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 IDTerm NameEvidenceWith/FromReferenceCount
GO:0032456endocytic recyclingISOSGD:S000006104GO_REF:00000242
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005829cytosolIDAPMID:168233722317
GO:0005768endosomeISOSGD:S000006104GO_REF:000002477
GO:0005634nucleusIDAPMID:168233722730
GO:0043234protein complexNASGO_REF:00000511468
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002060viable vegetative cell populationMicroscopyrtt10ΔNullPECO:0000005, PECO:0000137PMID:236978063755
Microscopyrtt10ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000059abnormal mitotic cell cycleMicroscopyrtt10ΔNullPECO:0000005, PECO:0000137PMID:23697806564
FYPO:0001492viable elongated vegetative cellMicroscopyrtt10ΔNullPECO:0000005, PECO:0000137PMID:23697806170
penetrance FYPO_EXT:0000001
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
111805881182089
211821431182791
311828451184250

UTRs

Region Start End Reference
three_prime_UTR11841051184250PMID:21511999
five_prime_UTR11805881181043PMID: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 231 263 104
PF00400 Pfam IPR001680 WD40 repeat 651 676 104
PF00400 Pfam IPR001680 WD40 repeat 283 309 104
PF00400 Pfam IPR001680 WD40 repeat 190 222 104
SM00320 SMART IPR001680 WD40 repeat 795 836 121
SM00320 SMART IPR001680 WD40 repeat 269 309 121
SM00320 SMART IPR001680 WD40 repeat 895 939 121
SM00320 SMART IPR001680 WD40 repeat 182 222 121
SM00320 SMART IPR001680 WD40 repeat 226 264 121
SM00320 SMART IPR001680 WD40 repeat 686 724 121
SM00320 SMART IPR001680 WD40 repeat 6 43 121
SM00320 SMART IPR001680 WD40 repeat 641 680 121
PS50294 Prosite Profiles IPR017986 WD40-repeat-containing domain 190 318 104
PS50294 Prosite Profiles IPR017986 WD40-repeat-containing domain 648 733 104
PS50082 Prosite Profiles IPR001680 WD40 repeat 648 689 100
PS50082 Prosite Profiles IPR001680 WD40 repeat 284 312 100
PS50082 Prosite Profiles IPR001680 WD40 repeat 190 231 100
PTHR14344 HMMPANTHER 1 984 1
G3DSA:2.130.10.10 Gene3D IPR015943 651 882 143
G3DSA:2.130.10.10 Gene3D IPR015943 166 416 143
G3DSA:2.130.10.10 Gene3D IPR015943 17 165 143
G3DSA:2.130.10.10 Gene3D IPR015943 467 552 143
SSF50978 SuperFamily IPR017986 622 715 135
SSF50978 SuperFamily IPR017986 641 762 135
SSF50978 SuperFamily IPR017986 457 552 135
SSF50978 SuperFamily IPR017986 779 967 135
SSF50978 SuperFamily IPR017986 111 407 135

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)DuringConditionScaleEvidenceReference
475.54during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
508.6during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
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)3080
conserved in fungi4564
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3394
conserved in eukaryotes only2485
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)
SPD / RIKEN47/47G11Orfeome Localization Data
EntrezGene2539918WD repeat-containing protein
WikiGene2539918WD repeat-containing protein
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 ArchiveCAB62092ENA Protein Mapping
UniParcUPI000006A690UniProt Archive

Literature for rtt10

Search: Europe PMC or PubMed

Release Version: PomBase:21_41 - 24 Feb 2014