General Information
Symbol
Dmel\SmE
Species
D. melanogaster
Name
Small ribonucleoprotein particle protein SmE
Annotation Symbol
CG18591
Feature Type
FlyBase ID
FBgn0261790
Gene Model Status
Stock Availability
Gene Snapshot
Small ribonucleoprotein particle protein SmE (SmE) is an RNA binding protein that functions as part of a heteroheptameric ring structure called the Sm core. This complex binds to spliceosomal small nuclear RNAs (e.g. U1, U2, U4 and U5) and helps to carry out pre-mRNA splicing. SmE also forms a heterotrimeric sub-complex with SmF and SNRPG. [Date last reviewed: 2017-02-09]
Genomic Location
Cytogenetic map
Sequence location
2L:7,884,930..7,885,450 [-]
Recombination map
2-29
Sequence
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
GO Summary Ribbons
Families, Domains and Molecular Function
Protein Family (UniProt, Sequence Similarities)
Belongs to the snRNP Sm proteins family. (Q9VLV5)
Molecular Function (see GO section for details)
Experimental Evidence
-
Predictions / Assertions
-
Summaries
Gene Group Membership
U1 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE -
The U1 small nuclear ribonucleoprotein particle (U1 snRNP) contains U1 snRNA and initiates spliceosome assembly by binding to the 5' splice site in pre-mRNA. (Adapted from PMID:11206553 and PMID:21441581).
U2 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE -
The U2 small nuclear ribonucleoprotein particle (U2 snRNP) contains U2 snRNA. It is recruited to the spliceosome after U1 snRNP and forms a stable interaction with the branch site and 3' splice site in pre-mRNA. (Adapted from PMID:23829528 and PMID:21441581).
U5 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE -
The U5 small nuclear ribonucleoprotein particle (U5 snRNP) contains U5 RNA and assembles with U4-U6 snRNP to form the U4-U6.U5 tri-snRNP. U5 snRNA interacts with the 5' and 3' exons. (Adapted from PMID:21441581).
U4-U6 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE -
The U4/U6 small nuclear ribonucleoprotein particle (U4/U6 snRNP) is a complex that contains base-paired U4 and U6 snRNAs. U4/U6 snRNP assembles with U5 to form the U4/U6.U5 tri-snRNP. (Adapted from PMID:21441581).
U4-U6-U5 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE -
U4/U6.U5 tri-snRNP is assembled from U5 and U4/U6 snRNPs. The complex contains U4 and U6 snRNAs base-paired with each other and U6 snRNA. This complex is recruited to the pre-catalytic splicing intermediate, complex B. (Adapted from PMID:21441581).
SPLICEOSOMAL SM PROTEINS -
The spliceosomal Sm proteins are common to all spliceosomal small nuclear ribonucleoproteins (snRNPs). Sm proteins assemble in a stepwise manner onto the Sm site element of the U1, U2, U4 and U5 spliceosomal snRNAs forming a ring-shaped core RNP structure. (Adapted from PMID:11226169).
SPLICEOSOME COMPLEX A -
Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. Complex A, the pre-spliceosome, is composed of U1 and U2 snRNPs and proteins involved in recognition of the 5' splice site and branch point. (Adapted from PMID:24452469 and PMID:23118483).
SPLICEOSOME COMPLEX B -
Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. After the assembly of complex A on pre-mRNA, the U4-U6 and U5 snRNPs are recruited as a preassembled tri-snRNP to form complex B. U5 snRNP binds exons at the 5' site. (Adapted from PMID:24452469 and PMID:23118483).
SPLICEOSOME COMPLEX C -
Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. Complex B undergoes a number of structural rearrangements and U4 and U1 snRNPs dissociate to generate complex C, the catalytic spliceosome. (Adapted from PMID:24452469 and PMID:23118483).
SPLICEOSOME COMPLEX P -
Nuclear pre-mRNA splicing is catalyzed by the spliceosome which assembles in a step-wise manner. Complex P, the post-spliceosomal complex, is formed after the catalytic removal of the intron by complex C. Complex P contains the lariat intron and spliced exons. (Adapted from PMID:24452469 and PMID:23118483).
U7 SMALL NUCLEAR RIBONUCLEOPROTEIN PARTICLE -
The U7 snRNP involved in histone pre-mRNA 3' end processing consists of two core components: an U7 snRNA and an unusual heptameric Sm ring. (Adapted from FBrf0168021 and FBrf0208608).
U7 SM PROTEINS -
The U7 snRNP is involved in histone mRNA 3' end processing. Sm proteins are common to all small nuclear ribonucleoproteins (snRNPs), assembling in a stepwise manner onto snRNAs, forming a ring-shaped core RNP structure. (Adapted from FBrf0168021 and FBrf0208608).
UniProt Contributed Function Data
Associated with the spliceosome snRNP U1, U2, U4/U6 and U5.
(UniProt, Q9VLV5)
Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the GBrowse view of Dmel\SmE or the JBrowse view of Dmel\SmE 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 5.52
Sequence Ontology: Class of Gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0079560
521
94
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
FBpp0079182
11.1
94
10.10
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)
Interacts with the SMN complex.
(UniProt, Q9VLV5)
Crossreferences
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\SmE using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Gene Ontology (12 terms)
Molecular Function (0 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (0 terms)
Biological Process (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
inferred by curator from GO:0071011,GO:0071013
inferred from sequence or structural similarity with SGD:S000005685
inferred from biological aspect of ancestor with PANTHER:PTN000127555
(assigned by GO_Central )
Cellular Component (10 terms)
Terms Based on Experimental Evidence (4 terms)
CV Term
Evidence
References
inferred from high throughput direct assay
inferred from direct assay
inferred from high throughput direct assay
Terms Based on Predictions or Assertions (6 terms)
CV Term
Evidence
References
inferred from sequence or structural similarity with SGD:S000005685
inferred from biological aspect of ancestor with PANTHER:PTN000127555
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000127555
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000127555
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000127555
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000127555
(assigned by GO_Central )
Expression Data
Transcript Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
inferred from high throughput direct assay
inferred from direct assay
inferred from high throughput direct assay
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\SmE in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
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
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
Alleles, Insertions, Transgenic Constructs and Phenotypes
Classical and Insertion Alleles ( 2 )
For All Classical and Insertion Alleles Show
 
