SPAC8F11.04


Gene Standard NameUnassigned Characterisation Statusbiological_role_inferred
Systematic IDSPAC8F11.04 Feature Typeprotein coding
Synonyms Name Description
ProductU3 snoRNP-associated protein Cic1/Utp30 family (predicted) Product Size373aa, 41.36 kDa
Genomic Location Chromosome I, 2859388-2861935 (2548nt); CDS:2859456-2860704 (1249nt)

Ensembl Gene Location
GO Biological Process

GO Slim Terms

ribosome biogenesis


Term NameCount
maturation of SSU-rRNA38
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
nucleolus343
Annotation ExtensionEvidenceWith/FromReference
nucleus2740
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopySPAC8F11.04ΔNullPECO:0000005, PECO:0000137PMID:236978061338
MicroscopySPAC8F11.04ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001042inviable after spore germination, single or double cell division97
penetrance FYPO_EXT:0000003MicroscopySPAC8F11.04ΔNullPECO:0000005, PECO:0000137PMID:23697806
FYPO:0000313inviable after spore germination, without cell division, with abnormal germ tube morphology146
penetrance FYPO_EXT:0000001MicroscopySPAC8F11.04ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
128593882859491
228596192860878
328609202861935

UTRs

Region Coordinates Reference
five_prime_UTR2859388..2859455PMID:21511999
three_prime_UTR2860705..2860878,2860920..2861935PMID: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
PF00687 Pfam IPR028364 Ribosomal protein L1/ribosomal biogenesis protein 19 248 5
PTHR23105 HMMPANTHER 14 284 9
PTHR23105:SF3 HMMPANTHER 14 284 1
3.40.50.790 Gene3D IPR016095 Ribosomal protein L1, 3-layer alpha/beta-sandwich 110 167 4
3.30.190.20 Gene3D IPR016094 Ribosomal protein L1, 2-layer alpha/beta-sandwich 168 251 5
SSF56808 SuperFamily IPR023674 Ribosomal protein L1-like 41 252 5

View domain organization at Pfam

Protein Properties

Ave. residue weight 110.88 Da
Charge 30.00
Isoelectric point 10.46
Molecular weight 41.36 kDa
Number of residues 373
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineexperimental evidenceS279PMID:247631071670
present during cellular response to thiabendazoleIDAS279PMID:18257517
MOD:00696phosphorylated residueNASPMID:182575171922
Sequence
Gene Expression

Qualitative Gene Expression

DescriptionLevelEvidenceReference
RNA leveldecreased during GO:0034599expression microarray evidencePMID:12529438
decreased in presence of cadmium sulfate expression microarray evidencePMID:12529438
decreased during GO:0034605expression microarray evidencePMID:12529438
decreased during GO:0071470expression microarray evidencePMID:12529438
decreased in presence of methyl methanesulfonate expression microarray evidencePMID:12529438

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
20104during GO:0000080PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
21510during GO:0000084PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
19546during GO:0000085PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
18741during GO:0000087PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
9696.87during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
21310during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
5186.73during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
5.1during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.64during 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
clp1Cdc14-related protein phosphatase Clp1/Flp1 Affinity Capture-MSPMID:23297348
cid14poly(A) polymerase Cid14 Affinity Capture-MSPMID:21436456
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
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
red5human ZC3H3 homolog Affinity Capture-MSPMID:24713849
red1RNA elimination defective protein Red1 Affinity Capture-MSPMID:24713849
mlo3RNA binding protein Mlo3 Affinity Capture-MSPMID:21436456
External References
Database Identifier Description
NBRP SPAC8F11.04 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC8F11.04 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC8F11.04 BioGRID Interaction Datasets
Expression Viewer SPAC8F11.04 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC8F11.04 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC8F11.04 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC8F11.04 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC8F11.04 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC8F11.04 Transcriptome Viewer (Bähler Lab)
Cyclebase SPAC8F11.04 Cell Cycle Data
GEO SPAC8F11.04 GEO profiles
PInt SPAC8F11.04 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC8F11.04 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC8F11.04 Fission yeast phenotypic data & analysis
SPD / RIKEN19/19H12Orfeome Localization Data
UniProtKB/SwissProtQ9UT32Putative ribosome biogenesis protein C8F11.04
ModBaseQ9UT32Database of comparative protein structure models
STRINGQ9UT32Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_593953U3 snoRNP-associated protein Cic1/Utp30 family (predicted)
European Nucleotide ArchiveCAB52165.1ENA Protein Mapping
UniParcUPI000006973DUniProt Archive

Literature for SPAC8F11.04

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014