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    Lrrc7 leucine rich repeat containing 7 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 117284, updated on 10-Oct-2024

    Summary

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    Official Symbol
    Lrrc7provided by RGD
    Official Full Name
    leucine rich repeat containing 7provided by RGD
    Primary source
    RGD:708527
    See related
    EnsemblRapid:ENSRNOG00000011980 AllianceGenome:RGD:708527
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Enables protein C-terminus binding activity. Involved in positive regulation of neuron projection development and response to organic cyclic compound. Located in several cellular components, including axon initial segment; dendritic spine; and postsynaptic density. Is active in glutamatergic synapse. Is integral component of postsynaptic density membrane. Colocalizes with actin cytoskeleton. Orthologous to human LRRC7 (leucine rich repeat containing 7). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Restricted expression toward (RPKM 189.0) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lrrc7 in Genome Data Viewer
    Location:
    2q45
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (249792441..250294267, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (247146616..247634945, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (264910594..265300860, complement)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene serine and arginine rich splicing factor 11 Neighboring gene leucine rich repeat containing 40 Neighboring gene transfer RNA alanine (anticodon AGC) 26 Neighboring gene U6 spliceosomal RNA Neighboring gene uncharacterized LOC102550475

    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 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. Distribution of densin in neurons. Dosemeci A, et al. PLoS One, 2018. PMID 30325965, Free PMC Article
    2. Densin-180 is not a transmembrane protein. Liu DC, et al. Cell Biochem Biophys, 2013 Nov. PMID 23516094
    3. Toluene disrupts synaptogenesis in cultured hippocampal neurons. Lin HM, et al. Toxicol Lett, 2009 Jan 30. PMID 19038319
    4. Developmentally regulated alternative splicing of densin modulates protein-protein interaction and subcellular localization. Jiao Y, et al. J Neurochem, 2008 Jun. PMID 18248607, Free PMC Article
    5. Postsynaptic shank antagonizes dendrite branching induced by the leucine-rich repeat protein Densin-180. Quitsch A, et al. J Neurosci, 2005 Jan 12. PMID 15647492, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Analysis of densin at the ultrastructural level reveals potential sites that can support specific interactions of densin. Densin molecules firmly embedded within the postsynaptic densities (PSD) may target a minor pool of CaMKII to substrates at the PSD core
      Title: Distribution of densin in neurons.
    2. topology of densin involves the membrane association configuration
      Title: Densin-180 is not a transmembrane protein.
    3. Characterization of a central Ca2+/calmodulin-dependent protein kinase IIalpha/beta binding domain in densin that selectively modulates glutamate receptor subunit phosphorylation.
      Title: Characterization of a central Ca2+/calmodulin-dependent protein kinase IIalpha/beta binding domain in densin that selectively modulates glutamate receptor subunit phosphorylation.
    4. Densin splice variants play multiple functional roles during neuronal development of the brain.
      Title: Developmentally regulated alternative splicing of densin modulates protein-protein interaction and subcellular localization.
    5. CAMKII isoforms interact with the postsynaptic density proteins NR2B, densin-180, and alpha-actinin-2
      Title: Multivalent interactions of calcium/calmodulin-dependent protein kinase II with the postsynaptic density proteins NR2B, densin-180, and alpha-actinin-2.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein kinase binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables protein kinase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in cell-cell adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in establishment or maintenance of epithelial cell apical/basal polarity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in neurotransmitter receptor transport postsynaptic membrane to endosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in neurotransmitter receptor transport, endosome to postsynaptic membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of neuron projection development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of neuron projection development IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in receptor clustering IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in response to organic cyclic compound IEP
    Inferred from Expression Pattern
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in actin cytoskeleton IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in adherens junction IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in axon initial segment IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in axon initial segment IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in basolateral plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in centrosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol TAS
    Traceable Author Statement
    more info
    		  
    located_in dendritic spine IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in filopodium IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in postsynaptic density IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in postsynaptic density membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    colocalizes_with postsynaptic membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat-containing protein 7
    Names
    densin 13T-16
    densin 13T-17
    densin 13T-23
    densin 13T-29
    densin 13T-41
    densin 13T-43
    densin 13T-57
    densin 13T-57C
    densin 13T-72
    densin 13T-89
    densin-180

    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_001393674.1 → NP_001380603.1  leucine-rich repeat-containing protein 7 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/Swiss-Prot
      P70587, Q9JI42
      UniProtKB/TrEMBL
      F1M4K6
      Related
      ENSRNOP00000059517.4, ENSRNOT00000066024.6
      Conserved Domains (3) summary
      COG4886
      Location:97 → 407
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      cd00992
      Location:1452 → 1537
      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) ...
      sd00033
      Location:31 → 52
      LRR_RI; leucine-rich repeat [structural motif]

    2. NM_057142.2 → NP_476483.1  leucine-rich repeat-containing protein 7 isoform 2

      See identical proteins and their annotated locations for NP_476483.1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/Swiss-Prot
      P70587, Q9JI42
      UniProtKB/TrEMBL
      A6HWU2
      Related
      ENSRNOP00000093706.2, ENSRNOT00000116114.2
      Conserved Domains (4) summary
      cd00116
      Location:166 → 406
      LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...
      cd00992
      Location:1405 → 1490
      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) ...
      sd00033
      Location:31 → 52
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:144 → 199
      LRR_8; Leucine rich repeat

    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_086020.1 Reference GRCr8

      Range
      249792441..250294267 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063281188.1 → XP_063137258.1  leucine-rich repeat-containing protein 7 isoform X8

    2. XM_063281182.1 → XP_063137252.1  leucine-rich repeat-containing protein 7 isoform X2

    3. XM_063281185.1 → XP_063137255.1  leucine-rich repeat-containing protein 7 isoform X5

    4. XM_063281181.1 → XP_063137251.1  leucine-rich repeat-containing protein 7 isoform X1

    5. XM_063281186.1 → XP_063137256.1  leucine-rich repeat-containing protein 7 isoform X6

    6. XM_063281189.1 → XP_063137259.1  leucine-rich repeat-containing protein 7 isoform X9

    7. XM_063281190.1 → XP_063137260.1  leucine-rich repeat-containing protein 7 isoform X10

    8. XM_063281187.1 → XP_063137257.1  leucine-rich repeat-containing protein 7 isoform X7

      UniProtKB/TrEMBL
      A0A8I5ZTY2

    9. XM_063281183.1 → XP_063137253.1  leucine-rich repeat-containing protein 7 isoform X3

      UniProtKB/TrEMBL
      A0A8I6G9P9
      Related
      ENSRNOP00000082626.1, ENSRNOT00000115389.2

    10. XM_063281191.1 → XP_063137261.1  leucine-rich repeat-containing protein 7 isoform X11

    11. XM_063281184.1 → XP_063137254.1  leucine-rich repeat-containing protein 7 isoform X4

    12. XM_063281192.1 → XP_063137262.1  leucine-rich repeat-containing protein 7 isoform X12

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P70587.2 GenPept UniProtKB/Swiss-Prot:P70587

    Gene LinkOut

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

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