seh1 (SPAC15F9.02)


Gene Standard Nameseh1 Characterisation Statuspublished
Systematic IDSPAC15F9.02 Feature Typeprotein coding
Synonyms Name Description
ProductSeh1-associated complex subunity Seh1 Product Size339aa, 38.56 kDa
Genomic Location Chromosome I, 2398986-2400719 (1734nt); CDS:2399421-2400535 (1115nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005515protein bindingIPInup85PMID:15226438831
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0006407rRNA export from nucleusISOSGD:S000003060GO_REF:00000249
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0035859Seh1-associated complexISOSGD:S000002535GO_REF:00000247
GO:0005829cytosolIDAPMID:168233722315
GO:0005643nuclear poreIDAPMID:1522643853
during meiotic cell cycleIDAPMID:20970342
during mitotic cell cycleIDAPMID:20970342
GO:0031080nuclear pore outer ringIDAPMID:152264387
GO:0005634nucleusIDAPMID:168233722740
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002060viable vegetative cell populationMicroscopyseh1ΔNullPECO:0000005, PECO:0000137PMID:236978063759
Microscopyseh1ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001317normal RNA level during vegetative growth80
affecting mei4Transcript expression level evidenceseh1ΔNullPMID:23658229
affecting rec8Transcript expression level evidenceseh1ΔNullPMID:23658229
FYPO:0000124viable cellCell growth assayseh1ΔNullPMID:222400203614
FYPO:0002177viable vegetative cell with normal cell morphology3089
penetrance FYPO_EXT:0000001Microscopyseh1ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
123989862399487
223995292400462
324005172400719

UTRs

Region Coordinates Reference
five_prime_UTR2398986..2399420PMID:21511999
three_prime_UTR2400536..2400719PMID: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 7 42 104
PF00400 Pfam IPR001680 WD40 repeat 205 247 104
PF00400 Pfam IPR001680 WD40 repeat 111 140 104
PF00400 Pfam IPR001680 WD40 repeat 56 89 104
PF00400 Pfam IPR001680 WD40 repeat 281 317 104
SM00320 SMART IPR001680 WD40 repeat 278 317 112
SM00320 SMART IPR001680 WD40 repeat 49 90 112
SM00320 SMART IPR001680 WD40 repeat 100 141 112
SM00320 SMART IPR001680 WD40 repeat 204 247 112
SM00320 SMART IPR001680 WD40 repeat 3 42 112
PS50294 Prosite Profiles IPR017986 WD40-repeat-containing domain 285 326 104
PS50294 Prosite Profiles IPR017986 WD40-repeat-containing domain 10 150 104
PS50082 Prosite Profiles IPR001680 WD40 repeat 10 51 100
PS50082 Prosite Profiles IPR001680 WD40 repeat 285 317 100
PTHR11024:SF3 HMMPANTHER 1 337 1
PTHR11024 HMMPANTHER 1 337 2
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 11 318 145
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 281 329 135
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 9 252 135

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 113.76 Da
Charge -7.00
Isoelectric point 5.01
Molecular weight 38.56 kDa
Number of residues 339
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
15234during GO:0000080PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
19150during GO:0000084PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
15605during GO:0000085PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
15224during GO:0000087PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
4150.5during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
15825during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
4539.06during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
3.7during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.81during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
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


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
ams2cell cycle regulated GATA-type transcription factor Ams2 Negative GeneticPMID:22681890
prp4serine/threonine protein kinase Prp4 Negative GeneticPMID:22681890
iwr1RNA polymerase II nuclear import protein Iwr1 (predicted) Positive GeneticPMID:22681890
swd3WD repeat protein Swd3 Negative GeneticPMID:22681890
pab2poly(A) binding protein Pab2 Negative GeneticPMID:22681890
rpa12DNA-directed RNA polymerase complex I subunit Rpa12 Negative GeneticPMID:22681890
SPBC56F2.08cRNA-binding protein (predicted) Negative GeneticPMID:22681890
tfa2transcription factor TFIIE beta subunit, TFIIEB, Tfa2 Positive GeneticPMID:22681890
mug154conserved fungal protein Negative GeneticPMID:22681890
SPBC31F10.10czf-MYND type zinc finger protein Negative GeneticPMID:22681890
kin1microtubule affinity-regulating kinase Kin1 Negative GeneticPMID:22681890
atp11F1-ATPase chaperone Atp11 (predicted) Negative GeneticPMID:22681890
pob3FACT complex subunit Pob3 Negative GeneticPMID:22681890
int6eIF3e subunit Int6 Negative GeneticPMID:22681890
ccr4CCR4-Not complex subunit Ccr4 (predicted) Negative GeneticPMID:22681890
arp42SWI/SNF and RSC complex subunit Arp42 Negative GeneticPMID:22681890
rpl160160S ribosomal protein L13/L16 (predicted) Negative GeneticPMID:22681890
cph2Clr6 histone deacetylase associated PHD protein-2 Cph2 Negative GeneticPMID:22681890
sts5RNB-like protein Positive GeneticPMID:22681890
usp102U1 snRNP-associated protein Usp102 Positive GeneticPMID:22681890
ssp2serine/threonine protein kinase Ssp2 Positive GeneticPMID:22681890
SPBPB10D8.02carylsulfatase (predicted) Positive GeneticPMID:22681890
nup85nucleoporin Nup85 Synthetic LethalityPMID:22240020
Dosage Rescue
Phenotypic Suppression
SPCC162.11curidine kinase/uracil phosphoribosyltransferase (predicted) Positive GeneticPMID:22681890
hhf2histone H4 h4.2 Positive GeneticPMID:22681890
SPBC4B4.04translation initiation factor eIF2A (predicted) Positive GeneticPMID:22681890
elp2elongator complex subunit Elp2 (predicted) Negative GeneticPMID:22681890
SPAC1952.06cspliceosomal complex subunit (predicted) Positive GeneticPMID:22681890
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
mtl1TRAMP complex ATP-dependent RNA helicase (predicted) Affinity Capture-MSPMID:24713849
pir2zf-C2H2 type zinc finger protein, implicated in RNAi (predicted) Affinity Capture-MSPMID:24713849
nup120nucleoporin Nup120 Affinity Capture-WesternPMID:15226438
nup85nucleoporin Nup85 Reconstituted ComplexPMID:22955883
Affinity Capture-MSPMID:15226438
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
hhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
External References
Database Identifier Description
NBRP SPAC15F9.02 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC15F9.02 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC15F9.02 BioGRID Interaction Datasets
Expression Viewer SPAC15F9.02 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC15F9.02 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC15F9.02 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC15F9.02 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC15F9.02 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC15F9.02 Transcriptome Viewer (Bähler Lab)
Cyclebase SPAC15F9.02 Cell Cycle Data
GEO SPAC15F9.02 GEO profiles
PInt SPAC15F9.02 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC15F9.02 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC15F9.02 Fission yeast phenotypic data & analysis
SPD / RIKEN17/17E10Orfeome Localization Data
UniProtKB/SwissProtQ10099Nucleoporin seh1
ModBaseQ10099Database of comparative protein structure models
STRINGQ10099Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_593751nucleoporin Seh1
RefSeq mRNANM_001019182972h- nucleoporin Seh1 (seh1), mRNA
European Nucleotide ArchiveCAA92379.1ENA Protein Mapping
UniParcUPI000013580FUniProt Archive

Literature for seh1

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014