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 NameCount
3'-5'-exoribonuclease activity16
Annotation ExtensionEvidenceWith/FromReference
RNA binding646
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
GO Cellular Component
Term NameCount
cytoplasmic exosome (RNase complex)10
Annotation ExtensionEvidenceWith/FromReference
cytosol2315
Annotation ExtensionEvidenceWith/FromReference
exosome (RNase complex)14
Annotation ExtensionEvidenceWith/FromReference
nuclear exosome (RNase complex)13
Annotation ExtensionEvidenceWith/FromReference
nucleus2740
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopymtr3ΔNullPECO:0000005, PECO:0000137PMID:236978061338
Microscopymtr3ΔNullPMID:20473289

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
Target Of
OntologyRelationshipGeneProductReference
FYPO affected by mutation in mtl1 TRAMP complex ATP-dependent RNA helicase (predicted) PMID:24713849
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 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)ExtensionConditionScaleEvidenceReference
5070during GO:0000080PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
5931during GO:0000084PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
5672during GO:0000085PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
4836during GO:0000087PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
3620.43during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
5218during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
2119.54during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
3.5during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.94during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4600
conserved in eukaryotes4514
conserved in metazoa3425
conserved in vertebrates3400
conserved in eukaryotes only2497
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
red1RNA elimination defective protein Red1 Affinity Capture-MSPMID:24713849
dis33'-5' exoribonuclease subunit Dis3 Affinity Capture-MSPMID:23503588
mtl1TRAMP complex ATP-dependent RNA helicase (predicted) Affinity Capture-MSPMID:24713849
pir2zf-C2H2 type zinc finger protein, implicated in RNAi (predicted) Affinity Capture-MSPMID:24713849
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)
PeptideAtlas SPBC211.08c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC211.08c Fission yeast phenotypic data & analysis
IntEnz3.1.13.-Integrated relational Enzyme database
Rhea3.1.13.-Annotated reactions database
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 ArchiveCAB75416.1ENA Protein Mapping
UniParcUPI000006AFF3UniProt Archive

Literature for mtr3

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014