cdc5 (SPAC644.12)

Gene Standard Namecdc5 Characterisation Statuspublished
Systematic IDSPAC644.12 Feature Typeprotein coding
Synonyms Name DescriptionCell Division Cycle
Productsplicing factor, Prp19 complex subunit Cdc5 Product Size757aa, 86.84 kDa
Genomic Location Chromosome I, 2694717-2697430 (2714nt); CDS:2694758-2697334 (2577nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
DNA binding351
Annotation ExtensionEvidenceWith/FromReference
protein binding900
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
mRNA cis splicing, via spliceosome119
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Inviable

Population Phenotype

Term NameGenotypesCount
inviable vegetative cell populationcdc5-1201468

Cell Phenotype

Term NameGenotypesCount
abnormal mitotic cell cyclecdc5Δ903
abnormal mitotic cell cycle arrest with replicated DNAcdc5Δ57
abnormal mitotic sister chromatid segregationcdc5Δ287
abolished premeiotic DNA replicationcdc5-12015
cell cycle arrest in mitotic G2 phasecdc5-12040
decreased mRNA splicing, via spliceosome95
affecting taf111cdc5+
decreased snRNA splicing15
affecting snu6cdc5+
inviable after spore germinationcdc5Δ815
inviable after spore germination with elongated germ tubecdc5Δ164
inviable elongated mononucleate aseptate cellcdc5-12044
inviable swollen elongated vegetative cellcdc5-12028
mitotic cell cycle arrest before cell separationcdc5Δ13
normal sporulationcdc5-12054

FYPO Multi-allele Phenotypes

Population Phenotype

Term NameGenotypes
decreased vegetative cell population growthprp5-1, cdc5-120
inviable vegetative cell populationprp5-1, cdc5-120
Target Of
FYPO affected by mutation in iss10 Mmi1-driven selective elimination factor Iss10
FYPO affected by mutation in mtl1 TRAMP/MTREC complex subunit, ATP-dependent RNA helicase (predicted)
FYPO affected by mutation in rmn1 RNA-binding protein
FYPO affected by mutation in smn1 SMN family protein Smn1
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons2694717..2694776, 2694817..2694836, 2694903..2694917, 2694982..2695101, 2695171..2695619, 2695684..2697430
Intron2694777..2694816, 2694837..2694902, 2694918..2694981, 2695102..2695170, 2695620..2695683
5' UTR2694717..2694757SPCDC
CDS2694758..2694776, 2694817..2694836, 2694903..2694917, 2694982..2695101, 2695171..2695619, 2695684..2697334
3' UTR2697335..2697430SPCDC
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
PF11831 Pfam IPR021786 Pre-mRNA splicing factor component Cdc5p/Cef1 416 612 1
PF13921 Pfam 9 69 3
SM00717 SMART IPR001005 SANT/Myb domain 5 54 15
SM00717 SMART IPR001005 SANT/Myb domain 57 104 15
PS51294 Prosite Profiles IPR017930 Myb domain 57 106 5
PS51294 Prosite Profiles IPR017930 Myb domain 1 56 5
PTHR10641 HMMPANTHER 735 749 3
PTHR10641 HMMPANTHER 1 104 3
PTHR10641 HMMPANTHER 135 196 3
PTHR10641:SF559 HMMPANTHER 735 749 1
PTHR10641:SF559 HMMPANTHER 1 104 1
PTHR10641:SF559 HMMPANTHER 135 196 1 Gene3D IPR009057 Homeodomain-like 56 103 24 Gene3D IPR009057 Homeodomain-like 4 55 24
SSF46689 SuperFamily IPR009057 Homeodomain-like 5 49 25
SSF46689 SuperFamily IPR009057 Homeodomain-like 36 108 25
Coil ncoils Predicted coiled-coil protein (DUF2205) 91 115 1049
Coil ncoils Predicted coiled-coil protein (DUF2205) 658 678 1049
Coil ncoils Predicted coiled-coil protein (DUF2205) 289 309 1049

View domain organization at Pfam

Term IDTerm NameReferenceCount
PBO:0001260Myb familyTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0001260

Protein Properties

Ave. residue weight 114.72 Da
Charge 5.00
Codon Adaptation Index 0.37
Isoelectric point 8.14
Molecular weight 86.84 kDa
Number of residues 757

