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lrfn5a leucine rich repeat and fibronectin type III domain containing 5a [ Danio rerio (zebrafish) ]

Gene ID: 100144400, updated on 27-Mar-2024

Summary

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Official Symbol
lrfn5aprovided by ZNC
Official Full Name
leucine rich repeat and fibronectin type III domain containing 5aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-080327-17
See related
Ensembl:ENSDARG00000071230 AllianceGenome:ZFIN:ZDB-GENE-080327-17
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:d0343; si:ch73-206h2.1
Summary
Predicted to be located in membrane. Predicted to be integral component of membrane. Is expressed in basal plate midbrain region; mesoderm; nervous system; pancreatic system; and tail bud. Orthologous to human LRFN5 (leucine rich repeat and fibronectin type III domain containing 5). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 17
Exon count:
3
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 17 NC_007128.7 (13664689..13781235)
105 previous assembly GRCz10 (GCF_000002035.5) 17 NC_007128.6 (13654313..13770372)

Chromosome 17 - NC_007128.7Genomic Context describing neighboring genes Neighboring gene transfer RNA leucine (anticodon UAA) Neighboring gene pinin, desmosome associated protein Neighboring gene coiled-coil domain containing 175 Neighboring gene jnk1/mapk8 associated membrane protein

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
  • 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. The LRR receptor Islr2 is required for retinal axon routing at the vertebrate optic chiasm. Panza P, et al. Neural Dev, 2015 Oct 22. PMID 26492970, 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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Markers

Homology

Gene Ontology Provided by ZFIN

Component Evidence Code Pubs
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
leucine-rich repeat and fibronectin type-III domain-containing protein 5
Names
leucine rich repeat and fibronectin type III domain containing 5

NCBI Reference Sequences (RefSeq)

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RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007128.7 Reference GRCz11 Primary Assembly

    Range
    13664689..13781235
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_001921639.7 → XP_001921674.1  leucine-rich repeat and fibronectin type-III domain-containing protein 5

    UniProtKB/TrEMBL
    A0A8M1QLG2, F1Q9H7
    Related
    ENSDARP00000130591.1, ENSDART00000171689.2
    Conserved Domains (7) summary
    cd05764
    Location:301 → 374
    Ig_2; Subgroup of the immunoglobulin (Ig) superfamily
    pfam07679
    Location:287 → 374
    I-set; Immunoglobulin I-set domain
    sd00033
    Location:53 → 76
    LRR_RI; leucine-rich repeat [structural motif]
    pfam00041
    Location:421 → 494
    fn3; Fibronectin type III domain
    pfam12799
    Location:171 → 212
    LRR_4; Leucine Rich repeats (2 copies)
    pfam13855
    Location:75 → 135
    LRR_8; Leucine rich repeat
    cl15307
    Location:240 → 272
    TPKR_C2; Tyrosine-protein kinase receptor C2 Ig-like domain
Nucleotide Protein
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