FB2021_02, released April 13, 2021

Gene: Dmel\Sem1

Open Close
General Information
Symbol
Dmel\Sem1
Species
D. melanogaster
Name
Suppressor of exocyst mutations 1
Annotation Symbol
CG13779
Feature Type
protein_coding_gene
FlyBase ID
FBgn0266666
Gene Model Status
Current
Stock Availability
5 publicly available
Gene Summary
Subunit of the 26S proteasome which plays a role in ubiquitin-dependent proteolysis. (UniProt, Q9VM46)
Contribute a Gene Snapshot for this gene.
All Summaries
Also Known As

Sem1p

Key Links
Genomic Location
Cytogenetic map
27D7-27D7
Sequence location
2L:7,063,986..7,064,467 [+]
Recombination map
2-24
RefSeq locus
NT_033779 REGION:7063986..7064467
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (6 terms)
Molecular Function (0 terms)
There is no information supporting a Molecular Function term for this gene. (Based on a review of available data on: 2014-09-09 )
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Biological Process (4 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
involved_in double-strand break repair via homologous recombination
inferred from biological aspect of ancestor with PANTHER:PTN000423400
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in mRNA export from nucleus
inferred from electronic annotation with InterPro:IPR007834
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
involved_in proteasome assembly
inferred from electronic annotation with InterPro:IPR007834
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process
inferred from sequence or structural similarity with SGD:S000007235
(FlyBase Curators, 2008--)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
part_of proteasome complex
inferred from sequence or structural similarity with UniProtKB:P60896
(assigned by UniProt )
(UniProt Curators, 2002-)
inferred from sequence or structural similarity with SGD:S000007235
(Lundgren et al., 2005)
inferred from biological aspect of ancestor with PANTHER:PTN000423400
(assigned by GO_Central )
(Gaudet et al., 2011)
part_of proteasome regulatory particle, lid subcomplex
inferred from electronic annotation with InterPro:IPR007834
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the DSS1/SEM1 family. (Q9VM46)
Protein Signatures (InterPro)
Summaries
Protein Function (UniProtKB)
Subunit of the 26S proteasome which plays a role in ubiquitin-dependent proteolysis.
(UniProt, Q9VM46)
Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\Sem1 for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Comments on Gene Model

Gene model reviewed during 5.46

Sequence Ontology: Class of Gene
gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Sem1-RA
FBtr0079403
NM_144298
427
79
Additional Transcript Data and Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
Sem1-PA
FBpp0079031
9.4
79
3.70
NP_652555
AAF52481
Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Subunit Structure (UniProtKB)

Part of the 26S proteasome.

(UniProt, Q9VM46)
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Sem1 using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Expression Data
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 3
organism

