FlyBase Gene Report: Dmel\CG18787

General Information

Symbol

Dmel\CG18787

Species

D. melanogaster

Name

Annotation Symbol

CG18787

Feature Type

protein_coding_gene

FlyBase ID

FBgn0042125

Gene Model Status

Current

Stock Availability

3 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

33B5-33B5

Sequence location

2L:11,997,900..11,999,340 [-]

Recombination map

2-45

RefSeq locus

NT_033779 REGION:11997900..11999340

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

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

Function

Gene Ontology (GO) Annotations (1 term)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables metal ion binding

inferred from electronic annotation with InterPro:IPR000571

(InterPro Project Members, 2004-)

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 (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\CG18787 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 Q9I7N2)

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

Mutation in sequenced strain: premature stop (nonsense mutation). Within a tandem duplication; copy of CG18789.

Gene model reviewed during 5.43

Gene model reviewed during 5.51

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

CG18787-RB

FBtr0321267

NM_144407

1386

398

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

CG18787-PB

FBpp0302819

44.3

398

6.76

Q9I7N2

NP_652664

AAG22428

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

Nucleotide / Polypeptide Records

UniProt

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\CG18787 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).

0.14

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

(Fisher et al., 2012)

embryonic stage 7 -- 8

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | faint | ubiquitous

(Fisher et al., 2012)

embryonic stage 13 -- 16

embryonic/larval midgut

(Fisher et al., 2012)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

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\CG18787 in JBrowse

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

View exonic expression by developmental stage for Dmel\CG18787

View exonic expression by tissue for Dmel\CG18787

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

FBgn0042125

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

59163/tissue=All

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

FBgn0042125

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0042125

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

FBgn0042125

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

CG18787

Flygut - An atlas of the Drosophila adult midgut

FBgn0042125

Images

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 ( 3 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of CG18787

Transgenic constructs containing regulatory region of CG18787

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(2L)Exel6031

(Ryder, 2004.4.26)

Inferred from location ( 0 )

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) (1)

Hsap\NUP42

7 of 14

Yes

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (1)

Rnor\Nupl2

7 of 14

Yes

Mus musculus (laboratory mouse) (1)

Mmus\Nupl2

6 of 14

Yes

Xenopus tropicalis (Western clawed frog) (2)

Xtro\nup42

5 of 13

Yes

Xtro\rarg

1 of 13

Danio rerio (Zebrafish) (1)

Drer\nup42

7 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (0)

Anopheles gambiae (African malaria mosquito) (1)

Agam\AgaP_AGAP009989

11 of 12

Yes

Arabidopsis thaliana (thale-cress) (1)

Atha\AT1G75340

1 of 13

Yes

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (1)

Spom\amo1

6 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:CG18787. 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) (1)

CG18789

11 of 13

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?

NUP42; nucleoporin 42

7 of 14

619998

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

Show neighbor-neighbor interactions:

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Show/hide secondary interactors
(data from AllianceMine provided by esyN)

Select Layout:

Force Directed

Circle

Concentric

Legend:

Protein

RNA

Selected Interactor(s)

Interactions Browser

View in Interactions Browser

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

CG18787 - Arc1

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Art8

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - BthD

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - CG11777

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - CG14036

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - CG1532

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - CG18081

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - CG18789

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - CG6171

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - CG7049

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Ccs

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Df31

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Doc2

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Gmppb

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Got1

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Hpf1

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Hsf

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Pp1-13C

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Rae1

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - RpS12

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - RpS21

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Taf5

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Treh

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Trx2

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - Wdr82

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - sob

experimental knowledge based

(Guruharsha et al., 2011)

CG18787 - sw

experimental knowledge based

(Guruharsha et al., 2011)

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

BioGRID - A database of protein and genetic interactions.

72823

DroID - A comprehensive database of gene and protein interactions.

FBgn0042125

MIST (protein-protein) - An integrated Molecular Interaction Database

59163

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Nucleocytoplasmic transport

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-45

Cytogenetic map

33B5-33B5

Sequence location

2L:11,997,900..11,999,340 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

33B5-33B5

Limits computationally determined from genome sequence between P{EP}MESK1^EP980 and P{PZ}l(2)01810⁰¹⁸¹⁰&P{EP}CG6785^EP340

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

2-45

(FlyBase, 2016)

2-39.0

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (3)

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

Bloomington

55375

y¹ sc^* v¹ sev²¹; P{TRiP.HMC04063}attP40

55663

y¹ sc^* v¹ sev²¹; P{TRiP.HMC03818}attP40

VDRC

v109955

P{KK114852}VIE-260B

Genomic Clones (11)

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

cDNA Clones (17)

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

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.

FBgn0042125

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

FGH120E03

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0042125

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Relationship to Other Genes

Source for database merge of

Additional comments

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (1)

Reported As

Symbol Synonym

CG18787

(McQuarrie et al., 2023, Seong et al., 2017, Shanshan and Laixin, 2015, Kwon et al., 2013, Chen et al., 2012, Jungreis, 2011.11.18, White et al., 2011, Ni et al., 2010.12.1, Rogers et al., 2010, Zhang et al., 2010, Keleman et al., 2009.8.5, Akdemir et al., 2007, Juhász et al., 2007)

Name Synonyms

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 49 )

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.

59163

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/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.

Q9I7N2

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

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.

Q9I7N2

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0042125

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

59163/tissue=All

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

FBgn0042125

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

FBgn0042125

FlyMine - An integrated database for Drosophila genomics

FBgn0042125

InterPro - A database of protein families, domains and functional sites

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

dme:Dmel_CG18787

MARRVEL_MODEL - MARRVEL (model organism gene)

59163

Linkouts

BioGRID - A database of protein and genetic interactions.

72823

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

FBgn0042125

DroID - A comprehensive database of gene and protein interactions.

FBgn0042125

DRSC - Results frm RNAi screens

FBgn0042125

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0042125

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0042125

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

CG18787

Flygut - An atlas of the Drosophila adult midgut

FBgn0042125

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0042125

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC006819

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Nucleocytoplasmic transport

MIST (protein-protein) - An integrated Molecular Interaction Database

59163

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

References (32)

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

0.14

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