rcl1 (SPAC12G12.06c)


Gene Standard Namercl1 Characterisation Statusbiological_role_inferred
Systematic IDSPAC12G12.06c Feature Typeprotein coding
Synonyms Name Description
ProductrRNA processing protein Rcl1 (predicted) Product Size363aa, 39.53 kDa
Genomic Location Chromosome I, 336308-338157 (1850nt); CDS:336428-337519 (1092nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
endoribonuclease activity36
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process

GO Slim Terms

ribosome biogenesis


Term NameCount
RNA phosphodiester bond hydrolysis, endonucleolytic26
Annotation ExtensionEvidenceWith/FromReference
rRNA processing196
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
endoplasmic reticulum596
Annotation ExtensionEvidenceWith/FromReference
nucleolus363
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term NameAlleleExpressionCount
inviable vegetative cell populationrcl1ΔNull1438

Cell Phenotype

Term NameAlleleExpressionCount
abnormal mitotic cell cyclercl1ΔNull834
inviable after spore germination with elongated germ tubercl1ΔNull164
inviable after spore germination, single or double cell divisionrcl1ΔNull103
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons336308..338157
mRNA336308..338157
5' UTR336308..336427PMID:21511999
CDS336428..337519
3' UTR337520..338157PMID: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
PF01137 Pfam IPR023797 RNA 3'-terminal phosphate cyclase domain 6 340 1
PF05189 Pfam IPR013791 RNA 3'-terminal phosphate cyclase, insert domain 184 285 1
PS01287 Prosite Patterns IPR020719 RNA 3'-terminal phosphate cyclase-like, conserved site 156 166 1
PTHR11096 HMMPANTHER IPR000228 RNA 3'-terminal phosphate cyclase 8 363 1
PTHR11096:SF1 HMMPANTHER 8 363 1
3kgdA01 Gene3D IPR023797 RNA 3'-terminal phosphate cyclase domain 280 346 1
3kgdA01 Gene3D IPR023797 RNA 3'-terminal phosphate cyclase domain 8 176 1
SSF55205 SuperFamily IPR013792 RNA 3'-terminal phosphate cyclase/enolpyruvate transferase, alpha/beta 11 234 2
PD397608 blastprodom 193 258 1
TIGR03400 tigrfam IPR016443 RNA 3'-terminal phosphate cyclase type 2 8 363 1

View domain organization at Pfam

Protein Properties

Ave. residue weight 108.89 Da
Charge -0.50
Isoelectric point 6.29
Molecular weight 39.53 kDa
Number of residues 363
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
18659during GO:0000080PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
16363during GO:0000084PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
11317during GO:0000085PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
15787during GO:0000087PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
14632during GO:0072690PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
11881.02during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
5221.23during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
3.2during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
0.66during 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 fungi4603
conserved in eukaryotes4514
conserved in bacteria1001
conserved in metazoa3424
conserved in vertebrates3399
conserved in archaea238
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
affinity captured byepe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
affinity captured bymtl1TRAMP complex ATP-dependent RNA helicase (predicted) Affinity Capture-MSPMID:24713849
affinity captured bypir2zf-C2H2 type zinc finger protein, implicated in RNAi (predicted) Affinity Capture-MSPMID:24713849
External References
Database Identifier Description
NBRP SPAC12G12.06c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC12G12.06c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC12G12.06c BioGRID Interaction Datasets
Expression Viewer SPAC12G12.06c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC12G12.06c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC12G12.06c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC12G12.06c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC12G12.06c Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC12G12.06c Transcriptome Viewer (Bähler Lab)
GEO SPAC12G12.06c GEO profiles
PInt SPAC12G12.06c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC12G12.06c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC12G12.06c Fission yeast phenotypic data & analysis
Cyclebase SPAC12G12.06c.1 Cell Cycle Data
SPD / RIKEN17/17A10Orfeome Localization Data
UniProtKB/SwissProtQ09870Probable RNA 3'-terminal phosphate cyclase-like protein
ModBaseQ09870Database of comparative protein structure models
STRINGQ09870Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_592892rRNA processing protein (predicted)
RefSeq mRNANM_001018292972h- rRNA processing protein (predicted) (SPAC12G12.06c), mRNA
European Nucleotide ArchiveCAA91501.1ENA Protein Mapping
UniParcUPI000013346EUniProt Archive

Literature for rcl1

Search: Europe PMC or PubMed

Release Version: PomBase:26_52 - 11 May 2015