mtr3 (SPBC211.08c)


Gene Standard Namemtr3 Characterisation Statuspublished
Systematic IDSPBC211.08c Feature Typeprotein coding
Synonyms Name Description
Productexosomal 3'-5' exoribonuclease, PH-like Mtr3 Product Size257aa, 28.44 kDa
Genomic Location Chromosome II, 3888596-3886905 (1692nt); CDS:3888278-3887467 (812nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:00001753'-5'-exoribonuclease activityISMPFAM:PF01138GO_REF:000000116
GO:0003723RNA bindingIEAUniProtKB-KW:KW-0694GO_REF:0000037628
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0000467exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)ISOSGD:S000003390GO_REF:000002415
GO:0034661ncRNA catabolic processISOSGD:S000003390GO_REF:000002419
GO:0070651nonfunctional rRNA decayISOSGD:S000003390GO_REF:000002413
GO:0071042nuclear polyadenylation-dependent mRNA catabolic processISOSGD:S000003390GO_REF:000002412
GO:0071035nuclear polyadenylation-dependent rRNA catabolic processISOSGD:S000003390GO_REF:000002412
GO:0071038nuclear polyadenylation-dependent tRNA catabolic processISOSGD:S000003390GO_REF:000002412
GO:0070478nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decayISOSGD:S000003390GO_REF:000002413
GO:0070481nuclear-transcribed mRNA catabolic process, non-stop decayISOSGD:S000003390GO_REF:000002413
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0000177cytoplasmic exosome (RNase complex)ISOSGD:S000003390GO_REF:000002410
GO:0005829cytosolIDAPMID:168233722316
GO:0000178exosome (RNase complex)IDAPMID:2350358814
GO:0000176nuclear exosome (RNase complex)ISOSGD:S000003390GO_REF:000002413
GO:0005730nucleolusIEASL-0188GO_REF:0000039355
GO:0005634nucleusIDAPMID:168233722740
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopymtr3ΔNullPMID:204732891315
FYPO:0002060viable vegetative cell populationMicroscopymtr3ΔNullPECO:0000005, PECO:0000137PMID:236978063760

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001511inviable vegetative cell, abnormal cell shape, normal cell size199
expressivity FYPO_EXT:0000003
penetrance FYPO_EXT:0000001
Microscopymtr3ΔNullPECO:0000137, PECO:0000005PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
138885963888164
238881253886905

UTRs

Region Coordinates Reference
five_prime_UTR3888596..3888279PMID:21511999
three_prime_UTR3887466..3886905PMID:21511999
Protein Features

Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID Database InterPro Description Start End Count
PF01138 Pfam IPR001247 Exoribonuclease, phosphorolytic domain 1 35 162 6
PTHR11953:SF2 HMMPANTHER 1 248 1
PTHR11953 HMMPANTHER 1 248 3
1e3hA01 Gene3D IPR027408 PNPase/RNase PH domain 26 193 4
SSF55666 SuperFamily IPR015847 Exoribonuclease, phosphorolytic domain 2 166 247 5
SSF54211 SuperFamily IPR020568 Ribosomal protein S5 domain 2-type fold 30 162 29

View domain organization at Pfam

Protein Properties

Ave. residue weight 110.64 Da
Charge 3.00
Isoelectric point 7.74
Molecular weight 28.44 kDa
Number of residues 257
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
3620.43during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
5218during GO:0072690PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
5931during GO:0000084PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
5070during GO:0000080PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
4836during GO:0000087PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
5672during GO:0000085PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
2119.54during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
0.94during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
3.5during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3080
conserved in fungi4569
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3393
conserved in eukaryotes only2487
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
dis33'-5' exoribonuclease subunit Dis3 (predicted) Affinity Capture-MSPMID:23503588
rrp43exosome subunit Rrp43 Affinity Capture-MSPMID:23503588
External References
Database Identifier Description
NBRP SPBC211.08c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC211.08c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC211.08c BioGRID Interaction Datasets
Expression Viewer SPBC211.08c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC211.08c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC211.08c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC211.08c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC211.08c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC211.08c Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC211.08c Cell Cycle Data
GEO SPBC211.08c GEO profiles
PInt SPBC211.08c Protein-Protein Interaction Predictor (Bähler Lab)
IntEnz3.1.13.-Integrated relational Enzyme database
Rhea3.1.13.-Annotated reactions database
EntrezGene2540412exosome complex component mtr3
WikiGene2540412exosome complex component mtr3
SPD / RIKEN10/10D03Orfeome Localization Data
UniProtKB/SwissProtQ9P7R3Exosome complex component mtr3
ModBaseQ9P7R3Database of comparative protein structure models
STRINGQ9P7R3Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596618exosome complex component mtr3
RefSeq mRNANM_001022539972h- exosome complex component mtr3 (SPBC211.08c), mRNA
European Nucleotide ArchiveCAB75416ENA Protein Mapping
European Nucleotide ArchiveCAB75416.1ENA Protein Mapping
UniParcUPI000006AFF3UniProt Archive

Literature for mtr3

Search: Europe PMC or PubMed

Release Version: PomBase:22_44 - 08 Jul 2014