FB2021_01, released Feb 18, 2021

Gene: Dmel\Polr1E

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General Information
Symbol
Dmel\Polr1E
Species
D. melanogaster
Name
RNA polymerase I subunit E
Annotation Symbol
CG18600
Feature Type
protein_coding_gene
FlyBase ID
FBgn0038601
Gene Model Status
Current
Stock Availability
4 publicly available
Gene Snapshot
Contributions welcome
Other Summaries
Key Links
Genomic Location
Cytogenetic map
91A2-91A2
Sequence location
3R:18,300,195..18,301,728 [-]
Recombination map

3-63

RefSeq locus
NT_033777 REGION:18300195..18301728
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 (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
enables DNA binding
inferred from electronic annotation with InterPro:IPR009668
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
enables DNA-directed 5'-3' RNA polymerase activity
inferred from electronic annotation with InterPro:IPR009668
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
Biological Process (3 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
involved_in nucleolar large rRNA transcription by RNA polymerase I
inferred from biological aspect of ancestor with PANTHER:PTN000374345
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in RNA polymerase I preinitiation complex assembly
inferred from biological aspect of ancestor with PANTHER:PTN000374345
(assigned by GO_Central )
(Gaudet et al., 2011)
involved_in transcription elongation from RNA polymerase I promoter
inferred from biological aspect of ancestor with PANTHER:PTN000374345
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
part_of RNA polymerase I complex
inferred from biological aspect of ancestor with PANTHER:PTN000374345
(assigned by GO_Central )
(Gaudet et al., 2011)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
RNA POLYMERASE I -
RNA polymerase I (RNAP I) synthesizes the ribosomal RNA precursor that is processed into most ribosomal RNAs (rRNAs). It comprises 12-14 subunits (12 in D. melanogaster), ten of which form a structurally conserved catalytic core with additional subunits located on the periphery. Notably, five RNAP I subunits are shared with the other two nuclear RNAPs, and two others are shared between RNAPs I and III. (Adapted from FBrf0247389.)
Gene Model and Products
Number of Transcripts
1
Number of Unique Polypeptides
1

Please see the JBrowse view of Dmel\Polr1E 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 5.44

Gene model reviewed during 5.47

Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Polr1E-RA
FBtr0083594
NM_142451
1414
384
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
Polr1E-PA
FBpp0083015
43.7
384
8.57
NP_650708
AAF55533
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
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\Polr1E 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 | ubiquitous
(Fisher et al., 2012)
embryonic stage 7 -- 8
antennal anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
central brain anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
dorsal head epidermis anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
visual anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
anterior endoderm anlage
(Fisher et al., 2012)
dorsal ectoderm
(Fisher et al., 2012)
head mesoderm
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
posterior endoderm
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
ventral ectoderm
(Fisher et al., 2012)
ventral nerve cord primordium

