FB2019_05, released Oct 15, 2019

Gene: Dmel\MED1

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General Information
Symbol
Dmel\MED1
Species
D. melanogaster
Name
Mediator complex subunit 1
Annotation Symbol
CG7162
Feature Type
protein_coding_gene
FlyBase ID
FBgn0037109
Gene Model Status
Current
Stock Availability
7 publicly available
Gene Snapshot
In progress.Contributions welcome.
Other Summaries
Also Known As
Trap220, dTRAP220
Key Links
Genomic Location
Cytogenetic map
78E1-78E1
Sequence location
3L:21,628,325..21,634,446 [-]
Recombination map
3-47
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 Group (FlyBase)
Protein Family (UniProt)
Belongs to the Mediator complex subunit 1 family. (Q9VP05)
Protein Signatures (InterPro)
Molecular Function (GO)
[Detailed GO annotations]
Experimental Evidence
transcription coregulator activity
Predictions / Assertions
transcription coregulator activity
Summaries
Gene Group (FlyBase)
MEDIATOR COMPLEX -
The Mediator (MED) complex serves as a hub for transcriptional signaling events. MED bridges transcriptional activators and repressors. This large multi-protein complex has a central core conserved from yeast to humans. The core is composed of three modules: head, middle, and tail. A separate module, the Cdk8 kinase module, composed of Cdk8, CycC, kto and skd, serves as a regulator. (Adapted from FBrf0226415 and FBrf0191850).
Protein Function (UniProtKB)
Component of the Mediator complex, a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. Mediator is recruited to promoters by direct interactions with regulatory proteins and serves as a scaffold for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors (By similarity). Required for activated transcription of the MtnA, MtnB and MtnD genes.
(UniProt, Q9VP05)
Gene Model and Products
Number of Transcripts
3
Number of Unique Polypeptides
3

Please see the GBrowse view of Dmel\MED1 or the JBrowse view of Dmel\MED1 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
Low-frequency RNA-Seq exon junction(s) not annotated.
Multiphase exon postulated: exon reading frame differs in alternative transcripts; overlap >20aa.
Gene model reviewed during 5.46
Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
MED1-RA
FBtr0078464
NM_141084
4962
1475
MED1-RB
FBtr0302592
NM_001202224
4185
1080
MED1-RC
FBtr0333972
NM_001275254
4957
1141
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
MED1-PA
FBpp0078118
149.5
1475
9.89
NP_649341
AAF51757
MED1-PB
FBpp0291748
111.5
1080
9.68
NP_001189153
ADV37589
MED1-PC
FBpp0306092
116.8
1141
9.54
NP_001262183
AGB94876
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Subunit Structure (UniProtKB)
Component of the Mediator complex.
(UniProt, Q9VP05)
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\MED1 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 (8 terms)
Molecular Function (1 term)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
transcription coregulator activity
inferred from mutant phenotype
(assigned by UniProt )
(Marr et al., 2006)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
transcription coregulator activity
inferred from sequence or structural similarity with UniProtKB:Q15648
(Boube et al., 2000)
inferred from biological aspect of ancestor with PANTHER:PTN000984212
(assigned by GO_Central )
(Gaudet et al., 2011)
Biological Process (5 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
positive regulation of gene expression
inferred from mutant phenotype
(Immarigeon et al., 2019)
positive regulation of transcription, DNA-templated
inferred from genetic interaction with FLYBASE:ac; FB:FBgn0000022, FLYBASE:pnr; FB:FBgn0003117, FLYBASE:da; FB:FBgn0267821
(Immarigeon et al., 2019)
transcription by RNA polymerase II
inferred from mutant phenotype
(assigned by UniProt )
(Marr et al., 2006)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
regulation of transcription by RNA polymerase II
inferred from electronic annotation with InterPro:IPR019680
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
transcription initiation from RNA polymerase II promoter
inferred from sequence or structural similarity with UniProtKB:Q15648
(Boube et al., 2000)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
mediator complex
inferred from mutant phenotype
(Kim et al., 2004)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
mediator complex
inferred from sequence or structural similarity with UniProtKB:Q15648
(Boube et al., 2000)
inferred by curator from GO:0006366
(assigned by UniProt )
(Marr et al., 2006)
inferred from biological aspect of ancestor with PANTHER:PTN000984212
(assigned by GO_Central )
(Gaudet et al., 2011)
nucleus
inferred by curator from GO:0016592
(Kim et al., 2004)
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 9 -- 10
organism | faint | ubiquitous
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 11 -- 12
organism | faint | ubiquitous
(Fisher et al., 2012)
organism | ubiquitous
(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
mediator complex
inferred from mutant phenotype
(Kim et al., 2004)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\MED1 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
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 4 )
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 MED1
Transgenic constructs containing regulatory region of MED1
Deletions and Duplications ( 1 )
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v7.1)
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\MED1
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
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Med1
12 of 15
Yes
Yes
Rattus norvegicus (Norway rat) (1)
Rnor\Med1
8 of 13
Yes
Yes
Xenopus tropicalis (Western clawed frog) (2)
Xtro\med1
5 of 12
Yes
Yes
Xtro\med1
4 of 12
No
Yes
Danio rerio (Zebrafish) (2)
Drer\zgc:111976
9 of 15
Yes
Yes
Drer\med1
2 of 15
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (0)
No records found.
Arabidopsis thaliana (thale-cress) (0)
No records found.
Saccharomyces cerevisiae (Brewer's yeast) (0)
No records found.
Schizosaccharomyces pombe (Fission yeast) (0)
No records found.
Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG091902B1 )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila melanogaster
fruit fly
Dmel\MED1
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00009064
Drosophila simulans
Dsim\GD12100
Drosophila sechellia
Dsec\GM22122
Drosophila erecta
Dere\GG13216
Drosophila yakuba
Dyak\GE28030
Drosophila yakuba
Dyak\GE22307
Drosophila ananassae
Dana\GF10696
Drosophila pseudoobscura pseudoobscura
Dpse\GA20146
Drosophila persimilis
Dper\GL25285
Drosophila willistoni
Dwil\GK17134
Drosophila virilis
Dvir\GJ14097
Drosophila virilis
Dvir\GJ11229
Drosophila mojavensis
Dmoj\GI13753
Drosophila mojavensis
Dmoj\GI11550
Drosophila grimshawi
Dgri\GH16358
Drosophila grimshawi
Dgri\GH15103
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091502CP )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17021688
Glossina morsitans
Tsetse fly
Gmor\GMOY001003
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_07476
Mayetiola destructor
Hessian fly
Mdes\Mdes010085
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL007402
Anopheles darlingi
American malaria mosquito
Adar\ADAC001263
Anopheles gambiae
Malaria mosquito
Agam\AGAP012219
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ007960
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W025M )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA005423
Danaus plexippus
Monarch butterfly
Dple\DPOGS206472-PA
Heliconius melpomene
Postman butterfly
Hmel\HMEL011937
Apis florea
Little honeybee
Aflo\2733715940
Apis mellifera
Western honey bee
Amel\GB49844
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP24160
Bombus terrestris
Buff-tailed bumblebee
Bter\15206874
Linepithema humile
Argentine ant
Lhum\LH18035
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:000f59
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG010660
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_12101
Tribolium castaneum
Red flour beetle
Tcas\TC006213
Pediculus humanus
Human body louse
Phum\PHUM614070
Rhodnius prolixus
Kissing bug
Rpro\RPRC003484
Cimex lectularius
Bed bug
Clec\CLEC002157
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI005418
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_01281
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X022X )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR010015
Ixodes scapularis
Black-legged tick
Isca\ISCW016607
Stegodyphus mimosarum
African social velvet spider
Smim\KFM64337.1
Stegodyphus mimosarum
African social velvet spider
Smim\KFM64339.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur26g02120
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_222125
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G035E )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Med1
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000021447
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000018867
Gallus gallus
Domestic chicken
Ggal\MED1
Gallus gallus
Domestic chicken
Ggal\ENSGALG00000012309
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v7.1)
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
    Comments on Models/Modifiers Based on Experimental Evidence ( 0 )
     
