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    Lingo2 leucine rich repeat and Ig domain containing 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 313156, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Lingo2provided by RGD
    Official Full Name
    leucine rich repeat and Ig domain containing 2provided by RGD
    Primary source
    RGD:1310773
    See related
    EnsemblRapid:ENSRNOG00000005634 AllianceGenome:RGD:1310773
    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
    RGD1310773
    Summary
    Predicted to act upstream of or within positive regulation of synapse assembly. Is active in glutamatergic synapse and synaptic membrane. Orthologous to human LINGO2 (leucine rich repeat and Ig domain containing 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Restricted expression toward (RPKM 41.2) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Lingo2 in Genome Data Viewer
    Location:
    5q21-q22
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (55166250..56488672, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (50370744..51687252, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (51466367..51638161, complement)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134487063 Neighboring gene calpain small subunit 1-like Neighboring gene U6 spliceosomal RNA Neighboring gene malate dehydrogenase, mitochondrial-like Neighboring gene uncharacterized LOC134478958 Neighboring gene microRNA 876 Neighboring gene microRNA 873 Neighboring gene heterogeneous nuclear ribonucleoprotein K, pseudogene 6 Neighboring gene rabenosyn-5 like, pseudogene 1

    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. Proteomic Analysis of Unbounded Cellular Compartments: Synaptic Clefts. Loh KH, et al. Cell, 2016 Aug 25. PMID 27565350, Free PMC Article
    2. Calsyntenins function as synaptogenic adhesion molecules in concert with neurexins. Um JW, et al. Cell Rep, 2014 Mar 27. PMID 24613359, Free PMC Article
    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

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of synapse assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in glutamatergic synapse EXP
    Inferred from Experiment
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in synaptic membrane EXP
    Inferred from Experiment
    more info
    		 PubMed 
    is_active_in synaptic membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 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_001107926.1 → NP_001101396.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 2 precursor

      See identical proteins and their annotated locations for NP_001101396.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473962
      UniProtKB/TrEMBL
      A6IIP9, M0R752
      Conserved Domains (7) summary
      smart00013
      Location:27 → 60
      LRRNT; Leucine rich repeat N-terminal domain
      smart00082
      Location:355 → 408
      LRRCT; Leucine rich repeat C-terminal domain
      sd00033
      Location:83 → 106
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:106 → 165
      LRR_8; Leucine rich repeat
      cd00096
      Location:417 → 421
      Ig; Ig strand A' [structural motif]
      cd21340
      Location:176 → 373
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl11960
      Location:411 → 500
      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_086023.1 Reference GRCr8

      Range
      55166250..56488672 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063287596.1 → XP_063143666.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IIP9, M0R752
      Related
      ENSRNOP00000081619.1, ENSRNOT00000119962.2

    2. XM_063287594.1 → XP_063143664.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IIP9, M0R752

    3. XM_039109832.2 → XP_038965760.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IIP9, M0R752
      Related
      ENSRNOP00000112259.1, ENSRNOT00000172995.1
      Conserved Domains (7) summary
      smart00013
      Location:27 → 60
      LRRNT; Leucine rich repeat N-terminal domain
      smart00082
      Location:355 → 408
      LRRCT; Leucine rich repeat C-terminal domain
      sd00033
      Location:83 → 106
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:106 → 165
      LRR_8; Leucine rich repeat
      cd00096
      Location:417 → 421
      Ig; Ig strand A' [structural motif]
      cd21340
      Location:176 → 373
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl11960
      Location:411 → 500
      Ig; Immunoglobulin domain

    4. XM_063287591.1 → XP_063143661.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IIP9, M0R752
      Related
      ENSRNOP00000110081.1, ENSRNOT00000155033.1

    5. XM_039109831.2 → XP_038965759.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IIP9, M0R752
      Related
      ENSRNOP00000102682.1, ENSRNOT00000124988.1
      Conserved Domains (7) summary
      smart00013
      Location:27 → 60
      LRRNT; Leucine rich repeat N-terminal domain
      smart00082
      Location:355 → 408
      LRRCT; Leucine rich repeat C-terminal domain
      sd00033
      Location:83 → 106
      LRR_RI; leucine-rich repeat [structural motif]
      pfam13855
      Location:106 → 165
      LRR_8; Leucine rich repeat
      cd00096
      Location:417 → 421
      Ig; Ig strand A' [structural motif]
      cd21340
      Location:176 → 373
      PPP1R42; protein phosphatase 1 regulatory subunit 42
      cl11960
      Location:411 → 500
      Ig; Immunoglobulin domain

    6. XM_063287592.1 → XP_063143662.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IIP9, M0R752
      Related
      ENSRNOP00000097289.1, ENSRNOT00000104376.2

    7. XM_063287593.1 → XP_063143663.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IIP9, M0R752
      Related
      ENSRNOP00000112761.1, ENSRNOT00000170838.1

    8. XM_063287595.1 → XP_063143665.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IIP9, M0R752

    9. XM_063287598.1 → XP_063143668.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IIP9, M0R752

    10. XM_063287597.1 → XP_063143667.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IIP9, M0R752

    11. XM_063287599.1 → XP_063143669.1  leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 2 isoform X1

      UniProtKB/TrEMBL
      A6IIP9, M0R752
      Related
      ENSRNOP00000093394.1, ENSRNOT00000114077.2

    RNA

    1. XR_010066383.1 RNA Sequence

    2. XR_010066382.1 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version

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