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    Matr3 matrin 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 29150, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Matr3provided by RGD
    Official Full Name
    matrin 3provided by RGD
    Primary source
    RGD:3052
    See related
    EnsemblRapid:ENSRNOG00000019875 AllianceGenome:RGD:3052
    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
    Also known as
    snhg4; P130/MAT3
    Summary
    Predicted to enable identical protein binding activity and miRNA binding activity. Predicted to be involved in activation of innate immune response and post-transcriptional regulation of gene expression. Predicted to act upstream of or within blastocyst formation; heart valve development; and ventricular septum development. Located in nuclear matrix. Human ortholog(s) of this gene implicated in amyotrophic lateral sclerosis type 21. Orthologous to human MATR3 (matrin 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Brain (RPKM 1299.5), Thymus (RPKM 767.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Matr3 in Genome Data Viewer
    Location:
    18p11
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 18 NC_086036.1 (27428190..27474421)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 18 NC_051353.1 (27154098..27193212)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 18 NC_005117.4 (28351691..28390764)

    Chromosome 18 - NC_086036.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102550858 Neighboring gene uncharacterized LOC120098220 Neighboring gene microRNA 1949 Neighboring gene small nucleolar RNA, H/ACA box 74A Neighboring gene small nucleolar RNA host gene 4 (non-protein coding) Neighboring gene poly(A) binding protein interacting protein 2 Neighboring gene solute carrier family 23 member 1 Neighboring gene marginal zone B and B1 cell-specific protein

    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. The Role of miR-217-5p in the Puromycin Aminonucleoside-Induced Morphological Change of Podocytes. Ishibashi O, et al. Noncoding RNA, 2022 Jun 8. PMID 35736640, Free PMC Article
    2. Affinity of a highly repetitive bent DNA for nuclear scaffold proteins from rat liver. Hibino Y, et al. Biochem Biophys Res Commun, 1992 Apr 30. PMID 1575753
    3. Properties of a DNA-binding protein from rat nuclear scaffold fraction. Hibino Y, et al. Biochem Biophys Res Commun, 1993 Nov 30. PMID 8250943
    4. Purification and characterization of nuclear scaffold proteins which bind to a highly repetitive bent DNA from rat liver. Hibino Y, et al. Biochim Biophys Acta, 1993 Aug 19. PMID 8357833
    5. Purification and characterization of a DNA binding protein in a nuclear scaffold fraction from rat ascites hepatoma cells. Hibino Y, et al. Carcinogenesis, 1997 Apr. PMID 9111204

    See all (29) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables miRNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables miRNA binding ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables zinc ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in activation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    acts_upstream_of_or_within blastocyst formation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within heart valve development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in innate immune response IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in post-transcriptional regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within ventricular septum development ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in nuclear matrix IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    matrin-3
    Names
    nuclear scaffold protein P130/MAT3

    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_019149.3 → NP_062022.2  matrin-3

      See identical proteins and their annotated locations for NP_062022.2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000018
      UniProtKB/Swiss-Prot
      O35833, P43244, Q5DVW1
      UniProtKB/TrEMBL
      A0A0G2JSR7, A6J2X6
      Related
      ENSRNOP00000026949.3, ENSRNOT00000026949.7
      Conserved Domains (4) summary
      smart00451
      Location:796 → 831
      ZnF_U1; U1-like zinc finger
      COG5271
      Location:567 → 776
      MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
      cd12714
      Location:398 → 473
      RRM1_MATR3; RNA recognition motif 1 (RRM1) found in vertebrate matrin-3
      cd12715
      Location:496 → 575
      RRM2_MATR3; RNA recognition motif 2 (RRM2) found in vertebrate matrin-3

    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_086036.1 Reference GRCr8

      Range
      27428190..27474421
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017600886.3 → XP_017456375.1  matrin-3 isoform X2

      UniProtKB/Swiss-Prot
      O35833, P43244, Q5DVW1
      UniProtKB/TrEMBL
      A0A0G2JSR7, A6J2X6
      Conserved Domains (4) summary
      smart00451
      Location:796 → 831
      ZnF_U1; U1-like zinc finger
      COG5271
      Location:567 → 776
      MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
      cd12714
      Location:398 → 473
      RRM1_MATR3; RNA recognition motif 1 (RRM1) found in vertebrate matrin-3
      cd12715
      Location:496 → 575
      RRM2_MATR3; RNA recognition motif 2 (RRM2) found in vertebrate matrin-3

    2. XM_063277180.1 → XP_063133250.1  matrin-3 isoform X1

    3. XM_063277175.1 → XP_063133245.1  matrin-3 isoform X1

      Related
      ENSRNOP00000110855.1, ENSRNOT00000147139.1

    4. XM_006254534.5 → XP_006254596.1  matrin-3 isoform X2

      See identical proteins and their annotated locations for XP_006254596.1

      UniProtKB/Swiss-Prot
      O35833, P43244, Q5DVW1
      UniProtKB/TrEMBL
      A0A0G2JSR7, A6J2X6
      Conserved Domains (4) summary
      smart00451
      Location:796 → 831
      ZnF_U1; U1-like zinc finger
      COG5271
      Location:567 → 776
      MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
      cd12714
      Location:398 → 473
      RRM1_MATR3; RNA recognition motif 1 (RRM1) found in vertebrate matrin-3
      cd12715
      Location:496 → 575
      RRM2_MATR3; RNA recognition motif 2 (RRM2) found in vertebrate matrin-3

    5. XM_063277187.1 → XP_063133257.1  matrin-3 isoform X4

    6. XM_063277185.1 → XP_063133255.1  matrin-3 isoform X3

      UniProtKB/TrEMBL
      A6J2Y0

    7. XM_063277186.1 → XP_063133256.1  matrin-3 isoform X3

      UniProtKB/TrEMBL
      A6J2Y0

    8. XM_063277176.1 → XP_063133246.1  matrin-3 isoform X1

    9. XM_063277182.1 → XP_063133252.1  matrin-3 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JSR7, A6J2X6

    10. XM_063277181.1 → XP_063133251.1  matrin-3 isoform X1

    11. XM_063277178.1 → XP_063133248.1  matrin-3 isoform X1

    12. XM_017600887.3 → XP_017456376.1  matrin-3 isoform X2

      UniProtKB/Swiss-Prot
      O35833, P43244, Q5DVW1
      UniProtKB/TrEMBL
      A0A0G2JSR7, A6J2X6
      Conserved Domains (4) summary
      smart00451
      Location:796 → 831
      ZnF_U1; U1-like zinc finger
      COG5271
      Location:567 → 776
      MDN1; Midasin, AAA ATPase with vWA domain, involved in ribosome maturation [Translation, ribosomal structure and biogenesis]
      cd12714
      Location:398 → 473
      RRM1_MATR3; RNA recognition motif 1 (RRM1) found in vertebrate matrin-3
      cd12715
      Location:496 → 575
      RRM2_MATR3; RNA recognition motif 2 (RRM2) found in vertebrate matrin-3

    13. XM_063277184.1 → XP_063133254.1  matrin-3 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JSR7, A6J2X6

    14. XM_063277183.1 → XP_063133253.1  matrin-3 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JSR7, A6J2X6

    15. XM_063277177.1 → XP_063133247.1  matrin-3 isoform X1

    16. XM_063277179.1 → XP_063133249.1  matrin-3 isoform X1

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    P43244.2 GenPept UniProtKB/Swiss-Prot:P43244

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