FB2020_06, released Dec 22, 2020

Gene: Dmel\CG45071

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General Information
Symbol
Dmel\CG45071
Species
D. melanogaster
Name
Annotation Symbol
CG45071
Feature Type
protein_coding_gene
FlyBase ID
FBgn0266441
Gene Model Status
Current
Stock Availability
10 publicly available
Gene Snapshot
Contributions welcome
Other Summaries
Key Links
Genomic Location
Cytogenetic map
Sequence location
3L:15,105,882..15,110,730 [+]
Recombination map

3-42

RefSeq locus
NT_037436 REGION:15105882..15110730
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 (5 terms)
Molecular Function (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
enables DNA binding
inferred from electronic annotation with InterPro:IPR004210
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
Biological Process (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
involved_in negative regulation of transcription by RNA polymerase II
inferred from direct assay
(Song et al., 2010)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
involved_in regulation of transcription by RNA polymerase II
inferred from biological aspect of ancestor with PANTHER:PTN000956409
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
located_in nucleus
inferred from direct assay
(Azzam and Liu, 2013)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
located_in nucleus
inferred from biological aspect of ancestor with PANTHER:PTN000956409
(assigned by GO_Central )
(Gaudet et al., 2011)
part_of transcription regulator complex
inferred from biological aspect of ancestor with PANTHER:PTN000956409
(assigned by GO_Central )
(Gaudet et al., 2011)
Gene Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
MADF-BESS DOMAIN TRANSCRIPTION REGULATORS -
The MADF-BESS domain transcription regulators include a variety of activators and corepressors and chromatin modifying proteins. BESS domains are often present in combination with MADF domains. The BESS domain mediates protein-protein interactions. (Adapted from FBrf0155780 and FBrf0224045).
Gene Model and Products
Number of Transcripts
2
Number of Unique Polypeptides
2

Please see the JBrowse view of Dmel\CG45071 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

Genes with CDS overlap: isoforms of CTPsyn and CG45071 share promoter, 5' UTR exons, and N-terminal coding sequences (51 residues); overlapping structure not conserved outside of Drosophila (see FBrf0220954).

Gene model reviewed during 5.54

Low-frequency RNA-Seq exon junction(s) not annotated.

Gene model reviewed during 5.56

Sequence Ontology: Class of Gene
nuclear_gene
(FlyBase Genome Annotators, 2013)
protein_coding_gene
(FlyBase Genome Annotators, 2013)
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
CG45071-RA
FBtr0344433
NM_168607
1867
429
CG45071-RB
FBtr0344434
NM_001300139
1717
379
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
CG45071-PA
FBpp0310805
47.9
429
6.06
NP_730024
AAF49667
CG45071-PB
FBpp0310806
41.9
379
5.40
NP_001287068
AHN58093
Polypeptides with Identical Sequences

None of the polypeptides share 100% sequence identity.

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\CG45071 using the Feature Mapper tool.

External Data
Crossreferences
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
dorsal ectoderm anlage

