Ctsm (cathepsin M) - Rat Genome Database

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Gene: Ctsm (cathepsin M) Rattus norvegicus
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Symbol: Ctsm
Name: cathepsin M
RGD ID: 631420
Description: Predicted to enable cysteine-type endopeptidase activity. Predicted to be involved in proteolysis involved in protein catabolic process. Predicted to be active in extracellular space and lysosome. Orthologous to human CTSL3P (cathepsin L family member 3, pseudogene); INTERACTS WITH ammonium chloride; bisphenol A; decabromodiphenyl ether.
Type: protein-coding
RefSeq Status: PROVISIONAL
RGD Orthologs
Human
Mouse
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8173,242,488 - 3,247,896 (+)NCBIGRCr8
mRatBN7.2173,236,848 - 3,242,265 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl173,236,859 - 3,242,265 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx173,256,388 - 3,261,786 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0174,798,042 - 4,803,456 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0173,252,841 - 3,258,237 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0173,820,606 - 3,826,015 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl173,820,606 - 3,826,015 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0176,041,844 - 6,047,253 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4178,931,468 - 8,936,876 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1178,931,467 - 8,936,876 (+)NCBI
Celera173,368,211 - 3,373,619 (+)NCBICelera
Cytogenetic Map17p14NCBI
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 MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
5. Mouse cathepsin M, a placenta-specific lysosomal cysteine protease related to cathepsins L and P. Sol-Church K, etal., Biochim Biophys Acta 2000 Apr 25;1491(1-3):289-94.

Genomics

Comparative Map Data
Ctsm
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8173,242,488 - 3,247,896 (+)NCBIGRCr8
mRatBN7.2173,236,848 - 3,242,265 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl173,236,859 - 3,242,265 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx173,256,388 - 3,261,786 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0174,798,042 - 4,803,456 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0173,252,841 - 3,258,237 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0173,820,606 - 3,826,015 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl173,820,606 - 3,826,015 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0176,041,844 - 6,047,253 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4178,931,468 - 8,936,876 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1178,931,467 - 8,936,876 (+)NCBI
Celera173,368,211 - 3,373,619 (+)NCBICelera
Cytogenetic Map17p14NCBI
CTSL3P
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38987,772,915 - 87,786,884 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl987,772,915 - 87,786,884 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p14 Ensembl987,772,453 - 87,774,299 (+)EnsemblGRCh38hg38GRCh38
GRCh37990,387,830 - 90,401,799 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36989,577,650 - 89,591,619 (+)NCBINCBI36Build 36hg18NCBI36
Celera960,958,324 - 60,972,282 (+)NCBICelera
Cytogenetic Map9q21.33NCBI
HuRef960,211,917 - 60,225,866 (+)NCBIHuRef
CHM1_1990,535,376 - 90,549,345 (+)NCBICHM1_1
T2T-CHM13v2.0999,926,316 - 99,940,266 (+)NCBIT2T-CHM13v2.0
Ctsm
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391361,683,553 - 61,689,697 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1361,683,557 - 61,689,653 (-)EnsemblGRCm39 Ensembl
GRCm381361,535,739 - 61,541,883 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1361,535,743 - 61,541,839 (-)EnsemblGRCm38mm10GRCm38
MGSCv371361,637,804 - 61,643,199 (-)NCBIGRCm37MGSCv37mm9NCBIm37
Celera1367,558,044 - 67,563,378 (-)NCBICelera
Cytogenetic Map13B2NCBI
cM Map1332.74NCBI

Variants

.
Variants in Ctsm
13 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:42
Count of miRNA genes:39
Interacting mature miRNAs:41
Transcripts:ENSRNOT00000045830
Prediction methods:Miranda, Rnahybrid
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10401807Kidm52Kidney mass QTL 52kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)17131701463Rat
1354581Bp247Blood pressure QTL 2474.5arterial blood pressure trait (VT:2000000)pulse pressure (CMO:0000292)17169599340Rat
1354662Rf49Renal function QTL 492.9blood creatinine amount (VT:0005328)plasma creatinine level (CMO:0000537)17169599340Rat
1354658Spl8Serum phospholipid level QTL 83.8blood VLDL phospholipid amount (VT:0010507)blood very low density lipoprotein phospholipid level (CMO:0001571)17160781592Rat
1641902Colcr7Colorectal carcinoma resistance QTL 73.350.0044intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)17211514921881669Rat
1300123Bp194Blood pressure QTL 1942.82arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)17211514934551001Rat
70184BpQTLcluster14Blood pressure QTL cluster 143.38arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)17131990913Rat
9590316Scort21Serum corticosterone level QTL 214.750.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)17122871563Rat
631207Niddm41Non-insulin dependent diabetes mellitus QTL 41blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)17137830672Rat