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 4 -- 6
organism
(Fisher et al., 2012)
embryonic stage 7 -- 8
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 9 -- 10
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 11 -- 12
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 13 -- 16
embryonic/larval midgut
(Fisher et al., 2012)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Sem1 in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, Transgenic Constructs, and Aberrations
Classical and Insertion Alleles ( 1 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 7 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Sem1
Transgenic constructs containing regulatory region of Sem1
Aberrations (Deficiencies and Duplications) ( 2 )
Inferred from experimentation ( 2 )
Gene disrupted in
Df(2L)Exel7030
(Ryder, 2004.4.26)
Df(2L)Mnn1Δ65
(Cerrato et al., 2006)
Inferred from location ( 0 )
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\SEM1
5 of 15
Yes
Yes
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Sem1
9 of 15
Yes
Yes
Rattus norvegicus (Norway rat) (1)
Rnor\Sem1
8 of 13
Yes
Yes
Xenopus tropicalis (Western clawed frog) (1)
Xtro\sem1
8 of 12
Yes
Yes
Danio rerio (Zebrafish) (1)
Drer\sem1
7 of 15
Yes
Yes
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\dss-1
6 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (2)
Atha\DSS1(I)
3 of 9
Yes
Yes
Atha\DSS1(V)
3 of 9
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (1)
Scer\SEM1
6 of 15
Yes
Yes
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\dss1
4 of 12
Yes
Yes
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( None identified )
No orthologies identified
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( None identified )
No non-Drosophilid orthologies identified
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( None identified )
No non-Dipteran orthologies identified
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( None identified )
No non-Insect Arthropod orthologies identified
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( None identified )
No non-Arthropod Metazoa orthologies identified
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (0)
No records found.
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Model Summary Ribbon
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 0 )
    Human Ortholog
    Disease
    Evidence
    References
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Disease Associations of Human Orthologs (via DIOPT v8.0 and OMIM)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    DO term
    Complementation?
    Transgene?
    SEM1; SEM1 26S proteasome subunit
    5 of 15
    601285
        Functional Complementation Data
        Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
        Interactions
        Summary of Physical Interactions
        esyN Network Diagram
        Show neighbor-neighbor interactions:
        Select Layout:
        Legend:
        Protein
        RNA
        Selected Interactor(s)
        Interactions Browser
        View in Interactions Browser
        Please see the Physical Interaction reports below for full details
        protein-protein
        Physical Interaction
        Assay
        References
        Sem1 - PCID2
        two hybrid
        (Hu et al., 2017.6.13)
        Summary of Genetic Interactions
        esyN Network Diagram
        Starting gene(s)
        Interaction type
        Interacting gene(s)
        Reference
        Starting gene(s)
        Interaction type
        Interacting gene(s)
        Reference
        External Data
        Subunit Structure (UniProtKB)
        Part of the 26S proteasome.
        (UniProt, Q9VM46 )
        Linkouts
        DroID - A comprehensive database of gene and protein interactions.
        MIST (protein-protein) - An integrated Molecular Interaction Database
        Pathways
        Signaling Pathways (FlyBase)
        Metabolic Pathways
        External Data
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        2L
        Recombination map
        2-24
        Cytogenetic map
        27D7-27D7
        Sequence location
        2L:7,063,986..7,064,467 [+]
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        27D7-27D7
        Limits computationally determined from genome sequence between P{PZ}snRNP70K02107 and P{PZ}wg02657
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        Experimentally Determined Recombination Data
        Location

        2-24

        (FlyBase, 2016)

        2-23.2

        (Comeron et al., 2012)
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (5)
        Genomic Clones (16)
         

        Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

        cDNA Clones (43)
         

        Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.

        cDNA clones, fully sequenced
        BDGP DGC clones
        Other clones
          Drosophila Genomics Resource Center cDNA clones

          For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

          cDNA Clones, End Sequenced (ESTs)
          BDGP DGC clones
          Other clones
          RNAi and Array Information
          Linkouts
          GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
          Antibody Information
          Laboratory Generated Antibodies
           
          Commercially Available Antibodies
           
          Other Information
          Relationship to Other Genes
          Source for database identify of
          Source for database merge of

          Source for merge of: CG13779 BcDNA:RH34416

          (FlyBase, 1996-)

          Source for merge of: Sem1 CG13779

          (FlyBase, 1992-)
          Additional comments

          Source for merge of CG13779 BcDNA:RH34416 was TrEMBL update ( date:020807 ).

          (FlyBase, 1996-)
          Other Comments
          Origin and Etymology
          Discoverer
          Etymology

          Named "Sem1" after the S. cerevisiae ortholog.

          (FlyBase, 2009-)
          Identification
          External Crossreferences and Linkouts ( 28 )
          Sequence Crossreferences
          NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
          GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
          GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
          RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
          UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
          Other crossreferences
          BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
          Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
          Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
          Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
          GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
          InterPro - A database of protein families, domains and functional sites
          KEGG Genes - Molecular building blocks of life in the genomic space.
          Linkouts
          DroID - A comprehensive database of gene and protein interactions.
          KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
          MIST (protein-protein) - An integrated Molecular Interaction Database
          Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
          Synonyms and Secondary IDs (10)
          Datasets (0)
          Study focus (0)
          Experimental Role
          Project
          Project Type
          Title
          References (46)