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    lrit1a leucine-rich repeat, immunoglobulin-like and transmembrane domains 1a [ Danio rerio (zebrafish) ]

    Gene ID: 553943, updated on 12-Sep-2024

    Summary

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    Official Symbol
    lrit1aprovided by ZNC
    Official Full Name
    leucine-rich repeat, immunoglobulin-like and transmembrane domains 1aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-040924-5
    See related
    Ensembl:ENSDARG00000019179 AllianceGenome:ZFIN:ZDB-GENE-040924-5
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    lrit1; lrrc21; zgc:112140
    Summary
    Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be integral component of endoplasmic reticulum membrane. Orthologous to human LRIT1 (leucine rich repeat, Ig-like and transmembrane domains 1). [provided by Alliance of Genome Resources, Apr 2022]
    Orthologs
    all
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    Genomic context

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    See lrit1a in Genome Data Viewer
    Location:
    chromosome: 13
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 13 NC_007124.7 (29462249..29467558)
    105 previous assembly GRCz10 (GCF_000002035.5) 13 NC_007124.6 (29331799..29337108)

    Chromosome 13 - NC_007124.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 18 member 3a Neighboring gene retinal G protein coupled receptor a Neighboring gene leucine-rich repeat, immunoglobulin-like and transmembrane domains 2 Neighboring gene cadherin-related family member 1a

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
    2. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, Free PMC Article
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article
    4. 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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    Homology

    Gene Ontology Provided by ZFIN

    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
    		  
    Component Evidence Code Pubs
    is_active_in endoplasmic reticulum membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    leucine-rich repeat, immunoglobulin-like domain and transmembrane domain-containing protein 1a
    Names
    leucine rich repeat containing 21
    leucine-rich repeat, immunoglobulin-like and transmembrane domains 1

    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_001018164.2 → NP_001018174.2  leucine-rich repeat, immunoglobulin-like domain and transmembrane domain-containing protein 1a precursor

      Status: VALIDATED

      Source sequence(s)
      BX855592
      Related
      ENSDARP00000114768.1, ENSDART00000147903.3
      Conserved Domains (7) summary
      smart00082
      Location:199 → 243
      LRRCT; Leucine rich repeat C-terminal domain
      cd00116
      Location:77 → 175
      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 ...
      pfam07679
      Location:252 → 343
      I-set; Immunoglobulin I-set domain
      sd00031
      Location:61 → 84
      LRR_1; leucine-rich repeat [structural motif]
      pfam00041
      Location:448 → 515
      fn3; Fibronectin type III domain
      pfam13855
      Location:108 → 167
      LRR_8; Leucine rich repeat
      cl11960
      Location:259 → 333
      Ig; Immunoglobulin domain

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007124.7 Reference GRCz11 Primary Assembly

      Range
      29462249..29467558
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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