Mmp9 matrix metallopeptidase 9 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Mmp9provided by RGD
Official Full Name: matrix metallopeptidase 9provided by RGD
Primary source: RGD:621320
See related: Ensembl:ENSRNOG00000017539 AllianceGenome:RGD:621320
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Enables fibronectin binding activity and metallopeptidase activity. Involved in several processes, including cellular response to cell-matrix adhesion; cellular response to cytokine stimulus; and cellular response to iron(III) ion. Located in extracellular space. Part of protein-containing complex. Used to study artery disease (multiple); brain ischemia (multiple); congestive heart failure; glomerulosclerosis; and lung disease (multiple). Biomarker of several diseases, including artery disease (multiple); brain disease (multiple); chronic obstructive pulmonary disease (multiple); glucose metabolism disease (multiple); and kidney disease (multiple). Human ortholog(s) of this gene implicated in several diseases, including Down syndrome; anodontia; artery disease (multiple); autoimmune disease (multiple); and chronic obstructive pulmonary disease (multiple). Orthologous to human MMP9 (matrix metallopeptidase 9). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 39.9), Kidney (RPKM 35.9) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q42

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (174103474..174111434)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (153684158..153692118)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (161413410..161421473)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Effect of huankuile on colon injury in rats with ulcerative colitis by reducing TNF-alpha and MMP9.
Title: Effect of huankuile on colon injury in rats with ulcerative colitis by reducing TNF-α and MMP9.
Mechanism of pro-MMP9 activation in co-culture of pro-inflammatory macrophages and cardiomyocytes.
Title: Mechanism of pro-MMP9 activation in co-culture of pro-inflammatory macrophages and cardiomyocytes.
S-nitrosylation of EMMPRIN influences the migration of HSCs and MMP activity in liver fibrosis.
Title: S-nitrosylation of EMMPRIN influences the migration of HSCs and MMP activity in liver fibrosis.
Sleep deprivation disturbs uterine contractility and structure in pregnant rats: role of matrix metalloproteinase 9 and transforming growth factor-beta.
Title: Sleep deprivation disturbs uterine contractility and structure in pregnant rats: role of matrix metalloproteinase 9 and transforming growth factor-β.
HIF-1alpha/MMP-9 promotes spinal cord central sensitization in rats with bone cancer pain.
Title: HIF-1α/MMP-9 promotes spinal cord central sensitization in rats with bone cancer pain.
Matrix metalloproteinase-9 regulates afferent arteriolar remodeling and function in hypertension-induced kidney disease.
Title: Matrix metalloproteinase-9 regulates afferent arteriolar remodeling and function in hypertension-induced kidney disease.
Fibroblast-Derived Extracellular Vesicle-Packaged Long Noncoding RNA Upregulated in Diabetic Skin Enhances Keratinocyte MMP-9 Expression and Delays Diabetic Wound Healing.
Title: Fibroblast-Derived Extracellular Vesicle-Packaged Long Noncoding RNA Upregulated in Diabetic Skin Enhances Keratinocyte MMP-9 Expression and Delays Diabetic Wound Healing.
Mesenchymal Stem Cells Promote Wound Healing and Effects on Expression of Matrix Metalloproteinases-8 and 9 in the Wound Tissue of Diabetic Rats.
Title: Mesenchymal Stem Cells Promote Wound Healing and Effects on Expression of Matrix Metalloproteinases-8 and 9 in the Wound Tissue of Diabetic Rats.
Hypoxia-induced upregulation of matrix metalloproteinase 9 increases basement membrane degradation by downregulating collagen type IV alpha 1 chain.
Title: Hypoxia-induced upregulation of matrix metalloproteinase 9 increases basement membrane degradation by downregulating collagen type IV alpha 1 chain.
MMP 9-instructed assembly of bFGF nanofibers in ischemic myocardium to promote heart repair.
Title: MMP 9-instructed assembly of bFGF nanofibers in ischemic myocardium to promote heart repair.

Submit: New GeneRIF Correction See all GeneRIFs (376)

