cwf4 (SPBC31F10.11c)


Gene Standard Namecwf4 Characterisation Statuspublished
Systematic IDSPBC31F10.11c Feature Typeprotein coding
Synonymssyf3 Name DescriptionComplexed With cdc Five
Productcomplexed with Cdc5 protein Cwf4 Product Size674aa, 80.84 kDa
Genomic Location Chromosome II, 3773191-3770856 (2336nt); CDS:3773057-3771033 (2025nt)

Ensembl Gene Location
GO Biological Process
Term NameCount
mRNA cis splicing, via spliceosome116
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
nucleus2740
Annotation ExtensionEvidenceWith/FromReference
Prp19 complex16
Annotation ExtensionEvidenceWith/FromReference
spliceosomal complex107
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationCell growth assaycwf4ΔNullPMID:104097261338
Microscopycwf4ΔNullPMID:20473289
Microscopycwf4ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000059abnormal mitotic cell cycleMicroscopycwf4ΔNullPECO:0000005, PECO:0000137PMID:23697806686
FYPO:0000314inviable after spore germination with elongated germ tube163
penetrance FYPO_EXT:0000001Microscopycwf4ΔNullPECO:0000005, PECO:0000137PMID:23697806
Target Of
OntologyRelationshipGeneProductReference
FYPO affected by mutation in iss10 Mmi1-driven selective elimination factor Iss10 PMID:24713849
FYPO affected by mutation in mtl1 TRAMP complex ATP-dependent RNA helicase (predicted) PMID:24713849
FYPO affected by mutation in rmn1 RNA-binding protein PMID:24713849
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
137731913770856

UTRs

Region Coordinates Reference
five_prime_UTR3773191..3773058PMID:21511999
three_prime_UTR3771032..3770856PMID: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
PF02184 Pfam IPR003107 RNA-processing protein, HAT helix 519 547 1
PF02184 Pfam IPR003107 RNA-processing protein, HAT helix 185 216 1
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 518 549 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 152 183 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 118 150 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 333 367 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 482 516 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 415 446 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 50 82 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 218 253 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 255 289 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 448 480 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 185 216 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 377 413 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 84 116 8
SM00386 SMART IPR003107 RNA-processing protein, HAT helix 299 331 8
PS50293 Prosite Profiles IPR013026 Tetratricopeptide repeat-containing domain 241 274 27
PS50293 Prosite Profiles IPR013026 Tetratricopeptide repeat-containing domain 378 434 27
PS50293 Prosite Profiles IPR013026 Tetratricopeptide repeat-containing domain 70 171 27
PTHR11246 HMMPANTHER 1 667 3
PTHR11246:SF3 HMMPANTHER 1 667 1
1.25.40.10 Gene3D IPR011990 Tetratricopeptide-like helical 252 275 62
1.25.40.10 Gene3D IPR011990 Tetratricopeptide-like helical 308 388 62
1.25.40.10 Gene3D IPR011990 Tetratricopeptide-like helical 73 202 62
1.25.40.10 Gene3D IPR011990 Tetratricopeptide-like helical 389 495 62
SSF48452 SuperFamily 505 616 50
SSF48452 SuperFamily 60 501 50

View domain organization at Pfam

Protein Properties

Ave. residue weight 119.94 Da
Charge 4.00
Isoelectric point 7.12
Molecular weight 80.84 kDa
Number of residues 674
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
3136during GO:0000080PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
3661during GO:0000084PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
2657during GO:0000085PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
3485during GO:0000087PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
3584.76during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
3145during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
1473.34during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.4during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.98during 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
dre4splicing associated factor Dre4 Affinity Capture-MSPMID:21386897
nab2poly(A) binding protein Nab2 (predicted) Affinity Capture-MSPMID:24081329
mtl1TRAMP complex ATP-dependent RNA helicase (predicted) Affinity Capture-MSPMID:24713849
prp19ubiquitin-protein ligase E4 Affinity Capture-MSPMID:21386897
rmn1RNA-binding protein Affinity Capture-MSPMID:24713849
pir2zf-C2H2 type zinc finger protein, implicated in RNAi (predicted) Affinity Capture-MSPMID:24713849
saf3splicing associated factor Saf3 Affinity Capture-MSPMID:21386897
cdc5splicing factor, Prp19 complex subunit Cdc5 Co-purificationPMID:24014766
Affinity Capture-MSPMID:15755920
Affinity Capture-MSPMID:10409726
Affinity Capture-Western
cwf2RNA-binding protein Cwf2 Affinity Capture-MSPMID:21386897
prp17splicing factor Prp17 Affinity Capture-MSPMID:21386897
cwf10U5 snRNP GTPase subunit Cwf10 Affinity Capture-WesternPMID:24442611
Affinity Capture-MS
Co-purificationPMID:24014766
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
cdc11SIN component scaffold protein, centriolin ortholog Cdc11 Two-hybridPMID:23695164
cwf14G10 protein Affinity Capture-MSPMID:24874881
lea1U2 snRNP-associated protein Lea1 (predicted) Affinity Capture-MSPMID:24442611
Affinity Capture-Western
epe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
hhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
red1RNA elimination defective protein Red1 Affinity Capture-MSPMID:24713849
red5human ZC3H3 homolog Affinity Capture-MSPMID:24713849
saf2splicing associated factor Saf2 Affinity Capture-MSPMID:21386897
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
mto1MT organizer Mto1 Negative GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPBC31F10.11c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC31F10.11c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC31F10.11c BioGRID Interaction Datasets
Expression Viewer SPBC31F10.11c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC31F10.11c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC31F10.11c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC31F10.11c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC31F10.11c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC31F10.11c Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC31F10.11c Cell Cycle Data
GEO SPBC31F10.11c GEO profiles
PInt SPBC31F10.11c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC31F10.11c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC31F10.11c Fission yeast phenotypic data & analysis
SPD / RIKEN46/46C09Orfeome Localization Data
UniProtKB/SwissProtP87312Pre-mRNA-splicing factor cwf4
ModBaseP87312Database of comparative protein structure models
STRINGP87312Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596573complexed with Cdc5 protein Cwf4
RefSeq mRNANM_001022494972h- complexed with Cdc5 protein Cwf4 (cwf4), mRNA
European Nucleotide ArchiveAAF67752.1ENA Protein Mapping
European Nucleotide ArchiveCAB10088.1ENA Protein Mapping
UniParcUPI0000128734UniProt Archive

Literature for cwf4

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014