Protein Modifications

Term NameResidueCount
O-phospho-L-serineS549 2293
Annotation ExtensionEvidenceResidueReference
IDA S549 PMID:25720772
phosphorylated residue 2515
Annotation ExtensionEvidenceResidueReference
IDA PMID:19547744
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for cdc5 (SPAC644.12)

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1369during GO:0000080PECO:0000005,
single cellmass spectrometry evidencePMID:24763107
1086during GO:0000084PECO:0000005,
single cellmass spectrometry evidencePMID:24763107
1128during GO:0000085PECO:0000005,
single cellmass spectrometry evidencePMID:24763107
1400during GO:0000087PECO:0000005,
single cellmass spectrometry evidencePMID:24763107
1275during GO:0072690PECO:0000005,
single cellmass spectrometry evidencePMID:24763107
2623.94during GO:0072690PECO:0000126,
population wideexperimental evidencePMID:23101633
4297.63during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.8during GO:0072690PECO:0000126,
population wideexperimental evidencePMID:23101633
0.95during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
predominantly single copy (one to one)3087
conserved in fungi4608
conserved in eukaryotes4516
conserved in metazoa3498
conserved in vertebrates3473
conserved in eukaryotes only2525

Manually curated orthologous groups


Orthologs in Compara

Physical Interactions

Source: BioGRID

Load genes that interact physically with SPAC644.12 into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity capturessnu2small nuclear RNA U2 Affinity Capture-RNAPMID:10409726
affinity capturessnu5small nuclear RNA U5 Affinity Capture-RNAPMID:10409726
affinity capturessnu6small nuclear RNA U6 Affinity Capture-RNAPMID:10409726
affinity capturescwf21complexed with Cdc5 protein Cwf21 Affinity Capture-MSPMID:15755920
affinity capturessap145U2 snRNP-associated protein Sap145 Affinity Capture-MSPMID:15755920
affinity capturesprp10U2 snRNP-associated protein Sap155 Affinity Capture-MSPMID:15755920
affinity capturescwf19complexed with Cdc5 protein Cwf19 Affinity Capture-MSPMID:11884590
affinity capturessap61U2 snRNP-associated protein sap61 Affinity Capture-MSPMID:15755920
affinity capturescwf5RNA-binding protein Cwf5 Affinity Capture-MSPMID:15755920
affinity capturessmf1Sm snRNP core protein Smf1 Affinity Capture-MSPMID:15755920
affinity capturesprp19ubiquitin-protein ligase E4 involved in splicing Prp19 Affinity Capture-MSPMID:10409726
affinity capturessmd3Sm snRNP core protein Smd3 Affinity Capture-MSPMID:15755920
affinity capturescwf7splicing factor Cwf7 Affinity Capture-MSPMID:15755920
affinity capturessap114U2 snRNP subunit Sap114 Affinity Capture-MSPMID:15755920
affinity capturescwf29RNA-binding protein Cwf29 Affinity Capture-MSPMID:15755920
affinity capturescwf16splicing factor Cwf16 Affinity Capture-MSPMID:15755920
affinity capturessmd2Sm snRNP core protein Smd2 Affinity Capture-MSPMID:15755920
affinity capturescwf18complexed with Cdc5 protein Cwf18 Affinity Capture-MSPMID:15755920
affinity capturesspf38U5 snRNP complex subunit Spf38 Affinity Capture-MSPMID:15755920
affinity capturescwf20complexed with Cdc5 protein Cwf20 Affinity Capture-MSPMID:15755920
affinity capturesmei4meiotic forkhead transcription factor Mei4 Affinity Capture-WesternPMID:18815595
affinity capturesprp17splicing factor Prp17 Affinity Capture-MSPMID:15755920
affinity capturesprp45splicing factor Prp45 Affinity Capture-WesternPMID:11884590
affinity capturescyp7cyclophilin family peptidyl-prolyl cis-trans isomerase Cyp7 (predicted) Affinity Capture-MSPMID:15755920
affinity capturesprp5WD repeat protein Prp5 Affinity Capture-MSPMID:10409726
affinity capturescwf11complexed with Cdc5 protein Cwf11 Affinity Capture-MSPMID:15755920
