Mmp20 (matrix metallopeptidase 20) - Rat Genome Database

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Gene: Mmp20 (matrix metallopeptidase 20) Rattus norvegicus
Analyze
Symbol: Mmp20
Name: matrix metallopeptidase 20
RGD ID: 1308730
Description: Predicted to enable metalloendopeptidase activity. Predicted to be involved in amelogenesis; collagen catabolic process; and extracellular matrix organization. Predicted to act upstream of or within extracellular matrix disassembly and protein catabolic process. Predicted to be located in extracellular matrix. Predicted to be active in extracellular space. Human ortholog(s) of this gene implicated in amelogenesis imperfecta hypomaturation type 2A2. Orthologous to human MMP20 (matrix metallopeptidase 20); INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC300341; matrix metallopeptidase 20 (enamelysin); matrix metalloproteinase 20 (enamelysin); matrix metalloproteinase-20
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.284,789,415 - 4,830,035 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl84,789,415 - 4,830,035 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx88,748,991 - 8,789,552 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.087,046,772 - 7,087,333 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.085,049,092 - 5,089,708 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.085,823,147 - 5,875,555 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl85,833,359 - 5,875,232 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.085,826,487 - 5,877,399 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.484,467,263 - 4,507,865 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.184,467,232 - 4,507,654 (+)NCBI
Celera86,348,869 - 6,389,463 (+)NCBICelera
Cytogenetic Map8q11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:9398237   PMID:15557396   PMID:21454549   PMID:22243248  


Genomics

Comparative Map Data
Mmp20
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.284,789,415 - 4,830,035 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl84,789,415 - 4,830,035 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx88,748,991 - 8,789,552 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.087,046,772 - 7,087,333 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.085,049,092 - 5,089,708 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.085,823,147 - 5,875,555 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl85,833,359 - 5,875,232 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.085,826,487 - 5,877,399 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.484,467,263 - 4,507,865 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.184,467,232 - 4,507,654 (+)NCBI
Celera86,348,869 - 6,389,463 (+)NCBICelera
Cytogenetic Map8q11NCBI
MMP20
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh3811102,576,832 - 102,625,332 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl11102,576,832 - 102,625,332 (-)EnsemblGRCh38hg38GRCh38
GRCh3711102,447,563 - 102,496,063 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 3611101,952,776 - 102,001,273 (-)NCBINCBI36Build 36hg18NCBI36
Build 3411101,952,775 - 102,001,273NCBI
Celera1199,609,116 - 99,657,267 (-)NCBICelera
Cytogenetic Map11q22.2NCBI
HuRef1198,374,581 - 98,423,040 (-)NCBIHuRef
CHM1_111102,330,639 - 102,378,769 (-)NCBICHM1_1
T2T-CHM13v2.011102,579,028 - 102,627,492 (-)NCBIT2T-CHM13v2.0
Mmp20
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3997,628,232 - 7,674,969 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl97,628,232 - 7,674,980 (+)EnsemblGRCm39 Ensembl
GRCm3897,628,231 - 7,674,968 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl97,628,231 - 7,674,979 (+)EnsemblGRCm38mm10GRCm38
MGSCv3797,628,231 - 7,674,968 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3697,628,240 - 7,674,979 (+)NCBIMGSCv36mm8
Celera95,018,752 - 5,065,648 (+)NCBICelera
Cytogenetic Map9A1NCBI
cM Map92.46NCBI
Mmp20
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554125,815,450 - 5,869,016 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554125,815,450 - 5,869,016 (-)NCBIChiLan1.0ChiLan1.0
MMP20
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan111104,459,433 - 104,507,921 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01197,518,573 - 97,566,881 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.111101,011,084 - 101,059,322 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl11101,011,084 - 101,059,322 (-)Ensemblpanpan1.1panPan2
MMP20
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1529,106,717 - 29,154,628 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl529,106,717 - 29,155,071 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha529,054,854 - 29,102,065 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0529,158,125 - 29,205,612 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl529,158,125 - 29,205,612 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1529,193,037 - 29,240,434 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0529,072,357 - 29,119,832 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0529,247,616 - 29,295,291 (+)NCBIUU_Cfam_GSD_1.0
Mmp20
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494786,183,414 - 86,226,115 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365515,310,426 - 5,352,883 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365515,310,426 - 5,352,883 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MMP20
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl933,261,443 - 33,308,047 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1933,261,448 - 33,308,047 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2937,208,054 - 37,254,669 (-)NCBISscrofa10.2Sscrofa10.2susScr3
MMP20
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1193,946,136 - 93,997,656 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl193,947,582 - 93,996,815 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604331,863,724 - 31,912,227 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Mmp20
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624878277,558 - 320,093 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624878277,569 - 320,093 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Mmp20
212 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:163
Count of miRNA genes:128
Interacting mature miRNAs:142
Transcripts:ENSRNOT00000033306
Prediction methods:Miranda
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2317048Ginf1Gastrointestinal inflammation QTL 13.520.005cecum mucosa thickness (VT:0010234)enterocolitis severity score (CMO:0002138)8470581049705810Rat
9590084Insglur5Insulin/glucose ratio QTL 518.540.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)8124597739Rat
2317882Alcrsp24Alcohol response QTL 243.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)8125902202Rat
12880025Cm102Cardiac mass QTL 1020.044heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)8209764047097640Rat
12880023Bw184Body weight QTL 1840.001body mass (VT:0001259)body weight (CMO:0000012)8209764047097640Rat
12880028Cm103Cardiac mass QTL 1030.02heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)8209764047097640Rat
12880044Am9Aortic mass QTL 90.007aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)8209764047097640Rat
2317032Ginf2Gastrointestinal inflammation QTL 23.210.005liver integrity trait (VT:0010547)liver granuloma severity score (CMO:0002157)8470581049705810Rat
2317036Livw3Liver weight QTL 32.430.01liver mass (VT:0003402)liver weight to body weight ratio (CMO:0000633)8470581049705810Rat


