ig superfamily (IgSF) domains
      cd05898
      Location:418 → 515
      IgI_5_KIRREL3; Fifth immunoglobulin (Ig)-like domain of Kirrel (kin of irregular chiasm-like) 3 protein; member of the I-set of Ig superfamily (IgSF) domains
      cl11960
      Location:335 → 416
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version

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