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    Edil3 EGF like repeats and discoidin domains 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 688400, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Edil3provided by RGD
    Official Full Name
    EGF like repeats and discoidin domains 3provided by RGD
    Primary source
    RGD:1588887
    See related
    Ensembl:ENSRNOG00000033064 AllianceGenome:RGD:1588887
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable calcium ion binding activity. Predicted to be involved in cell adhesion. Predicted to act upstream of or within positive regulation of cell-substrate adhesion. Orthologous to human EDIL3 (EGF like repeats and discoidin domains 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 356.1) and Liver (RPKM 61.7) See more
    Orthologs
    human mouse all
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    Genomic context

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    See Edil3 in Genome Data Viewer
    Location:
    2q12
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 2 NC_086020.1 (21625604..22140380)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 2 NC_051337.1 (19890396..20405028)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (17616116..18128514)

    Chromosome 2 - NC_086020.1Genomic Context describing neighboring genes Neighboring gene spindlin 1, pseudogene 1 Neighboring gene casein kinase 1, alpha 1, pseudogene 2 Neighboring gene small nucleolar RNA SNORA48 Neighboring gene U6 spliceosomal RNA Neighboring gene eukaryotic translation elongation factor 1 alpha 1, pseudogene 7

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Protein profile of exosomes from trabecular meshwork cells. Stamer WD, et al. J Proteomics, 2011 May 16. PMID 21362503, Free PMC Article
    2. Proteomic analysis of cerebrospinal fluid extracellular vesicles: a comprehensive dataset. Chiasserini D, et al. J Proteomics, 2014 Jun 25. PMID 24769233
    3. Transcriptome-based systematic identification of extracellular matrix proteins. Manabe R, et al. Proc Natl Acad Sci U S A, 2008 Sep 2. PMID 18757743, Free PMC Article
    4. Extracellular matrix remodelling in response to venous hypertension: proteomics of human varicose veins. Barallobre-Barreiro J, et al. Cardiovasc Res, 2016 Jun 1. PMID 27068509, Free PMC Article
    5. SILAC-based proteomics of human primary endothelial cell morphogenesis unveils tumor angiogenic markers. Zanivan S, et al. Mol Cell Proteomics, 2013 Dec. PMID 23979707, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within positive regulation of cell-substrate adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    EGF-like repeat and discoidin I-like domain-containing protein 3
    Names
    EGF-like repeats and discoidin I-like domains 3

    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_001427434.1 → NP_001414363.1  EGF-like repeat and discoidin I-like domain-containing protein 3 precursor

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000002
      UniProtKB/TrEMBL
      A6I4M7, F1M6P8

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086020.1 Reference GRCr8

      Range
      21625604..22140380
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039103424.2 → XP_038959352.1  EGF-like repeat and discoidin I-like domain-containing protein 3 isoform X3

      Conserved Domains (2) summary
      cd00054
      Location:75 → 111
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd00057
      Location:116 → 269
      FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.

    2. XM_039103422.2 → XP_038959350.1  EGF-like repeat and discoidin I-like domain-containing protein 3 isoform X1

      UniProtKB/TrEMBL
      A0A8I6GKH0, A6I4M8
      Related
      ENSRNOP00000093857.1
      Conserved Domains (2) summary
      cd00054
      Location:108 → 144
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd00057
      Location:149 → 302
      FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.

    3. XM_017591169.3 → XP_017446658.1  EGF-like repeat and discoidin I-like domain-containing protein 3 isoform X2

      UniProtKB/TrEMBL
      A0A8I6B273
      Related
      ENSRNOP00000095217.1

    4. XM_039103425.2 → XP_038959353.1  EGF-like repeat and discoidin I-like domain-containing protein 3 isoform X4

      Conserved Domains (2) summary
      cd00054
      Location:32 → 68
      EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
      cd00057
      Location:73 → 226
      FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.

    5. XM_063282562.1 → XP_063138632.1  EGF-like repeat and discoidin I-like domain-containing protein 3 isoform X5

    Nucleotide Protein Strain
    Heading Accession and Version

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