saf4 (SPBC18H10.10c)


Gene Standard Namesaf4 Characterisation Statuspublished
Systematic IDSPBC18H10.10c Feature Typeprotein coding
Synonymscwc16, cwf16 Name Description
Productsplicing associated factor Saf4 Product Size299aa, 34.69 kDa
Genomic Location Chromosome II, 1789159-1786609 (2551nt); CDS:1789046-1788047 (1000nt)

Ensembl Gene Location
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0045292mRNA cis splicing, via spliceosomeICGO:0005681PMID:11884590112
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005684U2-type spliceosomal complexIDAPMID:2138689731
GO:0005634nucleusIDAPMID:168233722737
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002060viable vegetative cell populationMicroscopysaf4ΔNullPMID:204732893751
Microscopysaf4ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002177viable vegetative cell with normal cell morphology3088
penetrance FYPO_EXT:0000001Microscopysaf4ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
117891591788786
217887401788492
317884361786609
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
PF04502 Pfam IPR007590 CWC16 protein 8 211 2
PTHR12111:SF0 HMMPANTHER 6 238 2
PTHR12111 HMMPANTHER IPR007590 CWC16 protein 6 238 2

View domain organization at Pfam

Protein Properties

Ave. residue weight 116.03 Da
Charge 12.50
Isoelectric point 9.86
Molecular weight 34.69 kDa
Number of residues 299
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineS295PMID:247631071670
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
797.46during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
3633during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
NDduring cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
0.34during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.22during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:21511999432
Species Distribution
DescriptionQualifierReferenceCount
no apparent S. cerevisiae ortholog601
predominantly single copy (one to one)3092
conserved in fungi4599
conserved in eukaryotes4514
conserved in metazoa3428
conserved in vertebrates3402
conserved in eukaryotes only2498
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
ppk16serine/threonine protein kinase Ppk16 (predicted) Positive GeneticPMID:22681890
plb1phospholipase B homolog Plb1 Negative GeneticPMID:22681890
set1histone lysine methyltransferase Set1 Positive GeneticPMID:22681890
SPAC1610.02cmitochondrial ribosomal protein subunit L1 (predicted) Negative GeneticPMID:22681890
lys2homoaconitate hydratase Lys2 Negative GeneticPMID:22681890
arg11N-acetyl-gamma-glutamyl-phosphate reductase/acetylglutamate kinase Negative GeneticPMID:22681890
SPBC725.01aspartate aminotransferase (predicted) Negative GeneticPMID:22681890
sty1MAP kinase Sty1 Negative GeneticPMID:22681890
lys4homocitrate synthase Negative GeneticPMID:22681890
SPAC13A11.06pyruvate decarboxylase (predicted) Negative GeneticPMID:22681890
SPBC1271.14glutamate N-acetyltransferase (predicted) Negative GeneticPMID:22681890
SPCC1393.08transcription factor, zf-GATA type (predicted) Negative GeneticPMID:22681890
kin1microtubule affinity-regulating kinase Kin1 Negative GeneticPMID:22681890
tsf1mitochondrial translation elongation factor EF-Ts Tsf1 Negative GeneticPMID:22681890
arg12argininosuccinate synthase Arg12 Negative GeneticPMID:22681890
rpl2660S ribosomal protein L26 (predicted) Negative GeneticPMID:22681890
ccr4CCR4-Not complex subunit Ccr4 (predicted) Positive GeneticPMID:22681890
int6eIF3e subunit Int6 Negative GeneticPMID:22681890
lys3saccharopine dehydrogenase Lys3 Negative GeneticPMID:22681890
SPBC25H2.15SSU-rRNA maturation protein Tsr4 homolog 1 (predicted) Negative GeneticPMID:22681890
arg3ornithine carbamoyltransferase Arg3 Negative GeneticPMID:22681890
SPAP8A3.07cphospho-2-dehydro-3-deoxyheptonate aldolase (predicted) Negative GeneticPMID:22681890
nab3poly(A) binding protein Nab3 (predicted) Positive GeneticPMID:22681890
SPBC24C6.04delta-1-pyrroline-5-carboxylate dehydrogenase (predicted) Positive GeneticPMID:22681890
SPBC365.16conserved protein Negative GeneticPMID:22681890
SPAC17H9.13cglutamate 5-kinase (predicted) Negative GeneticPMID:22681890
arg6acetylglutamate synthase Arg6 (predicted) Negative GeneticPMID:22681890
saf5splicing factor Negative GeneticPMID:22681890
fsv1SNARE Fsv1 Negative GeneticPMID:22681890
vps5retromer complex subunit Vps5 Positive GeneticPMID:22681890
cpd1tRNA (m1A) methyltransferase complex catalytic subunit Cpd1 Negative GeneticPMID:22681890
psl1cyclin pho85 family Psl1 (predicted) Positive GeneticPMID:22681890
pil2meiotic eisosome BAR domain protein Pil2 Positive GeneticPMID:22681890
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
lea1U2 snRNP-associated protein Lea1 (predicted) Affinity Capture-MSPMID:24442611
cdc5splicing factor, Prp19 complex subunit Cdc5 Co-purificationPMID:24014766
cwf10U5 snRNP GTPase subunit Cwf10 Affinity Capture-MSPMID:24442611
Co-purificationPMID:24014766
External References
Database Identifier Description
NBRP SPBC18H10.10c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC18H10.10c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC18H10.10c BioGRID Interaction Datasets
Expression Viewer SPBC18H10.10c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC18H10.10c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC18H10.10c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC18H10.10c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC18H10.10c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC18H10.10c Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC18H10.10c Cell Cycle Data
GEO SPBC18H10.10c GEO profiles
PInt SPBC18H10.10c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC18H10.10c Peptides identified in tandem mass spectrometry proteomics experiments
SPD / RIKEN14/14C08Orfeome Localization Data
UniProtKB/SwissProtO60141Protein saf4
ModBaseO60141Database of comparative protein structure models
STRINGO60141Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_595734splicing associated factor Saf4 (predicted)
RefSeq mRNANM_001021632972h- splicing associated factor Saf4 (predicted) (saf4), mRNA
European Nucleotide ArchiveCAA18407.2ENA Protein Mapping
UniParcUPI000228F49BUniProt Archive

Literature for saf4

Search: Europe PMC or PubMed

Release Version: PomBase:23_46 - 30 Aug 2014