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
rRNA processing197
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
endoplasmic reticulum599
Annotation ExtensionEvidenceWith/FromReference
nucleolus365
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Inviable

Population Phenotype

Term NameGenotypesCount
inviable vegetative cell populationrcl1Δ1455

Cell Phenotype

Term NameGenotypesCount
abnormal mitotic cell cyclercl1Δ894
inviable after spore germination with elongated germ tubercl1Δ164
inviable after spore germination, single or double cell divisionrcl1Δ107
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 8 337 1
PF05189 Pfam IPR013791 RNA 3'-terminal phosphate cyclase, insert domain 184 283 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 8 176 1
3kgdA01 Gene3D IPR023797 RNA 3'-terminal phosphate cyclase domain 280 346 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
Codon Adaptation Index 0.40
Isoelectric point 6.29
Molecular weight 39.53 kDa
Number of residues 363
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for rcl1 (SPAC12G12.06c)

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
3.2during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.66during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3093
conserved in fungi4607
conserved in eukaryotes4517
conserved in bacteria1005
conserved in metazoa3427
conserved in vertebrates3402
conserved in archaea242
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPAC12G12.06c into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
binds activation domain construct withtea3cell end marker Tea3 Two-hybridPMID:26771498
binds activation domain construct withSPAC3F10.12ctranscription factor (predicted) Two-hybridPMID:26771498
binds activation domain construct withcaf4CCR4-Not complex subunit Caf4/Mdv1 (predicted) Two-hybridPMID:26771498
binds activation domain construct withSPBC16G5.16transcription factor, zf-fungal binuclear cluster type (predicted) Two-hybridPMID:26771498
binds activation domain construct withmgs1DNA replication ATPase Mgs1 (predicted) Two-hybridPMID:26771498
binds activation domain construct withgef1Cdc42 RhoGEF Gef1 Two-hybridPMID:26771498
binds activation domain construct withcbh1kinetochore protein, CENP-B homolog Cbh1 Two-hybridPMID:26771498
binds activation domain construct withatg11autophagy protein Atg11 Two-hybridPMID:26771498
binds activation domain construct withcbh2CENP-B homolog Cbh2 Two-hybridPMID:26771498
binds activation domain construct withSPCC569.01cmug2/mug135/meu2 family Two-hybridPMID:26771498
binds activation domain construct withrqh1RecQ type DNA helicase Rqh1 Two-hybridPMID:26771498
binds activation domain construct withSPAC1805.16cpurine nucleoside phosphorylase (predicted) Two-hybridPMID:26771498
binds activation domain construct withmeu23mug2/mug135/meu2 family Two-hybridPMID:26771498
binds activation domain construct withmoc3transcription factor Moc3 Two-hybridPMID:26771498
binds activation domain construct withatg6autophagy associated beclin family protein Atg6 Two-hybridPMID:26771498
binds activation domain construct withpil2meiotic eisosome BAR domain protein Pil2 Two-hybridPMID:26771498
binds activation domain construct withsec6exocyst complex subunit Sec6 Two-hybridPMID:26771498
binds activation domain construct withnap2nucleosome assembly protein Nap2 Two-hybridPMID:26771498
binds activation domain construct withtas3RITS complex subunit 3 Two-hybridPMID:26771498
binds DNA-binding domain construct withSPAC105.03ctranscription factor (predicted) Two-hybridPMID:26771498
affinity captured byepe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
affinity captured bypir2zf-C2H2 type zinc finger protein, implicated in RNAi (predicted) Affinity Capture-MSPMID:24713849
affinity captured bymtl1TRAMP/MTREC complex subunit, ATP-dependent RNA helicase (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:30_61 - 12 Sep 2016