Comment: reported as ventral nerve cord anlage

(Fisher et al., 2012)
embryonic stage 9 -- 10
anterior endoderm
(Fisher et al., 2012)
head mesoderm
(Fisher et al., 2012)
posterior endoderm
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
embryonic stage 11 -- 12
anterior midgut primordium
(Fisher et al., 2012)
posterior midgut primordium
(Fisher et al., 2012)
salivary gland body primordium
(Fisher et al., 2012)
somatic muscle primordium
(Fisher et al., 2012)
trunk mesoderm
(Fisher et al., 2012)
embryonic stage 13 -- 16
embryonic/larval midgut
(Fisher et al., 2012)
embryonic/larval muscle system
(Fisher et al., 2012)
embryonic/larval somatic muscle
(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\Polr1E 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
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 1-3
  • Stages(s) 7-8
  • Stages(s) 9-10
  • Stages(s) 11-12
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 ( 4 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Polr1E
Transgenic constructs containing regulatory region of Polr1E
Aberrations (Deficiencies and Duplications) ( 1 )
Inferred from experimentation
Gene disrupted in
Df(3R)Exel6178
(Ryder, 2004.4.26)
Inferred from location
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
viable, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
viable, with Scer\GAL4pnr-MD237
viable, with Scer\GAL4tin.CΔ4
Phenotype manifest in
Allele
embryonic/larval hemocyte | third instar larval stage, with Scer\GAL4Pxn.PS
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\POLR1E
7 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\Polr1e
6 of 15
Yes
Yes
Rattus norvegicus (Norway rat) (1)
Rnor\Polr1e
10 of 13
Yes
Yes
Xenopus tropicalis (Western clawed frog) (1)
Xtro\polr1e
6 of 12
Yes
Yes
Danio rerio (Zebrafish) (1)
Drer\polr1e
7 of 15
Yes
Yes
Caenorhabditis elegans (Nematode, roundworm) (2)
Cele\rpoa-49
2 of 15
Yes
Yes
Cele\Y45G5AM.7
1 of 15
No
Yes
Arabidopsis thaliana (thale-cress) (1)
Atha\AT3G13940
4 of 9
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (1)
Scer\RPA49
6 of 15
Yes
Yes
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\rpa49
4 of 12
Yes
Yes
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG09190B0H )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00013136
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00009719
Drosophila simulans
Dsim\GD20183
Drosophila sechellia
Dsec\GM15305
Drosophila erecta
Dere\GG16519
Drosophila yakuba
Dyak\GE25212
Drosophila yakuba
Dyak\GE27851
Drosophila ananassae
Dana\GF18123
Drosophila pseudoobscura pseudoobscura
Dpse\GA25490
Drosophila pseudoobscura pseudoobscura
Dpse\GA26686
Drosophila persimilis
Dper\GL23660
Drosophila willistoni
Dwil\GK11503
Drosophila virilis
Dvir\GJ10844
Drosophila mojavensis
Dmoj\GI24270
Drosophila grimshawi
Dgri\GH19237
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG09150FN4 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17016482
Glossina morsitans
Tsetse fly
Gmor\GMOY000218
Glossina morsitans
Tsetse fly
Gmor\GMOY005482
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_06176
Mayetiola destructor
Hessian fly
Mdes\Mdes000421
Anopheles darlingi
American malaria mosquito
Adar\ADAC000683
Anopheles gambiae
Malaria mosquito
Agam\AGAP001045
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ009013
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0CFQ )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA001686
Danaus plexippus
Monarch butterfly
Dple\DPOGS205428-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL010823
Apis florea
Little honeybee
Aflo\2348939556
Apis mellifera
Western honey bee
Amel\GB54698
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP19101
Bombus terrestris
Buff-tailed bumblebee
Bter\15213172
Linepithema humile
Argentine ant
Lhum\LH23463
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:001b35
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG011264
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_03520
Tribolium castaneum
Red flour beetle
Tcas\TC033576
Pediculus humanus
Human body louse
Phum\PHUM232380
Rhodnius prolixus
Kissing bug
Rpro\RPRC003029
Cimex lectularius
Bed bug
Clec\CLEC006662
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI007806
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_02252
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0CDI )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR008341
Stegodyphus mimosarum
African social velvet spider
Smim\KFM83220.1
Stegodyphus mimosarum
African social velvet spider
Smim\KFM70732.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur07g07270
Tetranychus urticae
Two-spotted spider mite
Turt\tetur13g02230
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_105793
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?
    POLR1E; RNA polymerase I subunit E
    7 of 15
        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
        Interactions Browser
        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
        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
        Linkouts
        KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        3R
        Recombination map

        3-63

        Cytogenetic map
        91A2-91A2
        Sequence location
        3R:18,300,195..18,301,728 [-]
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        91A2-91A2
        Limits computationally determined from genome sequence between P{EP}Dlc90FEP3634 and P{PZ}sprd05284
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        Experimentally Determined Recombination Data
        Location

        3-63

        (FlyBase, 2016)

        3-62.3

        (Comeron et al., 2012)
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (4)
        Genomic Clones (20)
        cDNA Clones (35)
         

        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
          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 identity of: Polr1E CG18600

          (Marygold et al., 2020)
          Source for database merge of

          Source for merge of: CG18600 BEST:CK01205

          (FlyBase, 1996-)
          Additional comments

          Source for merge of CG18600 BEST:CK01205 was sequence comparison ( date:030820 ).

          (FlyBase, 1996-)
          Other Comments

          dsRNA made from templates generated with primers directed against this gene results in a change in cell proliferation.

          (Guertin et al., 2006)
          Origin and Etymology
          Discoverer
          Etymology

          Named 'Polr1E' after the human ortholog.

          (Marygold et al., 2020)
          Identification
          External Crossreferences and Linkouts ( 32 )
          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/TrEMBL - Automatically annotated and unreviewed 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
          Flygut - An atlas of the Drosophila adult midgut
          GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
          iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
          InterPro - A database of protein families, domains and functional sites
          KEGG Genes - Molecular building blocks of life in the genomic space.
          modMine - A data warehouse for the modENCODE project
          Linkouts
          DroID - A comprehensive database of gene and protein interactions.
          DRSC - Results frm RNAi screens
          FLIGHT - Cell culture data for RNAi and other high-throughput technologies
          FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
          FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
          FlyMine - An integrated database for Drosophila genomics
          KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
          MIST (protein-protein) - An integrated Molecular Interaction Database
          Synonyms and Secondary IDs (6)
          Datasets (0)
          Study focus (0)
          Experimental Role
          Project
          Project Type
          Title
          References (30)