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system endocrine system exocrine system hemolymphoid system hepatobiliary system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium
Low 1 2 2 2 2
Below cutoff 1 26 21 5 21 1 1 9 19 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000033306   ⟹   ENSRNOP00000032003
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl84,789,415 - 4,830,035 (+)Ensembl
Rnor_6.0 Ensembl85,833,359 - 5,875,232 (+)Ensembl
RefSeq Acc Id: NM_001106800   ⟹   NP_001100270
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.284,789,415 - 4,830,035 (+)NCBI
Rnor_6.085,833,359 - 5,875,232 (+)NCBI
Rnor_5.085,826,487 - 5,877,399 (+)NCBI
RGSC_v3.484,467,263 - 4,507,865 (+)RGD
Celera86,348,869 - 6,389,463 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100270 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL78528 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_001100270   ⟸   NM_001106800
- Peptide Label: precursor
- UniProtKB: D3ZXD9 (UniProtKB/TrEMBL),   A6JN38 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000032003   ⟸   ENSRNOT00000033306

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZXD9-F1-model_v2 AlphaFold D3ZXD9 1-482 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308730 AgrOrtholog
BioCyc Gene G2FUF-31784 BioCyc
Ensembl Genes ENSRNOG00000021896 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000032003 ENTREZGENE
  ENSRNOP00000032003.4 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000033306 ENTREZGENE
  ENSRNOT00000033306.5 UniProtKB/TrEMBL
Gene3D-CATH 2.110.10.10 UniProtKB/TrEMBL
  3.40.390.10 UniProtKB/TrEMBL
InterPro Hemopexin-like_dom_sf UniProtKB/TrEMBL
  Hemopexin/matrixin UniProtKB/TrEMBL
  Hemopexin/matrixin_repeat UniProtKB/TrEMBL
  M10A_MMP UniProtKB/TrEMBL
  MetalloPept_cat_dom UniProtKB/TrEMBL
  Pept_M10_metallopeptidase UniProtKB/TrEMBL
  Pept_M10A_matrixin UniProtKB/TrEMBL
  Pept_M10A_Zn_BS UniProtKB/TrEMBL
  Peptidase_Metallo UniProtKB/TrEMBL
  Peptidoglycan-bd-like UniProtKB/TrEMBL
  PGBD-like_sf UniProtKB/TrEMBL
KEGG Report rno:300341 UniProtKB/TrEMBL
NCBI Gene 300341 ENTREZGENE
PANTHER MATRIX METALLOPROTEINASE UniProtKB/TrEMBL
  PTHR10201:SF125 UniProtKB/TrEMBL
Pfam Hemopexin UniProtKB/TrEMBL
  Peptidase_M10 UniProtKB/TrEMBL
  PG_binding_1 UniProtKB/TrEMBL
PhenoGen Mmp20 PhenoGen
PIRSF Peptidase_M10A_matrix UniProtKB/TrEMBL
PRINTS MATRIXIN UniProtKB/TrEMBL
PROSITE CYSTEINE_SWITCH UniProtKB/TrEMBL
  HEMOPEXIN_2 UniProtKB/TrEMBL
SMART SM00120 UniProtKB/TrEMBL
  ZnMc UniProtKB/TrEMBL
Superfamily-SCOP Hemopexin UniProtKB/TrEMBL
  Metalloproteases ('zincins'), catalytic domain UniProtKB/TrEMBL
  PGBD_like UniProtKB/TrEMBL
UniProt A6JN38 ENTREZGENE, UniProtKB/TrEMBL
  D3ZXD9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-11-06 Mmp20  matrix metallopeptidase 20  Mmp20  matrix metallopeptidase 20 (enamelysin)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Mmp20  matrix metallopeptidase 20 (enamelysin)   Mmp20_predicted  matrix metallopeptidase 20 (enamelysin) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Mmp20_predicted  matrix metalloproteinase 20 (enamelysin) (predicted)      Symbol and Name status set to approved 70820 APPROVED