Matr3 matrin 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

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
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

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_086036.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

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

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

P130 has the potential to play a variety of roles in biological events not only in the nuclear scaffold but also in various subcellular compartments.
Title: Molecular properties and intracellular localization of rat liver nuclear scaffold protein P130.

Submit: New GeneRIF Correction

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

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

Go to the top of the page Help

Preferred Names: matrin-3

Names: nuclear scaffold protein P130/MAT3

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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)

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

NC_086036.1 Reference GRCr8

Range

27428190..27474421

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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
XM_063277180.1 → XP_063133250.1 matrin-3 isoform X1
XM_063277175.1 → XP_063133245.1 matrin-3 isoform X1
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
XM_063277187.1 → XP_063133257.1 matrin-3 isoform X4
XM_063277185.1 → XP_063133255.1 matrin-3 isoform X3

UniProtKB/TrEMBL

A6J2Y0
XM_063277186.1 → XP_063133256.1 matrin-3 isoform X3

UniProtKB/TrEMBL

A6J2Y0
XM_063277176.1 → XP_063133246.1 matrin-3 isoform X1
XM_063277182.1 → XP_063133252.1 matrin-3 isoform X2

UniProtKB/TrEMBL

A0A0G2JSR7, A6J2X6
XM_063277181.1 → XP_063133251.1 matrin-3 isoform X1
XM_063277178.1 → XP_063133248.1 matrin-3 isoform X1
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
XM_063277184.1 → XP_063133254.1 matrin-3 isoform X2

UniProtKB/TrEMBL

A0A0G2JSR7, A6J2X6
XM_063277183.1 → XP_063133253.1 matrin-3 isoform X2

UniProtKB/TrEMBL

A0A0G2JSR7, A6J2X6
XM_063277177.1 → XP_063133247.1 matrin-3 isoform X1
XM_063277179.1 → XP_063133249.1 matrin-3 isoform X1