Tpsab1 (tryptase alpha/beta 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Tpsab1 (tryptase alpha/beta 1) Rattus norvegicus
Analyze
Symbol: Tpsab1
Name: tryptase alpha/beta 1
RGD ID: 3066
Description: Predicted to enable identical protein binding activity and serine-type endopeptidase activity. Predicted to be involved in extracellular matrix disassembly and proteolysis. Predicted to be located in mast cell granule. Predicted to be active in extracellular space. Orthologous to human TPSAB1 (tryptase alpha/beta 1) and TPSD1 (tryptase delta 1); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; ammonium chloride.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: mast cell protease 7; Mcpt7; MMCP-7; rMCP-7; TPSB1; tryptase; tryptase alpha/beta-1; tryptase beta 1; tryptase, skin
RGD Orthologs
Human
Mouse
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81014,864,887 - 14,867,302 (-)NCBIGRCr8
mRatBN7.21014,360,396 - 14,362,811 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1014,360,396 - 14,362,811 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1019,100,758 - 19,103,173 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01018,589,623 - 18,592,038 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01014,088,832 - 14,091,247 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01014,701,253 - 14,703,668 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1014,701,253 - 14,703,668 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01014,519,181 - 14,521,596 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41014,591,590 - 14,594,005 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11014,591,590 - 14,594,005 (-)NCBI
Celera1014,032,330 - 14,034,745 (-)NCBICelera
Cytogenetic Map10q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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. Secretory granule proteases in rat mast cells. Cloning of 10 different serine proteases and a carboxypeptidase A from various rat mast cell populations. Lutzelschwab C, etal., J Exp Med 1997 Jan 6;185(1):13-29.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
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
8. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
9. Tentative Sequence Identification Numbers Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:1314562   PMID:2036367   PMID:9064323   PMID:9395536   PMID:20551380   PMID:21999702   PMID:27068509   PMID:27559042   PMID:29661938  


Genomics

Comparative Map Data
Tpsab1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81014,864,887 - 14,867,302 (-)NCBIGRCr8
mRatBN7.21014,360,396 - 14,362,811 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1014,360,396 - 14,362,811 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1019,100,758 - 19,103,173 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01018,589,623 - 18,592,038 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01014,088,832 - 14,091,247 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01014,701,253 - 14,703,668 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1014,701,253 - 14,703,668 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01014,519,181 - 14,521,596 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41014,591,590 - 14,594,005 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11014,591,590 - 14,594,005 (-)NCBI
Celera1014,032,330 - 14,034,745 (-)NCBICelera
Cytogenetic Map10q12NCBI
TPSAB1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38161,240,705 - 1,242,554 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl161,239,266 - 1,242,554 (+)EnsemblGRCh38hg38GRCh38
GRCh37161,290,706 - 1,292,555 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36161,230,679 - 1,232,556 (+)NCBINCBI36Build 36hg18NCBI36
Celera161,494,229 - 1,494,587 (-)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef161,211,394 - 1,224,921 (-)NCBIHuRef
CHM1_1161,289,978 - 1,291,845 (+)NCBICHM1_1
T2T-CHM13v2.0161,259,422 - 1,261,271 (-)NCBIT2T-CHM13v2.0
Tpsab1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391725,562,219 - 25,564,536 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1725,562,212 - 25,564,541 (-)EnsemblGRCm39 Ensembl
GRCm381725,343,245 - 25,345,562 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1725,343,245 - 25,345,562 (-)EnsemblGRCm38mm10GRCm38
MGSCv371725,480,364 - 25,482,423 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361725,480,190 - 25,482,472 (-)NCBIMGSCv36mm8
Celera1725,871,535 - 25,873,843 (-)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1712.53NCBI

Variants

.
Variants in Tpsab1
4 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:69
Count of miRNA genes:62
Interacting mature miRNAs:65
Transcripts:ENSRNOT00000024767
Prediction methods:Miranda, Rnahybrid, Targetscan
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
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10476552719816042Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402717245662Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402719233348Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10615418215990232Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat
9590310Scort19Serum corticosterone level QTL 196.30.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9590268Scort13Serum corticosterone level QTL 133.260.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)101147401056474010Rat
9589136Insul27Insulin level QTL 2710.460.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)101147401056474010Rat