affinity capturesprp12U2 snRNP-associated protein Sap130 Affinity Capture-MSPMID:15755920
affinity capturescwf12complexed with Cdc5 protein Cwf12 Affinity Capture-WesternPMID:11884590
affinity capturescwf4complexed with Cdc5 protein Cwf4 Affinity Capture-MSPMID:10409726
affinity capturescwf28splicing factor Cwf28 Affinity Capture-MSPMID:15755920
affinity capturescwf10U5 snRNP GTPase subunit Cwf10 Affinity Capture-MSPMID:15755920
affinity capturescwf3complexed with Cdc5 protein Cwf3 Affinity Capture-MSPMID:15755920
affinity capturescwf14G10 protein Affinity Capture-MSPMID:15755920
affinity capturesslu7splicing factor Slu7 Affinity Capture-MSPMID:15755920
affinity capturesmsl1U2 snRNP-associated protein Msl1 (predicted) Affinity Capture-MSPMID:15755920
affinity capturessmb1Sm snRNP core protein Smb1 Affinity Capture-MSPMID:15755920
affinity capturessmd1Sm snRNP core protein Smd1 Affinity Capture-MSPMID:15755920
affinity capturessap62U2 snRNP Sap62 Affinity Capture-MSPMID:15755920
affinity capturescwf15complexed with Cdc5 protein Cwf15 Affinity Capture-MSPMID:15755920
affinity capturescwf2RNA-binding protein Cwf2 Affinity Capture-MSPMID:15755920
affinity capturescwf24ubiquitin-protein ligase E3/GCN5-related N acetyltransferase fusion protein Affinity Capture-MSPMID:15755920
affinity capturesspp42U5 snRNP complex subunit Spp42 Affinity Capture-MSPMID:15755920
affinity capturesprp22ATP-dependent RNA helicase Prp22 Affinity Capture-MSPMID:15755920
affinity capturessyf2splicing factor Syf2 Affinity Capture-MSPMID:15755920
affinity capturescdc5splicing factor, Prp19 complex subunit Cdc5 Affinity Capture-MSPMID:15755920
affinity capturesbrr2U5 snRNP complex subunit Brr2 Affinity Capture-MSPMID:15755920
affinity capturessmg1Sm snRNP core protein Smg1 Affinity Capture-MSPMID:15755920
affinity captured bysaf3splicing associated factor Saf3 Affinity Capture-MSPMID:21386897
affinity captured bycwf10U5 snRNP GTPase subunit Cwf10 Affinity Capture-WesternPMID:24442611
affinity captured bynab2poly(A) binding protein Nab2 (predicted) Affinity Capture-MSPMID:24081329
affinity captured bysaf5splicing factor Saf5 Affinity Capture-MSPMID:25274039
affinity captured bysaf2splicing associated factor Saf2 Affinity Capture-MSPMID:21386897
affinity captured bysaf1splicing associated factor Saf1 Affinity Capture-MSPMID:21386897
affinity captured bydre4splicing associated factor Dre4 Affinity Capture-MSPMID:21386897
affinity captured bypir2zf-C2H2 type zinc finger protein, implicated in RNAi (predicted) Affinity Capture-MSPMID:24713849
affinity captured bylsm8U6 snRNP-associated protein Lsm8 (predicted) Affinity Capture-WesternPMID:11884590
affinity captured bycwf14G10 protein Affinity Capture-MSPMID:24874881
affinity captured byprp19ubiquitin-protein ligase E4 involved in splicing Prp19 Affinity Capture-MSPMID:21386897
affinity captured bycwf3complexed with Cdc5 protein Cwf3 Affinity Capture-WesternPMID:10409726
affinity captured bylea1U2 snRNP-associated protein Lea1 (predicted) Affinity Capture-MSPMID:24442611
affinity captured bymtl1TRAMP/MTREC complex subunit, ATP-dependent RNA helicase (predicted) Affinity Capture-MSPMID:24713849
affinity captured bycwf2RNA-binding protein Cwf2 Affinity Capture-MSPMID:21386897
affinity captured bycwf4complexed with Cdc5 protein Cwf4 Affinity Capture-WesternPMID:10409726
affinity captured byred1RNA elimination defective protein Red1 Affinity Capture-MSPMID:24713849
affinity captured bysde2silencing defective protein Sde2 Affinity Capture-MSPMID:25274039
affinity captured byprp17splicing factor Prp17 Affinity Capture-MSPMID:21386897
affinity captured byprp5WD repeat protein Prp5 Affinity Capture-WesternPMID:10409726
co-purifies withprp22ATP-dependent RNA helicase Prp22 Co-purificationPMID:24014766