Allele of SmE
Class
Mutagen
Associated Insertion
Stocks
Known lesion
Other relevant insertions
Transgenic Constructs ( 4 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of SmE
Allele of SmE
Mutagen
Associated Transgenic Construct
Stocks
Transgenic constructs containing regulatory region of SmE
Deletions and Duplications ( 1 )
Summary of Phenotypes
Orthologs
Human Orthologs (via DIOPT v7.1)
Homo sapiens (Human) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
13 of 15
Yes
Yes
Model Organism Orthologs (via DIOPT v7.1)
Mus musculus (laboratory mouse) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
12 of 15
Yes
Yes
Rattus norvegicus (Norway rat) (1)
2 of 13
Yes
Yes
Xenopus tropicalis (Western clawed frog) (1)
12 of 12
Yes
Yes
Danio rerio (Zebrafish) (2)
14 of 15
Yes
Yes
Caenorhabditis elegans (Nematode, roundworm) (1)
14 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (2)
9 of 9
Yes
Yes
9 of 9
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (1)
14 of 15
Yes
Yes
Schizosaccharomyces pombe (Fission yeast) (1)
12 of 12
Yes
Yes
Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG09190JOH )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila melanogaster
fruit fly
Drosophila simulans
Drosophila erecta
Drosophila yakuba
Drosophila ananassae
Drosophila pseudoobscura pseudoobscura
Drosophila pseudoobscura pseudoobscura
Drosophila willistoni
Drosophila virilis
Drosophila mojavensis
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG09150HHZ )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Aedes aegypti
Yellow fever mosquito
Anopheles darlingi
American malaria mosquito
Anopheles gambiae
Malaria mosquito
Culex quinquefasciatus
Southern house mosquito
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0LY3 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bombyx mori
Silkmoth
Bombyx mori
Silkmoth
Danaus plexippus
Monarch butterfly
Danaus plexippus
Monarch butterfly
Heliconius melpomene
Postman butterfly
Heliconius melpomene
Postman butterfly
Apis florea
Little honeybee
Apis florea
Little honeybee
Apis mellifera
Western honey bee
Bombus impatiens
Common eastern bumble bee
Bombus impatiens
Common eastern bumble bee
Bombus terrestris
Buff-tailed bumblebee
Bombus terrestris
Buff-tailed bumblebee
Linepithema humile
Argentine ant
Megachile rotundata
Alfalfa leafcutting bee
Nasonia vitripennis
Parasitic wasp
Nasonia vitripennis
Parasitic wasp
Dendroctonus ponderosae
Mountain pine beetle
Tribolium castaneum
Red flour beetle
Pediculus humanus
Human body louse
Pediculus humanus
Human body louse
Rhodnius prolixus
Kissing bug
Cimex lectularius
Bed bug
Cimex lectularius
Bed bug
Cimex lectularius
Bed bug
Acyrthosiphon pisum
Pea aphid
Zootermopsis nevadensis
Nevada dampwood termite
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0M64 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Strigamia maritima
European centipede
Ixodes scapularis
Black-legged tick
Stegodyphus mimosarum
African social velvet spider
Tetranychus urticae
Two-spotted spider mite
Tetranychus urticae
Two-spotted spider mite
Daphnia pulex
Water flea
Daphnia pulex
Water flea
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0JFB )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Strongylocentrotus purpuratus
Purple sea urchin
Ciona intestinalis
Vase tunicate
Gallus gallus
Domestic chicken
Human Disease Model Data
FlyBase Human Disease Model Reports
    Alleles Reported to Model Human Disease (Disease Ontology)
    Download
    Models ( 0 )
    Allele
    Disease
    Evidence
    References
    Interactions ( 0 )
    Allele
    Disease
    Interaction
    References
    Comments ( 0 )
     
