tco1 (SPAC17G6.02c)


Gene Standard Nametco1 Characterisation Statuspublished
Systematic IDSPAC17G6.02c Feature Typeprotein coding
Synonyms Name Description
ProductRTA1-like protein Product Size324aa, 35.93 kDa
Genomic Location Chromosome I, 3590624-3588615 (2010nt); CDS:3589949-3588975 (975nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0004012phospholipid-translocating ATPase activityISOSGD:S000005575GO_REF:00000246
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0034599cellular response to oxidative stressNASGO_REF:000000162
GO:0045332phospholipid translocationISOSGD:S000005575GO_REF:00000245
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005794Golgi apparatusIDAPMID:16823372355
GO:0032153cell division siteIDAPMID:16823372295
GO:0051286cell tipIDAPMID:16823372188
GO:0005737cytoplasmIDAPMID:168233724201
GO:0016021integral component of membraneIEAUniProtKB-KW:KW-0812GO_REF:00000371017
GO:0005886plasma membraneISSUniProtKB:P40100GO_REF:0000001242
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002060viable vegetative cell populationMicroscopytco1ΔNullPMID:204732893760
Microscopytco1ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002177viable vegetative cell with normal cell morphology3086
penetrance FYPO_EXT:0000001Microscopytco1ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
135906243588615

UTRs

Region Coordinates Reference
five_prime_UTR3590624..3589950PMID:21511999
three_prime_UTR3588974..3588615PMID: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
PF04479 Pfam IPR007568 RTA-like protein 43 272 1
TMhelix TMHMM 71 93 959
TMhelix TMHMM 206 223 959
TMhelix TMHMM 10 32 959
TMhelix TMHMM 155 177 959
TMhelix TMHMM 238 260 959
TMhelix TMHMM 113 135 959
TMhelix TMHMM 39 56 959
PTHR31461:SF1 HMMPANTHER 3 324 1
PTHR31461 HMMPANTHER 3 324 1

View domain organization at Pfam

Sequence Ontology

Term IDTerm NameReferenceCount
SO:0001809signal_anchor10
SO:0001812transmembrane_helix465

Protein Properties

Ave. residue weight 110.90 Da
Charge -2.00
Isoelectric point 6.08
Molecular weight 35.93 kDa
Number of residues 324
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineS321PMID:217125471663
present during mitotic M phase
present during mitotic M phaseS320PMID:21712547
present during mitotic M phaseS318PMID:21712547
Sequence
Gene Expression

Qualitative Gene Expression

DescriptionLevelEvidenceReference
RNA levelincreased in presence of purvalanol A expression microarray evidencePMID:22840777

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
NDduring cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
NDduring GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
2.2during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
3.7during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
Genome Organisation
DescriptionQualifierReferenceCount
alternative transcripts PMID:182766458
Warning
DescriptionQualifierReferenceCount
in the current viewer tco1 gene is hidden behind SPNCRNA.6002
Species Distribution
DescriptionQualifierReferenceCount
conserved in fungi4569
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
sre2membrane-tethered transcription factor Sre2 Negative GeneticPMID:21504829
bst1GPI inositol deacylase Bst1 (predicted) Negative GeneticPMID:22681890
ddb1damaged DNA binding protein Ddb1 Positive GeneticPMID:22681890
rpl200160S ribosomal protein L20a (predicted) Positive GeneticPMID:22681890
SPAC1610.02cmitochondrial ribosomal protein subunit L1 (predicted) Positive GeneticPMID:22681890
shf1small histone ubiquitination factor Shf1 Positive GeneticPMID:22681890
dsc1Golgi Dsc E3 ligase complex subunit Dsc1 Negative GeneticPMID:21504829
atp15F0-ATPase epsilon subunit (predicted) Positive GeneticPMID:22681890
SPBC1861.05pseudouridine-metabolizing bifunctional protein (predicted) Positive GeneticPMID:22681890
SPBC13E7.03cRNA hairpin binding protein (predicted) Positive GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPAC17G6.02c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC17G6.02c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC17G6.02c BioGRID Interaction Datasets
Expression Viewer SPAC17G6.02c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC17G6.02c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC17G6.02c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC17G6.02c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC17G6.02c Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC17G6.02c Transcriptome Viewer (Bähler Lab)
Cyclebase SPAC17G6.02c Cell Cycle Data
GEO SPAC17G6.02c GEO profiles
PInt SPAC17G6.02c Protein-Protein Interaction Predictor (Bähler Lab)
WikiGene2542288RTA1-like protein
EntrezGene2542288RTA1-like protein
SPD / RIKEN13/13H11Orfeome Localization Data
UniProtKB/SwissProtO13780Uncharacterized protein C17G6.02c
ModBaseO13780Database of comparative protein structure models
STRINGO13780Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_594249RTA1-like protein
RefSeq mRNANM_001019672972h- RTA1-like protein (tco1), mRNA
European Nucleotide ArchiveBAA87202ENA Protein Mapping
European Nucleotide ArchiveBAA87202.1ENA Protein Mapping
European Nucleotide ArchiveCAB16213ENA Protein Mapping
European Nucleotide ArchiveCAB16213.1ENA Protein Mapping
UniParcUPI000006AB49UniProt Archive

Literature for tco1

Search: Europe PMC or PubMed

Release Version: PomBase:22_44 - 08 Jul 2014