Markers in Region
RH140558  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8173,760,959 - 3,761,237 (+)Marker Load Pipeline
RH 3.4 Map1731.2UniSTS
Cytogenetic Map17p14UniSTS
AI180278  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2173,240,823 - 3,241,939 (+)MAPPERmRatBN7.2
mRatBN7.2173,752,325 - 3,753,435 (+)MAPPERmRatBN7.2
Rnor_6.0174,119,536 - 4,120,655NCBIRnor6.0
Rnor_6.0173,824,574 - 3,825,689NCBIRnor6.0
Rnor_5.0176,045,812 - 6,046,927UniSTSRnor5.0
Rnor_5.0176,346,938 - 6,348,057UniSTSRnor5.0
RGSC_v3.4178,935,435 - 8,936,550UniSTSRGSC3.4
Celera173,372,178 - 3,373,293UniSTS
RH 3.4 Map1716.0UniSTS
Cytogenetic Map17p14UniSTS


Expression

RNA-SEQ Expression

circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
mesenchyme
mesoderm
nervous system
reproductive system
respiratory system
7 18 4 4 2 15 2 24 22 18 14 2

Sequence


Ensembl Acc Id: ENSRNOT00000045830   ⟹   ENSRNOP00000046273
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl173,236,859 - 3,242,265 (+)Ensembl
Rnor_6.0 Ensembl173,820,606 - 3,826,015 (+)Ensembl
RefSeq Acc Id: NM_181378   ⟹   NP_852043
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8173,242,488 - 3,247,896 (+)NCBI
mRatBN7.2173,236,859 - 3,242,265 (+)NCBI
Rnor_6.0173,820,606 - 3,826,015 (+)NCBI
Rnor_5.0176,041,844 - 6,047,253 (+)NCBI
RGSC_v3.4178,931,468 - 8,936,876 (+)RGD
Celera173,368,211 - 3,373,619 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_852043 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAO27846 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000046273.6
RefSeq Acc Id: NP_852043   ⟸   NM_181378
- Peptide Label: precursor
- UniProtKB: G3V9F8 (UniProtKB/TrEMBL),   A6KAD6 (UniProtKB/TrEMBL),   Q812B6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000046273   ⟸   ENSRNOT00000045830
Protein Domains
Cathepsin propeptide inhibitor   Peptidase C1A papain C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-G3V9F8-F1-model_v2 AlphaFold G3V9F8 1-333 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:631420 AgrOrtholog
BioCyc Gene G2FUF-10488 BioCyc
Ensembl Genes ENSRNOG00000030276 Ensembl
  ENSRNOG00000065730 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000045830.6 UniProtKB/TrEMBL
Gene3D-CATH Cysteine proteinases UniProtKB/TrEMBL
InterPro Papain_like_cys_pep_sf UniProtKB/TrEMBL
  Pept_his_AS UniProtKB/TrEMBL
  Peptidase_C1A UniProtKB/TrEMBL
  Peptidase_C1A_C UniProtKB/TrEMBL
  Peptidase_C1A_papain-like UniProtKB/TrEMBL
  Prot_inhib_I29 UniProtKB/TrEMBL
KEGG Report rno:306720 UniProtKB/TrEMBL
NCBI Gene 306720 ENTREZGENE
PANTHER CYSTEINE PROTEASE FAMILY C1-RELATED UniProtKB/TrEMBL
Pfam Inhibitor_I29 UniProtKB/TrEMBL
  Peptidase_C1 UniProtKB/TrEMBL
PhenoGen Ctsm PhenoGen
PRINTS PAPAIN UniProtKB/TrEMBL
PROSITE THIOL_PROTEASE_HIS UniProtKB/TrEMBL
RatGTEx ENSRNOG00000030276 RatGTEx
  ENSRNOG00000065730 RatGTEx
SMART Inhibitor_I29 UniProtKB/TrEMBL
  Pept_C1 UniProtKB/TrEMBL
Superfamily-SCOP SSF54001 UniProtKB/TrEMBL
UniProt A6KAD6 ENTREZGENE, UniProtKB/TrEMBL
  G3V9F8 ENTREZGENE, UniProtKB/TrEMBL
  Q812B6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-11 Ctsm  cathepsin M      Symbol and Name status set to approved 625702 APPROVED