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

Gene ID: 688400, updated on 2-Nov-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
EnsemblRapid: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 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, Nov 2024]
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 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
    Related
    ENSRNOP00000061460.3, ENSRNOT00000064991.6

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

    Related
    ENSRNOP00000079094.2, ENSRNOT00000112139.2
    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, ENSRNOT00000118031.2
    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, ENSRNOT00000100874.2

  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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