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lrrc4ba leucine rich repeat containing 4Ba [ Danio rerio (zebrafish) ]

Gene ID: 556747, updated on 12-Sep-2024

Summary

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Official Symbol
lrrc4baprovided by ZNC
Official Full Name
leucine rich repeat containing 4Baprovided by ZNC
Primary source
ZFIN:ZDB-GENE-080327-25
See related
Ensembl:ENSDARG00000004597 AllianceGenome:ZFIN:ZDB-GENE-080327-25
Gene type
protein coding
RefSeq status
MODEL
Organism
Danio rerio
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as
sc:d0383
Summary
Predicted to be located in membrane. Predicted to be integral component of membrane. Predicted to be active in plasma membrane. Is expressed in basal plate midbrain region and nervous system. Orthologous to human LRRC4B (leucine rich repeat containing 4B). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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See lrrc4ba in Genome Data Viewer
Location:
chromosome: 3
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCz11 (GCF_000002035.6) 3 NC_007114.7 (30351810..30434033, complement)
105 previous assembly GRCz10 (GCF_000002035.5) 3 NC_007114.6 (30239845..30303322, complement)

Chromosome 3 - NC_007114.7Genomic Context describing neighboring genes Neighboring gene ER membrane protein complex subunit 10 Neighboring gene myosin binding protein Ca Neighboring gene mediator complex subunit 25 Neighboring gene zinc finger BED-type containing 4-like 1

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. Identification of protective postexposure mycobacterial vaccine antigens using an immunosuppression-based reactivation model in the zebrafish. Myllymäki H, et al. Dis Model Mech, 2018 Mar 13. PMID 29590635, Free PMC Article
  2. Evolution of complexity in the zebrafish synapse proteome. Bayés À, et al. Nat Commun, 2017 Mar 2. PMID 28252024, Free PMC Article
  3. RFX transcription factors are essential for hearing in mice. Elkon R, et al. Nat Commun, 2015 Oct 15. PMID 26469318, 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
  5. Gene evolution and gene expression after whole genome duplication in fish: the PhyloFish database. Pasquier J, et al. BMC Genomics, 2016 May 18. PMID 27189481, 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 signaling receptor binding IBA
Inferred from Biological aspect of Ancestor
more info
  
Process Evidence Code Pubs
involved_in positive regulation of synapse assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of postsynaptic density assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in regulation of presynapse assembly IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in synaptic membrane adhesion IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in glutamatergic synapse IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
is_active_in postsynaptic density membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
leucine-rich repeat-containing protein 4B
Names
leucine rich repeat containing 4B

NCBI Reference Sequences (RefSeq)

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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_007114.7 Reference GRCz11 Primary Assembly

    Range
    30351810..30434033 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068219038.1 → XP_068075139.1  leucine-rich repeat-containing protein 4B

    Related
    ENSDARP00000126055.1, ENSDART00000150958.2

  2. XM_021474042.2 → XP_021329717.1  leucine-rich repeat-containing protein 4B

    UniProtKB/TrEMBL
    A0A8M9PEX1, F1QBH8
    Conserved Domains (4) summary
    COG4886
    Location:60 → 280
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:71 → 94
    LRR_RI; leucine-rich repeat [structural motif]
    cl15307
    Location:294 → 344
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
    cl28434
    Location:347 → 436
    I-set; Immunoglobulin I-set domain

Reference GRCz11 ALT_DRER_TU_1

Genomic

  1. NW_018394533.1 Reference GRCz11 ALT_DRER_TU_1

    Range
    30546..112769 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_068218107.1 → XP_068074208.1  leucine-rich repeat-containing protein 4B

  2. XM_679625.10 → XP_684717.3  leucine-rich repeat-containing protein 4B

    UniProtKB/TrEMBL
    A0A8M9PEX1, F1QBH8
    Conserved Domains (4) summary
    COG4886
    Location:60 → 280
    LRR; Leucine-rich repeat (LRR) protein [Transcription]
    sd00033
    Location:71 → 94
    LRR_RI; leucine-rich repeat [structural motif]
    cl15307
    Location:294 → 344
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
    cl28434
    Location:347 → 436
    I-set; Immunoglobulin I-set domain
Nucleotide Protein
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