SPAC1B3.13


Gene Standard NameUnassigned Characterisation Statusbiological_role_inferred
Systematic IDSPAC1B3.13 Feature Typeprotein coding
Synonyms Name Description
ProductU3 snoRNP-associated protein Nan1 (predicted) Product Size806aa, 88.94 kDa
Genomic Location Chromosome I, 4951337-4954199 (2863nt); CDS:4951432-4954023 (2592nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0030515snoRNA bindingISOSGD:S000006047GO_REF:000002430
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0030490maturation of SSU-rRNAISOSGD:S000006047GO_REF:000002437
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005730nucleolusIDAPMID:16823372355
GO:0032040small-subunit processomeISOSGD:S000006047GO_REF:000002435
GO:0034455t-UTP complexISOSGD:S000006047GO_REF:00000246
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopySPAC1B3.13ΔNullPMID:204732891315
MicroscopySPAC1B3.13ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000059abnormal mitotic cell cycleMicroscopySPAC1B3.13ΔNullPECO:0000005, PECO:0000137PMID:23697806624
FYPO:0002724inviable after spore germination, single or double cell division, elongated cellMicroscopySPAC1B3.13ΔNullPECO:0000005, PECO:0000137PMID:236978063
FYPO:0002379inviable after spore germination, without cell division, with elongated germ tube56
penetrance FYPO_EXT:0000003MicroscopySPAC1B3.13ΔNullPECO:0000137PMID:23697806
FYPO:0000310inviable after spore germination, without cell division, with normal germ tube morphology303
penetrance FYPO_EXT:0000001MicroscopySPAC1B3.13ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
149513374951565
249517374954199

UTRs

Region Coordinates Reference
five_prime_UTR4951337..4951431PMID: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 262 295 104
SM00320 SMART IPR001680 WD40 repeat 487 529 121
SM00320 SMART IPR001680 WD40 repeat 257 296 121
PS50082 Prosite Profiles IPR001680 WD40 repeat 264 305 100
PS50294 Prosite Profiles IPR017986 WD40-repeat-containing domain 264 305 104
PTHR12816 HMMPANTHER 240 341 3
PTHR12816:SF20 HMMPANTHER 240 341 1
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 42 139 143
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 379 641 143
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 229 333 143
SSF50998 SuperFamily IPR011047 Quinonprotein alcohol dehydrogenase-like superfamily 380 533 7
SSF50998 SuperFamily IPR011047 Quinonprotein alcohol dehydrogenase-like superfamily 38 135 7
SSF50998 SuperFamily IPR011047 Quinonprotein alcohol dehydrogenase-like superfamily 225 309 7
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 439 675 135

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 110.35 Da
Charge 5.00
Isoelectric point 6.84
Molecular weight 88.94 kDa
Number of residues 806
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
20950during GO:0000087PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
21475during GO:0000080PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
22299during GO:0072690PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
22513during GO:0000084PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
975.95during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
10852.94during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
22286during GO:0000085PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
3.8during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
0.71during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:21511999432
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3080
conserved in fungi4569
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3393
conserved in eukaryotes only2487
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
tea1cell end marker Tea1 Affinity Capture-MSPMID:21652630
External References
Database Identifier Description
NBRP SPAC1B3.13 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC1B3.13 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC1B3.13 BioGRID Interaction Datasets
Expression Viewer SPAC1B3.13 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC1B3.13 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC1B3.13 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC1B3.13 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC1B3.13 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC1B3.13 Transcriptome Viewer (Bähler Lab)
Cyclebase SPAC1B3.13 Cell Cycle Data
GEO SPAC1B3.13 GEO profiles
PInt SPAC1B3.13 Protein-Protein Interaction Predictor (Bähler Lab)
WikiGene2542217U3 snoRNP-associated protein Nan1
EntrezGene2542217U3 snoRNP-associated protein Nan1
SPD / RIKEN29/29D06Orfeome Localization Data
UniProtKB/SwissProtO13878U3 small nucleolar RNA-associated protein 17
ModBaseO13878Database of comparative protein structure models
STRINGO13878Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_594798U3 snoRNP-associated protein Nan1
RefSeq mRNANM_001020226972h- U3 snoRNP-associated protein Nan1 (SPAC1B3.13), mRNA
European Nucleotide ArchiveCAB11248ENA Protein Mapping
European Nucleotide ArchiveCAB11248.2ENA Protein Mapping
UniParcUPI000228F393UniProt Archive

Literature for SPAC1B3.13

Search: Europe PMC or PubMed

Release Version: PomBase:22_44 - 08 Jul 2014