tri1 (SPBC29A10.09c)


Gene Standard Nametri1 Characterisation Statuspublished
Systematic IDSPBC29A10.09c Feature Typeprotein coding
Synonyms Name Description
Producttriman, ribonuclease involved in priRNA formation Tri1 Product Size427aa, 49.01 kDa
Genomic Location Chromosome II, 2557200-2554177 (3024nt); CDS:2556947-2555664 (1284nt)

Ensembl Gene Location
GO Molecular Function
GO Biological Process
Term NameCount
heterochromatin assembly involved in chromatin silencing by small RNA3
Annotation ExtensionEvidenceWith/FromReference
ncRNA 3'-end processing27
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
nucleus2691
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
viable vegetative cell populationtri1Δ3844

Cell Phenotype

Term NameGenotypesCount
abnormal heterochromatin assembly at centromere outer repeattri1Δ2
abolished 3'-5'-exoribonuclease activityD28A (D28A)3
decreased centromeric outer repeat transcript leveltri1Δ18
decreased heterochromatin assembly at protein coding gene2
affecting SPAC8C9.04tri1Δ
affecting mcp5tri1Δ
decreased histone H3-K9 methylation at centromere outer repeattri1Δ21
decreased mRNA-derived small RNA level2
affecting SPAC8C9.04tri1Δ
affecting mcp5tri1Δ
decreased RNA binding13
affecting ago1tri1Δ
increased Argonaute-associated RNA lengthtri1Δ1
normal heterochromatin assembly at protein coding gene1
affecting mei4tri1Δ
viable vegetative cell with normal cell morphologytri1Δ3100
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons2557200..2554177
mRNA2557200..2554177
5' UTR2557200..2556948PMID:21511999
CDS2556947..2555664
3' UTR2555663..2554177PMID: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
PF04857 Pfam IPR006941 Ribonuclease CAF1 3 394 2
PTHR15092:SF26 HMMPANTHER 1 414 1
PTHR15092 HMMPANTHER 1 414 1
3.30.420.10 Gene3D IPR012337 Ribonuclease H-like domain 257 407 32
3.30.420.10 Gene3D IPR012337 Ribonuclease H-like domain 2 128 32
SSF53098 SuperFamily IPR012337 Ribonuclease H-like domain 378 410 34
SSF53098 SuperFamily IPR012337 Ribonuclease H-like domain 259 350 34
SSF53098 SuperFamily IPR012337 Ribonuclease H-like domain 1 130 34

View domain organization at Pfam

Protein Properties

Ave. residue weight 114.77 Da
Charge 8.50
Codon Adaptation Index 0.36
Isoelectric point 8.14
Molecular weight 49.01 kDa
Number of residues 427
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for tri1 (SPBC29A10.09c)

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
0.19during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.18during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
no apparent S. cerevisiae ortholog601
predominantly single copy (one to one)3092
conserved in fungi4606
conserved in eukaryotes4516
conserved in metazoa3424
conserved in vertebrates3399
conserved in eukaryotes only2505
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPBC29A10.09c into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity captured byago1argonaute Affinity Capture-MSPMID:24095277
forms complex withago1argonaute Reconstituted ComplexPMID:24095277
Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPBC29A10.09c into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
rescuesrrp6exosome 3'-5' exoribonuclease subunit Rrp6 (predicted) Phenotypic SuppressionPMID:24095277
rescuesdcr1dicer Phenotypic SuppressionPMID:24095277
enhances phenotype ofdcr1dicer Phenotypic EnhancementPMID:24095277
negative genetic interaction withhrr1Helicase Required for RNAi-mediated heterochromatin assembly Hrr1 Negative GeneticPMID:22681890
negative genetic interaction withswd3WD repeat protein Swd3 Negative GeneticPMID:22681890
positive genetic interaction withvph2endoplasmic reticulum membrane protein involved in assembly of the V-ATPase (predicted) Positive GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPBC29A10.09c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC29A10.09c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC29A10.09c BioGRID Interaction Datasets
Expression Viewer SPBC29A10.09c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC29A10.09c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC29A10.09c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC29A10.09c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC29A10.09c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC29A10.09c Transcriptome Viewer (Bähler Lab)
GEO SPBC29A10.09c GEO profiles
PInt SPBC29A10.09c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC29A10.09c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC29A10.09c Fission yeast phenotypic data & analysis
Cyclebase SPBC29A10.09c.1 Cell Cycle Data
SPD / RIKEN51/51D05Orfeome Localization Data
UniProtKB/SwissProtO94386Uncharacterized protein C29A10.09c
ModBaseO94386Database of comparative protein structure models
STRINGO94386Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596054CAF1 family ribonuclease (predicted)
RefSeq mRNANM_001021965972h- CAF1 family ribonuclease (predicted) (SPBC29A10.09c), mRNA
European Nucleotide ArchiveCAA22437.1ENA Protein Mapping
UniParcUPI000006A184UniProt Archive

Literature for tri1

Search: Europe PMC or PubMed

Release Version: PomBase:30_60 - 12 May 2016