rtt10 (SPBC1306.02)


Gene Standard Namertt10 Characterisation Statusbiological_role_inferred
Systematic IDSPBC1306.02 Feature Typeprotein coding
SynonymsSPBC4.08 Name Description
ProductWD repeat protein, human WDR6 family, involved in endocytic recycling Product Size984aa, 110.98 kDa
Genomic Location Chromosome II, 1180588-1184250 (3663nt); CDS:1181044-1184104 (3061nt)

Ensembl Gene Location
GO Biological Process
Term NameCount
endocytic recycling2
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2315
Annotation ExtensionEvidenceWith/FromReference
endosome77
Annotation ExtensionEvidenceWith/FromReference
nucleus2740
Annotation ExtensionEvidenceWith/FromReference
protein complex1363
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002060viable vegetative cell populationMicroscopyrtt10ΔNullPECO:0000005, PECO:0000137PMID:236978063759
Microscopyrtt10ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000059abnormal mitotic cell cycleMicroscopyrtt10ΔNullPECO:0000005, PECO:0000137PMID:23697806686
FYPO:0001492viable elongated vegetative cell221
penetrance FYPO_EXT:0000001Microscopyrtt10ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
111805881182089
211821431182791
311828451184250

UTRs

Region Coordinates Reference
five_prime_UTR1180588..1181043PMID:21511999
three_prime_UTR1184105..1184250PMID: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
PF00400 Pfam IPR001680 WD40 repeat 283 309 104
PF00400 Pfam IPR001680 WD40 repeat 651 676 104
PF00400 Pfam IPR001680 WD40 repeat 231 263 104
PF00400 Pfam IPR001680 WD40 repeat 190 222 104
SM00320 SMART IPR001680 WD40 repeat 686 724 112
SM00320 SMART IPR001680 WD40 repeat 269 309 112
SM00320 SMART IPR001680 WD40 repeat 795 836 112
SM00320 SMART IPR001680 WD40 repeat 226 264 112
SM00320 SMART IPR001680 WD40 repeat 182 222 112
SM00320 SMART IPR001680 WD40 repeat 641 680 112
SM00320 SMART IPR001680 WD40 repeat 6 43 112
SM00320 SMART IPR001680 WD40 repeat 895 939 112
PS50082 Prosite Profiles IPR001680 WD40 repeat 648 689 100
PS50082 Prosite Profiles IPR001680 WD40 repeat 190 231 100
PS50294 Prosite Profiles IPR017986 WD40-repeat-containing domain 648 733 104
PS50082 Prosite Profiles IPR001680 WD40 repeat 284 312 100
PS50294 Prosite Profiles IPR017986 WD40-repeat-containing domain 190 318 104
PTHR14344 HMMPANTHER 1 984 1
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 467 552 145
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 17 165 145
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 651 882 145
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 166 416 145
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 457 552 135
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 111 407 135
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 622 715 135
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 779 967 135
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 641 762 135

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0000190WD repeat proteinTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000190

Protein Properties

Ave. residue weight 112.78 Da
Charge 10.50
Isoelectric point 7.36
Molecular weight 110.98 kDa
Number of residues 984
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
508.6during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
475.54during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
0.85during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.29during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Genome Organisation
DescriptionQualifierReferenceCount
antisense transcript detected47
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


External References
Database Identifier Description
NBRP SPBC1306.02 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC1306.02 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC1306.02 BioGRID Interaction Datasets
Expression Viewer SPBC1306.02 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC1306.02 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC1306.02 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC1306.02 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC1306.02 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC1306.02 Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC1306.02 Cell Cycle Data
GEO SPBC1306.02 GEO profiles
PInt SPBC1306.02 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC1306.02 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC1306.02 Fission yeast phenotypic data & analysis
SPD / RIKEN47/47G11Orfeome Localization Data
UniProtKB/SwissProtQ9USZ0Uncharacterized WD repeat-containing protein C1306.02
ModBaseQ9USZ0Database of comparative protein structure models
STRINGQ9USZ0Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_595473WD repeat-containing protein
RefSeq mRNANM_001021384972h- WD repeat-containing protein (SPBC1306.02), mRNA
European Nucleotide ArchiveCAB62092.1ENA Protein Mapping
UniParcUPI000006A690UniProt Archive

Literature for rtt10

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014