General gene information

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Markers

D3Wox36 (e-PCR)
- UniSTS:518421

Mmp9 (e-PCR), detects polymorphism
- UniSTS:498480

Mmp9 (e-PCR), detects polymorphism
- UniSTS:527425

PMC162218P1 (e-PCR)
- UniSTS:271462

D17Mit102 (e-PCR), detects polymorphism
- UniSTS:127939

D2Dcr116 (e-PCR), detects polymorphism
- UniSTS:507594

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables endopeptidase activity	ISO Inferred from Sequence Orthology more info
enables fibronectin binding	IPI Inferred from Physical Interaction more info	PubMed
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables metalloendopeptidase activity	IBA Inferred from Biological aspect of Ancestor more info
enables metalloendopeptidase activity	IEA Inferred from Electronic Annotation more info
enables metalloendopeptidase activity	ISO Inferred from Sequence Orthology more info
enables metalloendopeptidase activity	ISS Inferred from Sequence or Structural Similarity more info
enables metalloendopeptidase activity	TAS Traceable Author Statement more info	PubMed
enables metallopeptidase activity	IDA Inferred from Direct Assay more info	PubMed
enables metallopeptidase activity	ISO Inferred from Sequence Orthology more info
enables peptidase activity	IDA Inferred from Direct Assay more info	PubMed
enables peptidase activity	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables serine-type endopeptidase activity	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in cell migration	IEA Inferred from Electronic Annotation more info
involved_in cell migration	ISO Inferred from Sequence Orthology more info
involved_in cellular response to UV-A	IEA Inferred from Electronic Annotation more info
involved_in cellular response to UV-A	ISO Inferred from Sequence Orthology more info
involved_in cellular response to cadmium ion	IEA Inferred from Electronic Annotation more info
involved_in cellular response to cadmium ion	ISO Inferred from Sequence Orthology more info
involved_in cellular response to cell-matrix adhesion	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to cell-matrix adhesion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cellular response to cytokine stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to interleukin-1	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to iron(III) ion	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to lipopolysaccharide	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to low-density lipoprotein particle stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to reactive oxygen species	IEA Inferred from Electronic Annotation more info
involved_in cellular response to reactive oxygen species	ISO Inferred from Sequence Orthology more info
involved_in cellular response to tumor necrosis factor	IEP Inferred from Expression Pattern more info	PubMed
involved_in collagen catabolic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in collagen catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in collagen catabolic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within collagen catabolic process	ISO Inferred from Sequence Orthology more info
involved_in embryo implantation	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryo implantation	ISO Inferred from Sequence Orthology more info
involved_in endodermal cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in endodermal cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in extracellular matrix organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in extracellular matrix organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within extracellular matrix organization	ISO Inferred from Sequence Orthology more info
involved_in heart development	IDA Inferred from Direct Assay more info	PubMed
involved_in kidney development	IEP Inferred from Expression Pattern more info	PubMed
involved_in macrophage chemotaxis	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of epithelial cell differentiation involved in kidney development	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of epithelial cell differentiation involved in kidney development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of fibroblast proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of intrinsic apoptotic signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of intrinsic apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in ossification	IEP Inferred from Expression Pattern more info	PubMed
involved_in parturition	IEP Inferred from Expression Pattern more info	PubMed
involved_in positive regulation of angiogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of apoptotic process	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of epidermal growth factor receptor signaling pathway	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of epidermal growth factor receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of keratinocyte migration	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of keratinocyte migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of leukocyte migration	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of protein phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of release of cytochrome c from mitochondria	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of release of cytochrome c from mitochondria	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of synaptic plasticity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of vascular associated smooth muscle cell proliferation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of vascular associated smooth muscle cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in protein catabolic process	IDA Inferred from Direct Assay more info	PubMed
involved_in proteolysis	IDA Inferred from Direct Assay more info	PubMed
involved_in proteolysis	IEA Inferred from Electronic Annotation more info
involved_in proteolysis	ISO Inferred from Sequence Orthology more info
involved_in proteolysis	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to amyloid-beta	IEA Inferred from Electronic Annotation more info
involved_in response to amyloid-beta	ISO Inferred from Sequence Orthology more info
involved_in response to estradiol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to ethanol	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to high light intensity	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to hyperoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to hypoxia	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to lipopolysaccharide	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to mechanical stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nicotine	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to nutrient	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to organic substance	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to oxidative stress	IDA Inferred from Direct Assay more info	PubMed
involved_in response to retinoic acid	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to tumor necrosis factor	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to vitamin A	IEP Inferred from Expression Pattern more info	PubMed
involved_in response to xenobiotic stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in skeletal system development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within skeletal system development	ISO Inferred from Sequence Orthology more info
involved_in tissue remodeling	IDA Inferred from Direct Assay more info	PubMed

Component	Evidence Code	Pubs
located_in extracellular matrix	IEA Inferred from Electronic Annotation more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in extracellular space	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular space	IEA Inferred from Electronic Annotation more info
located_in extracellular space	ISO Inferred from Sequence Orthology more info
located_in extracellular space	ISS Inferred from Sequence or Structural Similarity more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: matrix metalloproteinase-9

Names: 92 kDa gelatinase; 92-kDa type IV collagenase; GELB; MMP-9; gelatinase B; matrix metalloproteinase 9 (gelatinase B, 92-kDa type IV collagenase)

NP_112317.2

EC 3.4.24.35

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)

NM_031055.2 → NP_112317.2 matrix metalloproteinase-9 precursor

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000003

UniProtKB/Swiss-Prot

P50282

UniProtKB/TrEMBL

A6JXD0, D3ZYK8

Related

ENSRNOP00000023965.1, ENSRNOT00000023965.4

Conserved Domains (5) summary

smart00059
Location:224 → 272

FN2; Fibronectin type 2 domain

cd00094
Location:517 → 707

HX; Hemopexin-like repeats.; Hemopexin is a heme-binding protein that transports heme to the liver. Hemopexin-like repeats occur in vitronectin and some matrix metalloproteinases family (matrixins). The HX repeats of some matrixins bind tissue inhibitor of ...

pfam04886
Location:475 → 510

PT; PT repeat

pfam00413
Location:116 → 445

Peptidase_M10; Matrixin

pfam01471
Location:41 → 95

PG_binding_1; Putative peptidoglycan binding domain