seh1 (SPAC15F9.02)


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

Ensembl Gene Location
GO Molecular Function
Term NameCount
protein binding859
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
rRNA export from nucleus8
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2314
Annotation ExtensionEvidenceWith/FromReference
nuclear periphery42
Annotation ExtensionEvidenceWith/FromReference
nuclear pore52
Annotation ExtensionEvidenceWith/FromReference
nuclear pore outer ring7
Annotation ExtensionEvidenceWith/FromReference
nucleus2696
Annotation ExtensionEvidenceWith/FromReference
Seh1-associated complex8
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term NameAlleleExpressionCount
viable vegetative cell populationseh1ΔNull3809

Cell Phenotype

Term NameAlleleExpressionCount
normal protein import into nucleusseh1ΔNull15
normal RNA level during vegetative growth101
affecting rec8seh1ΔNull
affecting mei4seh1ΔNull
viable vegetative cell with normal cell morphologyseh1ΔNull3094
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons2398986..2399487, 2399529..2400462, 2400517..2400719
mRNA2398986..2400719
5' UTR2398986..2399420PMID:21511999
CDS2399421..2399487, 2399529..2400462, 2400517..2400535
3' 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 111 140 104
PF00400 Pfam IPR001680 WD40 repeat 7 42 104
PF00400 Pfam IPR001680 WD40 repeat 205 247 104
PF00400 Pfam IPR001680 WD40 repeat 281 317 104
PF00400 Pfam IPR001680 WD40 repeat 56 89 104
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 10 150 104
PS50294 Prosite Profiles IPR017986 WD40-repeat-containing domain 285 326 104
PS50082 Prosite Profiles IPR001680 WD40 repeat 285 317 100
PS50082 Prosite Profiles IPR001680 WD40 repeat 10 51 100
PTHR11024 HMMPANTHER 1 331 2
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 11 318 145
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 9 252 135
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 281 329 135

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 fungi4603
conserved in eukaryotes4514
conserved in metazoa3424
conserved in vertebrates3399
conserved in eukaryotes only2501
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity captured bymtl1TRAMP complex ATP-dependent RNA helicase (predicted) Affinity Capture-MSPMID:24713849
affinity capturesnup120nucleoporin Nup120 Affinity Capture-WesternPMID:15226438
forms complex withnup85nucleoporin Nup85 Reconstituted ComplexPMID:22955883
affinity capturesnup85nucleoporin Nup85 Affinity Capture-MSPMID:15226438
affinity captured bypir2zf-C2H2 type zinc finger protein, implicated in RNAi (predicted) Affinity Capture-MSPMID:24713849
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
negative genetic interaction withams2cell cycle regulated GATA-type transcription factor Ams2 Negative GeneticPMID:22681890
negative genetic interaction witharp42SWI/SNF and RSC complex subunit Arp42 Negative GeneticPMID:22681890
negative genetic interaction withatp11mitochondrial F1-ATPase chaperone Atp11 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withccr4CCR4-Not complex subunit Ccr4 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withcph2Clr6 histone deacetylase associated PHD protein-2 Cph2 Negative GeneticPMID:22681890
positive genetic interaction witheif21translation initiation factor eIF2A (predicted) Positive GeneticPMID:22681890
negative genetic interaction withelp2elongator complex subunit Elp2 (predicted) Negative GeneticPMID:22681890
positive genetic interaction withhhf2histone H4 h4.2 Positive GeneticPMID:22681890
negative genetic interaction withint6eIF3e subunit Int6 Negative GeneticPMID:22681890
positive genetic interaction withiwr1RNA polymerase II nuclear import protein Iwr1 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withkin1microtubule affinity-regulating kinase Kin1 Negative GeneticPMID:22681890
negative genetic interaction withmug154conserved fungal protein Negative GeneticPMID:22681890
rescuesnup85nucleoporin Nup85 Phenotypic SuppressionPMID:22240020
overexpression rescuesnup85nucleoporin Nup85 Dosage RescuePMID:22240020
synthetic lethal withnup85nucleoporin Nup85 Synthetic LethalityPMID:22240020
negative genetic interaction withpab2poly(A) binding protein Pab2 Negative GeneticPMID:22681890
negative genetic interaction withpob3FACT complex subunit Pob3 Negative GeneticPMID:22681890
negative genetic interaction withprp4serine/threonine protein kinase Prp4 Negative GeneticPMID:22681890
negative genetic interaction withrpa12DNA-directed RNA polymerase complex I subunit Rpa12 Negative GeneticPMID:22681890
negative genetic interaction withrpl160160S ribosomal protein L13/L16 (predicted) Negative GeneticPMID:22681890
positive genetic interaction withSPAC1952.06cspliceosomal complex subunit (predicted) Positive GeneticPMID:22681890
negative genetic interaction withSPBC31F10.10czf-MYND type zinc finger protein Negative GeneticPMID:22681890
negative genetic interaction withSPBC56F2.08cRNA-binding protein (predicted) Negative GeneticPMID:22681890
positive genetic interaction withSPBPB10D8.02carylsulfatase (predicted) Positive GeneticPMID:22681890
positive genetic interaction withSPCC162.11curidine kinase/uracil phosphoribosyltransferase (predicted) Positive GeneticPMID:22681890
positive genetic interaction withssp2AMP-activated protein serine/threonine kinase alpha subunit Ssp2 Positive GeneticPMID:22681890
positive genetic interaction withsts5RNB-like protein Positive GeneticPMID:22681890
negative genetic interaction withswd3WD repeat protein Swd3 Negative GeneticPMID:22681890
positive genetic interaction withtfa2transcription factor TFIIE beta subunit, TFIIEB, Tfa2 Positive GeneticPMID:22681890
positive genetic interaction withusp102U1 snRNP-associated protein Usp102 Positive GeneticPMID:22681890
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)
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
Cyclebase SPAC15F9.02.1 Cell Cycle Data
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:26_52 - 11 May 2015