co-purifies withcwf12complexed with Cdc5 protein Cwf12 Co-purificationPMID:24014766
co-purifies withcwf11complexed with Cdc5 protein Cwf11 Co-purificationPMID:24014766
co-purifies withsmd2Sm snRNP core protein Smd2 Co-purificationPMID:24014766
co-purifies withini1RING finger-like protein Ini1 Co-purificationPMID:24014766
co-purifies withspp42U5 snRNP complex subunit Spp42 Co-purificationPMID:24014766
co-purifies withcdc28ATP-dependent RNA helicase Cdc28 Co-purificationPMID:24014766
co-purifies withcwf19complexed with Cdc5 protein Cwf19 Co-purificationPMID:24014766
co-purifies withcwf3complexed with Cdc5 protein Cwf3 Co-purificationPMID:24014766
co-purifies withcwf15complexed with Cdc5 protein Cwf15 Co-purificationPMID:24014766
co-purifies withcwf21complexed with Cdc5 protein Cwf21 Co-purificationPMID:24014766
co-purifies withcwf10U5 snRNP GTPase subunit Cwf10 Co-purificationPMID:24014766
co-purifies withusp105U1 snRNP-associated protein Usp105 Co-purificationPMID:24014766
co-purifies withcwf16splicing factor Cwf16 Co-purificationPMID:24014766
co-purifies withmug161CwfJ family protein, splicing factor (predicted) Co-purificationPMID:24014766
co-purifies withbpb1KH and CC/hC domain splicing factor Bpb1 Co-purificationPMID:24014766
co-purifies withcwf2RNA-binding protein Cwf2 Co-purificationPMID:24014766
co-purifies withbrr2U5 snRNP complex subunit Brr2 Co-purificationPMID:24014766
co-purifies withsmb1Sm snRNP core protein Smb1 Co-purificationPMID:24014766
co-purifies withsaf4splicing associated factor Saf4 Co-purificationPMID:24014766
co-purifies withsum3translation initiation RNA helicase Sum3 Co-purificationPMID:24014766
co-purifies withcdc5splicing factor, Prp19 complex subunit Cdc5 Co-purificationPMID:24014766
co-purifies withprp10U2 snRNP-associated protein Sap155 Co-purificationPMID:24014766
co-purifies withsap61U2 snRNP-associated protein sap61 Co-purificationPMID:24014766
co-purifies withmsl1U2 snRNP-associated protein Msl1 (predicted) Co-purificationPMID:24014766
co-purifies withcwf18complexed with Cdc5 protein Cwf18 Co-purificationPMID:24014766
co-purifies withusp104U1 snRNP-associated protein Usp104 Co-purificationPMID:24014766
co-purifies withprp19ubiquitin-protein ligase E4 involved in splicing Prp19 Co-purificationPMID:24014766
co-purifies withsmd1Sm snRNP core protein Smd1 Co-purificationPMID:24014766
co-purifies withprp45splicing factor Prp45 Co-purificationPMID:24014766
co-purifies withsmg1Sm snRNP core protein Smg1 Co-purificationPMID:24014766
co-purifies withsme1Sm snRNP core protein Sme1 Co-purificationPMID:24014766
co-purifies withSPAC29A4.06csplicing protein, human NSRP1 ortholog Co-purificationPMID:24014766
co-purifies withsmd3Sm snRNP core protein Smd3 Co-purificationPMID:24014766
co-purifies withcwf14G10 protein Co-purificationPMID:24014766
co-purifies withprp2U2AF large subunit (U2AF-59) Co-purificationPMID:24014766
co-purifies withcwf4complexed with Cdc5 protein Cwf4 Co-purificationPMID:24014766
co-purifies withrsd1RNA-binding protein Rsd1 (predicted) Co-purificationPMID:24014766
co-purifies withsap145U2 snRNP-associated protein Sap145 Co-purificationPMID:24014766
co-purifies withcyp1cyclophilin family peptidyl-prolyl cis-trans isomerase Cyp1 Co-purificationPMID:24014766
co-purifies withprp5WD repeat protein Prp5 Co-purificationPMID:24014766
co-purifies withlea1U2 snRNP-associated protein Lea1 (predicted) Co-purificationPMID:24014766
co-purifies withcwf5RNA-binding protein Cwf5 Co-purificationPMID:24014766
co-purifies withcwf26complexed with Cdc5 protein Cwf26 Co-purificationPMID:24014766
co-purifies withprp12U2 snRNP-associated protein Sap130 Co-purificationPMID:24014766
co-purifies withcwf7splicing factor Cwf7 Co-purificationPMID:24014766