Comment: anlage in statu nascendi

(Fisher et al., 2012)
embryonic stage 11 -- 12
ventral nerve cord primordium
(Fisher et al., 2012)
embryonic stage 13 -- 16
embryonic/larval nervous system
(Fisher et al., 2012)
ventral nerve cord
(Fisher et al., 2012)
embryonic brain
(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
located_in nucleus
inferred from direct assay
(Azzam and Liu, 2013)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\CG45071 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, and Transgenic Constructs
Classical and Insertion Alleles ( 9 )
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 CG45071
Transgenic constructs containing regulatory region of CG45071
Deletions and Duplications ( 0 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
lethal | male limited, with Scer\GAL4Bx-MS1096
Other Phenotypes
Allele
visible | female limited, with Scer\GAL4Bx-MS1096
Phenotype manifest in
Allele
wing | female limited, with Scer\GAL4Bx-MS1096
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\CTPS1
1 of 15
Yes
No
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\Ctps
1 of 15
Yes
No
Rattus norvegicus (Norway rat) (0)
No records found.
Xenopus tropicalis (Western clawed frog) (0)
No records found.
Danio rerio (Zebrafish) (0)
No records found.
Caenorhabditis elegans (Nematode, roundworm) (2)
Cele\madf-4
1 of 15
Yes
No
Cele\madf-5
1 of 15
Yes
No
Arabidopsis thaliana (thale-cress) (0)
No records found.
Saccharomyces cerevisiae (Brewer's yeast) (2)
Scer\URA7
1 of 15
Yes
No
Scer\URA8
1 of 15
Yes
No
Schizosaccharomyces pombe (Fission yeast) (0)
No records found.
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG091909OF )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila sechellia
Dsec\GM25504
Drosophila erecta
Dere\GG15717
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG09150BE5 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17004646
Mayetiola destructor
Hessian fly
Mdes\Mdes000908
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL008049
Anopheles darlingi
American malaria mosquito
Adar\ADAC004589
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ011604
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W0D8U )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG018442
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) (22)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
Adf1
1 of 10
brwl
1 of 10
CG3919
1 of 10
CG4404
1 of 10
CG6163
1 of 10
CG6276
1 of 10
CG6683
1 of 10
CG7745
1 of 10
CG8119
1 of 10
CG8765
1 of 10
CG9948
1 of 10
CG10949
1 of 10
CG11504
1 of 10
CG11723
1 of 10
CG12768
1 of 10
CG42526
1 of 10
Coop
1 of 10
hng1
1 of 10
hng2
1 of 10
jigr1
1 of 10
Mes2
1 of 10
stwl
1 of 10
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?
    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
    Linkouts
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    External Data
    Linkouts
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    3L
    Recombination map

    3-42

    Cytogenetic map
    71B4-71B5
    Sequence location
    3L:15,105,882..15,110,730 [+]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    71B4-71B5
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    Experimentally Determined Recombination Data
    Location

    3-42

    (FlyBase, 2016)

    3-36.6

    (Comeron et al., 2012)
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (10)
    Genomic Clones (22)
    cDNA Clones (10)
     

    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
    Additional comments

    FlyBase curator comment: the CG6854 isoform that is referred to as "CTPsyn-RA" in FBrf0220954 has been split out into a separate gene in FlyBase (represented by the CG45071 annotation) since the paper was originally published. Isoforms referred to in the paper as "CTPsyn-RC" and "CTPsyn-RB" remain as transcripts of the CTPsyn gene in FlyBase. Thus, data from FBrf0220954 pertaining to the "CTPsyn-RA" isoform has been removed from the FlyBase entry for CTPsyn and is instead now located under the CG45071 gene.

    (Azzam and Liu, 2013)

    Annotation CG6854 split into CG45070 (corresponds to CTPsyn) and CG45071 in release 5.54 of the genome annotation. Split based on RNA-seq data and BLAST data.

    (FlyBase Genome Annotators, 2013)

    Some isoforms of CTPsyn (CG45070) and CG45071 share promoter, first exon and N-terminal coding sequences (51 residues); overlapping structure not conserved outside of Drosophila.

    (FlyBase Genome Annotators, 2013)

    The locus represented by the CG6854 annotation has a complex structure, encoding both CTPsyn and CG45071 (a transcription factor). Coding exon 5 is shared between CG45071 and the second isoform of CTPsyn, and some parts of the 5'UTR are also shared between the two loci.

    (Piergentili, 2013)
    Other Comments
    Origin and Etymology
    Discoverer
    Etymology
    Identification
    External Crossreferences and Linkouts ( 24 )
    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
    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
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Synonyms and Secondary IDs (4)
    Datasets (0)
    Study focus (0)
    Experimental Role
    Project
    Project Type
    Title
    References (25)