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    Lrit1 leucine-rich repeat, immunoglobulin-like and transmembrane domains 1 [ Mus musculus (house mouse) ]

    Gene ID: 239037, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Lrit1provided by MGI
    Official Full Name
    leucine-rich repeat, immunoglobulin-like and transmembrane domains 1provided by MGI
    Primary source
    MGI:MGI:2385320
    See related
    Ensembl:ENSMUSG00000041044 AllianceGenome:MGI:2385320
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Lrrc21
    Summary
    Predicted to be involved in visual perception. Predicted to be located in dendrite. Predicted to be active in endoplasmic reticulum membrane. Orthologous to human LRIT1 (leucine rich repeat, Ig-like and transmembrane domains 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Restricted expression toward liver adult (RPKM 2.3) See more
    Orthologs
    human all
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    Genomic context

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    See Lrit1 in Genome Data Viewer
    Location:
    14 B; 14 21.29 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (36764432..36786895)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (37042475..37064938)

    Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_36414 Neighboring gene predicted gene, 25204 Neighboring gene STARR-positive B cell enhancer ABC_E3109 Neighboring gene STARR-seq mESC enhancer starr_36416 Neighboring gene coiled-coil serine rich 2 Neighboring gene predicted gene, 53853 Neighboring gene STARR-seq mESC enhancer starr_36418 Neighboring gene STARR-positive B cell enhancer ABC_E8553 Neighboring gene STARR-seq mESC enhancer starr_36421 Neighboring gene retinal G protein coupled receptor Neighboring gene leucine-rich repeat, immunoglobulin-like and transmembrane domains 2 Neighboring gene cadherin-related family member 1 Neighboring gene G protein coupled receptor 15 ligand

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. LRIT1 Modulates Adaptive Changes in Synaptic Communication of Cone Photoreceptors. Sarria I, et al. Cell Rep, 2018 Mar 27. PMID 29590623, Free PMC Article
    2. Lrit1, a Retinal Transmembrane Protein, Regulates Selective Synapse Formation in Cone Photoreceptor Cells and Visual Acuity. Ueno A, et al. Cell Rep, 2018 Mar 27. PMID 29590622
    3. Expression pattern of LRR and Ig domain-containing protein (LRRIG protein) in the early mouse embryo. Homma S, et al. Gene Expr Patterns, 2009 Jan. PMID 18848646
    4. PlexinA1 signaling directs the segregation of proprioceptive sensory axons in the developing spinal cord. Yoshida Y, et al. Neuron, 2006 Dec 7. PMID 17145500, Free PMC Article
    5. Expression of the immunoglobulin superfamily cell adhesion molecules in the developing spinal cord and dorsal root ganglion. Gu Z, et al. PLoS One, 2015. PMID 25826454, Free PMC Article

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Lrit1-deficient retinas exhibit an aberrant morphology of cone photoreceptor pedicles, as well as an impairment of signal transmission from cone photoreceptors to cone ON-bipolar cells. Authors demonstrated that Lrit1 interacts with Frmpd2, a photoreceptor scaffold protein, and with mGluR6, an ON-bipolar cell-specific glutamate receptor.
      Title: Lrit1, a Retinal Transmembrane Protein, Regulates Selective Synapse Formation in Cone Photoreceptor Cells and Visual Acuity.
    2. Lrit1 regulates the synaptic connection between cone photoreceptors and cone ON-bipolar cells. Lrit1-deficient retinas exhibit an aberrant morphology of cone photoreceptor pedicles, as well as an impairment of signal transmission from cone photoreceptors to cone ON-bipolar cells.
      Title: Lrit1, a Retinal Transmembrane Protein, Regulates Selective Synapse Formation in Cone Photoreceptor Cells and Visual Acuity.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    General gene information

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    Markers

    Homology

    Clone Names

    • MGC40670

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    involved_in visual perception IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in dendrite IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat, immunoglobulin-like domain and transmembrane domain-containing protein 1
    Names
    leucine rich repeat containing 21
    leucine-rich repeat-containing protein 21
    photoreceptor-associated LRR superfamily protein
    retina-specific protein PAL

    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_146245.2 → NP_666357.2  leucine-rich repeat, immunoglobulin-like domain and transmembrane domain-containing protein 1 precursor

      See identical proteins and their annotated locations for NP_666357.2

      Status: VALIDATED

      Source sequence(s)
      AK044631, BC032270
      Consensus CDS
      CCDS26950.2
      UniProtKB/Swiss-Prot
      Q8BXN3, Q8K099
      Related
      ENSMUSP00000113964.2, ENSMUST00000120052.2
      Conserved Domains (8) summary
      smart00013
      Location:23 → 61
      LRRNT; Leucine rich repeat N-terminal domain
      smart00060
      Location:432 → 502
      FN3; Fibronectin type 3 domain
      smart00410
      Location:268 → 346
      IG_like; Immunoglobulin like
      sd00031
      Location:64 → 84
      LRR_1; leucine-rich repeat [structural motif]
      pfam12799
      Location:131 → 172
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:63 → 143
      LRR_8; Leucine rich repeat
      cl11960
      Location:258 → 346
      Ig; Immunoglobulin domain
      cl15307
      Location:201 → 241
      TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000080.7 Reference GRCm39 C57BL/6J

      Range
      36764432..36786895
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017316012.2 → XP_017171501.1  leucine-rich repeat, immunoglobulin-like domain and transmembrane domain-containing protein 1 isoform X1

      Conserved Domains (6) summary
      smart00060
      Location:429 → 499
      FN3; Fibronectin type 3 domain
      smart00082
      Location:198 → 238
      LRRCT; Leucine rich repeat C-terminal domain
      COG4886
      Location:23 → 175
      LRR; Leucine-rich repeat (LRR) protein [Transcription]
      sd00031
      Location:61 → 81
      LRR_1; leucine-rich repeat [structural motif]
      pfam13855
      Location:114 → 164
      LRR_8; Leucine rich repeat
      cl11960
      Location:255 → 343
      Ig; Immunoglobulin domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8K099.2 GenPept UniProtKB/Swiss-Prot:Q8K099

    Gene LinkOut

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

    Chemical Information
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