co-purifies withsrp2splicing factor Srp2 Co-purificationPMID:24014766
co-purifies withspf38U5 snRNP complex subunit Spf38 Co-purificationPMID:24014766
co-purifies withdsk1SR protein-specific kinase Dsk1 Co-purificationPMID:24014766
co-purifies withsyf2splicing factor Syf2 Co-purificationPMID:24014766
co-purifies withprp16ATP-dependent RNA helicase Prp16 Co-purificationPMID:24014766
co-purifies withprp17splicing factor Prp17 Co-purificationPMID:24014766
co-purifies withsmf1Sm snRNP core protein Smf1 Co-purificationPMID:24014766
co-purifies withcwf22splicing factor Cwf22 Co-purificationPMID:24014766
co-purifies withcwf25complexed with Cdc5 protein Cwf25 Co-purificationPMID:24014766
co-purifies withprp43ATP-dependent RNA helicase Prp43 Co-purificationPMID:24014766
co-purifies withsap114U2 snRNP subunit Sap114 Co-purificationPMID:24014766
modified bydsk1SR protein-specific kinase Dsk1 Biochemical ActivityPMID:26167880
binds to RNAsnu6small nuclear RNA U6 Protein-RNAPMID:25263959
Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPAC644.12 into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
synthetic lethal withdre4splicing associated factor Dre4 Synthetic LethalityPMID:21386897
synthetic lethal withcwf10U5 snRNP GTPase subunit Cwf10 Synthetic LethalityPMID:24014766
synthetic growth defect withprp3U4/U6 x U5 tri-snRNP complex subunit Prp3 Synthetic Growth DefectPMID:25263959
synthetic growth defect withhub1ubiquitin-like protein modifier Hub1 Synthetic Growth DefectPMID:15620657
synthetic growth defect withprp5WD repeat protein Prp5 Synthetic Growth DefectPMID:10409726
synthetic growth defect withcwf11complexed with Cdc5 protein Cwf11 Synthetic Growth DefectPMID:11884590
negative genetic interaction withtrx2mitochondrial thioredoxin Trx2 Negative GeneticPMID:22681890
negative genetic interaction withmet10sulfite reductase NADPH flavoprotein subunit (predicted) Negative GeneticPMID:22681890
negative genetic interaction withpam17TIM23 translocase complex-associated motor subunit Pam17 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withSPAC17H9.08mitochondrial coenzyme A transmembrane transporter (predicted) Negative GeneticPMID:22681890
negative genetic interaction withulp2SUMO deconjugating cysteine peptidase Ulp2 (predicted) Negative GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPAC644.12 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC644.12 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC644.12 BioGRID Interaction Datasets
Expression Viewer SPAC644.12 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC644.12 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC644.12 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC644.12 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC644.12 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC644.12 Transcriptome Viewer (Bähler Lab)
GEO SPAC644.12 GEO profiles
PInt SPAC644.12 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC644.12 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC644.12 Fission yeast phenotypic data & analysis
Cyclebase SPAC644.12.1 Cell Cycle Data
SPD / RIKEN38/38E01Orfeome Localization Data
UniProtKB/SwissProtP39964Pre-mRNA-splicing factor cdc5
ModBaseP39964Database of comparative protein structure models
STRINGP39964Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_593880cell division control protein, splicing factor Cdc5
RefSeq mRNANM_001019310972h- cell division control protein, splicing factor Cdc5 (cdc5), mRNA
European Nucleotide ArchiveL19525ENA EMBL mapping
ePDB3JB9The European PDB
European Nucleotide ArchiveCAB90139.1ENA Protein Mapping
UniParcUPI0000127257UniProt Archive

Literature for cdc5

Search: Europe PMC or PubMed

Release Version: PomBase:30_62 - 30 Jan 2017