    Disease Associations of Human Orthologs (via DIOPT v7.1 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?
    MED1; mediator complex subunit 1
    13 of 15
    604311
        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)
        Component of the Mediator complex.
        (UniProt, Q9VP05 )
        Linkouts
        BioGRID - A database of protein and genetic interactions.
        DroID - A comprehensive database of gene and protein interactions.
        InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
        MIST (protein-protein) - An integrated Molecular Interaction Database
        Pathways
        Gene Group - Pathway Membership (FlyBase)
        External Data
        Linkouts
        Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
        Genomic Location and Detailed Mapping Data
        Chromosome (arm)
        3L
        Recombination map
        3-47
        Cytogenetic map
        78E1-78E1
        Sequence location
        3L:21,628,325..21,634,446 [-]
        FlyBase Computed Cytological Location
        Cytogenetic map
        Evidence for location
        78E1-78E1
        Limits computationally determined from genome sequence between P{lacW}l(3)j1B10j1B10 and P{lacW}l(3)j2C4j2C4
        Experimentally Determined Cytological Location
        Cytogenetic map
        Notes
        References
        78E5-78E6
        (Southworth, 2000.7.26)
        Experimentally Determined Recombination Data
        Location
        3-47
        (FlyBase, 2016)
        3-43.9
        (Comeron et al., 2012)
        Left of (cM)
        Right of (cM)
        Notes
        Stocks and Reagents
        Stocks (7)
        Genomic Clones (22)
        cDNA Clones (90)
         

        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
        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
         
        polyclonal
        (Pherson et al., 2019)
        Commercially Available Antibodies
         
        Other Information
        Relationship to Other Genes
        Source for database identify of
        Source for identity of: MED1 Trap220
        (Bourbon et al., 2004)
        Source for identity of: Trap220 CG7162
        (FlyBase, 1996-)
        Source for database merge of
        Additional comments
        Source for identity of Trap220 CG7162 was sequence comparison ( date:000915 ).
        (FlyBase, 1996-)
        Other Comments
        dsRNA has been made from templates generated with primers directed against this gene.
        (Marr et al., 2006)
        Origin and Etymology
        Discoverer
        Etymology
        Identification
        External Crossreferences and Linkouts ( 41 )
        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
        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
        Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.
        Linkouts
        BioGRID - A database of protein and genetic interactions.
        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
        FlyMine - An integrated database for Drosophila genomics
        InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
        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 (9)
        Datasets (0)
        Study focus (0)
        Experimental Role
        Project
        Project Type
        Title
        References (50)