    Human Orthologs (via DIOPT v7.1)
    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
    Complementation?
    Transgene?
    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
    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)
    Interacts with the SMN complex.
    (UniProt, Q9VLV5 )
    Linkouts
    DroID - A comprehensive database of gene and protein interactions.
    InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
    Pathways
    Gene Group - Pathway Membership (FlyBase)
    External Data
    Linkouts
    KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
    Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    2L
    Recombination map
    2-29
    Cytogenetic map
    Sequence location
    2L:7,884,930..7,885,450 [-]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    28D2-28D2
    Limits computationally determined from genome sequence between P{PZ}mts02496 and P{EP}CG7231EP2510
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    Experimentally Determined Recombination Data
    Location
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (7)
    Genomic Clones (8)
     

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

    cDNA Clones (24)
     

    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 sequences
    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
        RNAi and Array Information
        Linkouts
        DRSC - Results frm RNAi screens
        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: snRNPE CG18591
        Source for merge of: CG18591 BcDNA:GM19936
        Additional comments
        Source for merge of CG18591 BcDNA:GM19936 was a shared cDNA ( date:030728 ).
        Other Comments
        Identified as a potential component of the hh signalling pathway in a genome-wide RNAi screen. dsRNA made from templates generated with primers directed affects the extent of expression of a hh signaling reporter construct in Clone 8 cells.
        Identified as a protein which is common to all small nuclear ribonucleoprotein particles (snRNPs).
        Origin and Etymology
        Discoverer
        Etymology
        Identification
        External Crossreferences and Linkouts ( 26 )
        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
        KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
        Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
        Linkouts
        Drosophila Genomics Resource Center - Drosophila Genomics Resource Center cDNA clones
        DroID - A comprehensive database of gene and protein interactions.
        DRSC - Results frm RNAi screens
        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
        Flygut - An atlas of the Drosophila adult midgut
        FlyMine - An integrated database for Drosophila genomics
        GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
        InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
        KEGG Genes - Molecular building blocks of life in the genomic space.
        modMine - A data warehouse for the modENCODE project
        Synonyms and Secondary IDs (8)
        Datasets (0)
        Study focus (0)
        Experimental Role
        Project
        Project Type
        Title
        References (52)