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

Gene ID: 239037, updated on 2-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 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

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