FlyBase Gene Report: Dmel\CG33941

General Information

Symbol

Dmel\CG33941

Species

D. melanogaster

Name

Annotation Symbol

CG33941

Feature Type

protein_coding_gene

FlyBase ID

FBgn0262731

Gene Model Status

Current

Stock Availability

14 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Interactive Fly

Also Known As

pncr013:4 , MRE3, mRNA-like ncRNA in embryogenesis 3, putative noncoding RNA 013:4

Key Links

Genomic Location

Cytogenetic map

102C1-102C1

Sequence location

4:467,497..471,476 [+]

Recombination map

4-0

RefSeq locus

NC_004353 REGION:467497..471476

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse JBrowse2 (beta)

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

NCBI

UCSC

Ensembl

Function

Gene Ontology (GO) Annotations (0 terms)

Molecular Function (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Gene Group / Complex (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\CG33941 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

Structure

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry A0A1L4A1Q7)

If you don't see a structure in the viewer, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Supported by RNA-Seq data.

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

Gene model reviewed during 5.46

Possible mutation in the sequenced strain, resulting in aberrantly spliced transcripts.

CDS supported by computational analysis based on conservation across species (FBrf0232680).

Gene model reviewed during 6.13

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

CG33941-RF

FBtr0452090

NM_001347760

1078

151

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

UniProt

RefSeq ID

GenBank

CG33941-PF

FBpp0402845

17.4

151

9.14

L7S1A0

NP_001334686

API61828

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

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

A0A1L4A1Q7

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\CG33941 using the Feature Mapper tool.

External Data

Crossreferences

Linkouts

Expression Data

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

0.51

Transcript Expression

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

JBrowse - Visual display of RNA-Seq signals

View Dmel\CG33941 in JBrowse

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\CG33941

View exonic expression by tissue for Dmel\CG33941

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

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

3772538/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0262731

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0262731

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 ( 12 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 3 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of CG33941

Transgenic constructs containing regulatory region of CG33941

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 5 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (0)

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (0)

Mus musculus (laboratory mouse) (0)

Xenopus tropicalis (Western clawed frog) (0)

Danio rerio (Zebrafish) (0)

Caenorhabditis elegans (Nematode, roundworm) (0)

Anopheles gambiae (African malaria mosquito) (1)

Agam\AgaP_AGAP008585

1 of 12

Yes

Arabidopsis thaliana (thale-cress) (0)

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:CG33941. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (0)

Human Disease Associations

FlyBase Human Disease Model Reports

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 v9.1 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?

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

Interaction Browsers

Summary of Genetic Interactions

Interaction Browsers

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

nuclear_gene

(Tupy et al., 2005)

protein_coding_gene

(FlyBase Genome Annotators, 2016, Mackowiak et al., 2015)

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

4-0

Cytogenetic map

102C1-102C1

Sequence location

4:467,497..471,476 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

102C1-102C1

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

4-0

(FlyBase, 2016)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (14)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

85105

w¹¹¹⁸; P{XP}CG33941^d09357

28591

y¹ v¹; P{TRiP.HM05079}attP2

95461

w¹¹¹⁸; PBac{RB}CG33941^e02647

61205

y¹ v¹; P{TRiP.HMJ22926}attP40

99879

y¹ w¹¹¹⁸; PBac{UAS-CG33941.HA}VK00037

99880

y¹ w¹¹¹⁸; PBac{UAS-CG33941.HA}VK00033

607324

y¹ w^*; TI{TI}FRT101F CG33941^A

607325

y¹ w^*; TI{TI}FRT101F CG33941^B

97182

y¹ w^*; TI{CRIMIC.TG4.0}CG33941^{CR70477-TG4.0}

Kyoto

119089

y¹ w¹¹¹⁸; PBac{UAS-CG33941.HA}VK00037

119090

y¹ w¹¹¹⁸; PBac{UAS-CG33941.HA}VK00033

NIG-Fly

HMJ22926

y¹ v¹; P{TRiP.HMJ22926}attP40/CyO

More stocks available...

Genomic Clones (5)

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

cDNA Clones (8)

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 JBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

Other clones

FI20862

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.

FBgn0262731

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Annotation CR33941 renamed CG33941 in release 6.13 of the genome annotation.

(FlyBase Genome Annotators, 2016)

Non-coding mRNA-like RNAs expressed during embryogenesis.

(Inagaki et al., 2007)

New annotation (CR33941) in r4.2 of the genome annotation.

(FlyBase Genome Annotators, 2005)

Annotation CG13303 was eliminated in release 3 of the genome annotation, October 2002.

(FlyBase Genome Annotators, 2002-2003)

Relationship to Other Genes

Source for database merge of

Source for merge of: CG13303 BcDNA:GM01028

(FlyBase, 1996-)

Source for merge of: pncr013:4 MRE3

(FlyBase Genome Annotators, 2011)

Additional comments

Source for merge of CG13303 BcDNA:GM01028 was a shared cDNA ( date:020730 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Source for identity of: pncr013:4 CG13303

(Tupy et al., 2005)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (9)

Reported As

Symbol Synonym

BcDNA:GM01028

CG13303

(Perkins et al., 2009, Haussmann et al., 2008, Luschnig, 2003.12.17)

CG33941

(Fourth Chromosome Resource Project and Newfeld, 2022-, Gene Disruption Project members, 2018-, FlyBase Genome Annotators, 2016)

CR33941

(Perkins et al., 2009, FlyBase Genome Annotators, 2005, Tupy, 2005.4.22)

CT32596

(Ceriani et al., 2002)

MRE3

(Inagaki et al., 2007, Kageyama, 2007.2.28, Kageyama et al., 2007, Inagaki et al., 2005)

pncr013:4

(Mackowiak et al., 2015, FlyBase Genome Annotators, 2012, Mihailovich et al., 2012, FlyBase Genome Annotators, 2011, Tupy et al., 2005)

Name Synonyms

mRNA-like ncRNA in embryogenesis 3

(Inagaki et al., 2007)

putative noncoding RNA 013:4

(Tupy et al., 2005)

Secondary FlyBase IDs

FBgn0041005
FBgn0053941
FBgn0063212
FBgn0086530

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 16 )

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.

3772538

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.

API61828

RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.

A0A1L4A1Q7

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

A0A1L4A1Q7

Other crossreferences

AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.

A0A1L4A1Q7

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

3772538/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0262731

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0262731

KEGG Genes - Molecular building blocks of life in the genomic space.

dme:Dmel_CG33941

MARRVEL_MODEL - MARRVEL (model organism gene)

3772538

Linkouts

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0262731

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

DMEL:FBGN0262731

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

References (26)

The following external sites may use different assemblies or annotations than FlyBase.

0.51

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