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Matr3 matrin 3 [ Rattus norvegicus (Norway rat) ]

Gene ID: 29150, updated on 13-Apr-2024

Summary

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Official Symbol
Matr3provided by RGD
Official Full Name
matrin 3provided by RGD
Primary source
RGD:3052
See related
Ensembl: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 posttranscriptional regulation of gene expression. Predicted to act upstream of or within blastocyst formation; heart valve development; and ventricular septum development. Located in cytoplasm and 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, Apr 2022]
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. Molecular properties and intracellular localization of rat liver nuclear scaffold protein P130. Hibino Y, et al. Biochim Biophys Acta, 2006 May. PMID 16814881
  2. Transcription modulation by a rat nuclear scaffold protein, P130, and a rat highly repetitive DNA component or various types of animal and plant matrix or scaffold attachment regions. Hibino Y, et al. Biochem Biophys Res Commun, 2000 Dec 9. PMID 11112453
  3. [Functional arrangement of genomic DNA and structure of nuclear matrix]. Hibino Y. Yakugaku Zasshi, 2000 Jun. PMID 10860485
  4. Involvement of phosphorylation in binding of nuclear scaffold proteins from rat liver to a highly repetitive DNA component. Hibino Y, et al. Biochim Biophys Acta, 1998 Mar 4. PMID 9524232
  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 (28) 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
  
involved_in blastocyst formation IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within blastocyst formation ISO
Inferred from Sequence Orthology
more info
  
involved_in heart valve development IEA
Inferred from Electronic Annotation
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
  
involved_in ventricular septum development IEA
Inferred from Electronic Annotation
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
    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

  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
    Related
    ENSRNOP00000026949.3
    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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