Markers in Region
BF413054  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21014,360,431 - 14,360,557 (+)MAPPERmRatBN7.2
Rnor_6.01014,701,289 - 14,701,414NCBIRnor6.0
Rnor_5.01014,519,217 - 14,519,342UniSTSRnor5.0
RGSC_v3.41014,591,626 - 14,591,751UniSTSRGSC3.4
Celera1014,032,366 - 14,032,491UniSTS
RH 3.4 Map10162.9UniSTS
Cytogenetic Map10q12UniSTS
Mcpt7  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21014,360,596 - 14,360,735 (+)MAPPERmRatBN7.2
Rnor_6.01014,701,454 - 14,701,592NCBIRnor6.0
Rnor_5.01014,519,382 - 14,519,520UniSTSRnor5.0
RGSC_v3.41014,591,791 - 14,591,929UniSTSRGSC3.4
Celera1014,032,531 - 14,032,669UniSTS
Cytogenetic Map10q12UniSTS
Tpsb2  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21014,361,902 - 14,362,317 (+)MAPPERmRatBN7.2
Rnor_6.01014,702,760 - 14,703,174NCBIRnor6.0
Rnor_5.01014,520,688 - 14,521,102UniSTSRnor5.0
Celera1014,033,837 - 14,034,251UniSTS
Cytogenetic Map10q12UniSTS


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 circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3
Low 24 25 11 8 11 6 8 10 2 13 10 6
Below cutoff 3 7 10 8 8 8 2 3 19 18 9 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000024767   ⟹   ENSRNOP00000025095
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1014,360,396 - 14,362,811 (-)Ensembl
Rnor_6.0 Ensembl1014,701,253 - 14,703,668 (-)Ensembl
RefSeq Acc Id: NM_019322   ⟹   NP_062195
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81014,864,887 - 14,867,302 (-)NCBI
mRatBN7.21014,360,396 - 14,362,811 (-)NCBI
Rnor_6.01014,701,253 - 14,703,668 (-)NCBI
Rnor_5.01014,519,181 - 14,521,596 (-)NCBI
RGSC_v3.41014,591,590 - 14,594,005 (-)RGD
Celera1014,032,330 - 14,034,745 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_062195 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB48263 (Get FASTA)   NCBI Sequence Viewer  
  AAH61983 (Get FASTA)   NCBI Sequence Viewer  
  EDM03926 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000025095
  ENSRNOP00000025095.1
GenBank Protein P27435 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: NP_062195   ⟸   NM_019322
- Peptide Label: precursor
- UniProtKB: G3V8E5 (UniProtKB/TrEMBL),   Q6P6W8 (UniProtKB/TrEMBL),   A6HD21 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000025095   ⟸   ENSRNOT00000024767
Protein Domains
Peptidase S1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P27435-F1-model_v2 AlphaFold P27435 1-273 view protein structure

Transcriptome

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

Promoters
RGD ID:13697049
Promoter ID:EPDNEW_R7573
Type:single initiation site
Name:Tpsab1_1
Description:tryptase alpha/beta 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01014,703,667 - 14,703,727EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3066 AgrOrtholog
BioCyc Gene G2FUF-25784 BioCyc
Ensembl Genes ENSRNOG00000024181 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000024767 ENTREZGENE
  ENSRNOT00000024767.3 UniProtKB/TrEMBL
Gene3D-CATH 2.40.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5598863 IMAGE-MGC_LOAD
InterPro Peptidase_S1_PA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Peptidase_S1_PA_chymotrypsin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Peptidase_S1A UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Trypsin_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRYPSIN_HIS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRYPSIN_SER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:54271 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72481 IMAGE-MGC_LOAD
NCBI Gene 54271 ENTREZGENE
PANTHER TRANSMEMBRANE PROTEASE SERINE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRYPTASE DELTA 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Trypsin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tpsab1 PhenoGen
PRINTS CHYMOTRYPSIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE TRYPSIN_DOM UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRYPSIN_HIS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TRYPSIN_SER UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000024181 RatGTEx
SMART Tryp_SPc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF50494 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC233394
UniProt A6HD21 ENTREZGENE, UniProtKB/TrEMBL
  G3V8E5 ENTREZGENE, UniProtKB/TrEMBL
  P27435 ENTREZGENE
  Q6P6W8 ENTREZGENE, UniProtKB/TrEMBL
  TRYB1_RAT UniProtKB/Swiss-Prot
UniProt Secondary P27436 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-11-18 Tpsab1  tryptase alpha/beta 1  TPSB1  tryptase beta 1  Symbol and Name updated to reflect Human and Mouse nomenclature 1299863 APPROVED
2004-09-10 TPSB1  tryptase beta 1  Mcpt7  mast cell protease 7  Symbol and Name updated 1299863 APPROVED
2002-06-10 Mcpt7  mast cell protease 7      Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_protein 245 amino acids 69811