FlyBase Gene Report: Dmel\CG42514

General Information

Symbol

Dmel\CG42514

Species

D. melanogaster

Name

Annotation Symbol

CG42514

Feature Type

protein_coding_gene

FlyBase ID

FBgn0260388

Gene Model Status

Current

Stock Availability

5 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

73A3-73A3

Sequence location

3L:16,491,838..16,496,236 [-]

Recombination map

3-44

RefSeq locus

NT_037436 REGION:16491838..16496236

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 (4 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 transmembrane transporter activity

inferred from electronic annotation with InterPro:IPR011701

(InterPro Project Members, 2004-)

inferred from biological aspect of ancestor with PANTHER:PTN000548153

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity with UniProtKB:Q96NT5

(Gene Ontology Curators, 2002-)

Biological Process (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in transmembrane transport

inferred from electronic annotation with InterPro:IPR011701

(InterPro Project Members, 2004-)

inferred from sequence or structural similarity with UniProtKB:Q96NT5

(Gene Ontology Curators, 2002-)

inferred from biological aspect of ancestor with PANTHER:PTN000548153

(GO Reference Genome Project, 2011-)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

is_active_in membrane

inferred from biological aspect of ancestor with PANTHER:PTN000548153

(GO Reference Genome Project, 2011-)

located_in plasma membrane

inferred from sequence or structural similarity with UniProtKB:Q96NT5

(Gene Ontology Curators, 2002-)

Gene Group (FlyBase)

SLC46 FOLATE TRANSPORTER-LIKE FAMILY

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

SLC46 FOLATE TRANSPORTER-LIKE FAMILY -: Solute carrier family 46 (SLC46) members are involved in the transmembrane transport of organic molecules (e.g. folate and peptidoglycan fragments), but the substrate-specificity of this family is not fully elucidated. (Adapted from FBrf0221568 and FBrf0235896.)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\CG42514 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 Q0E8E1)

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

Gene model reviewed during 5.45

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

CG42514-RA

FBtr0300655

NM_168668

2150

533

CG42514-RB

FBtr0300656

NM_168669

2064

533

CG42514-RC

FBtr0300657

NM_140642

2087

531

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

CG42514-PA

FBpp0289879

60.1

533

8.76

FBpp0289880

60.1

533

8.76

FBpp0289881

60.0

531

8.76

Q9I7R2

NP_648899

AAG22318

Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

533 aa isoforms: CG42514-PA, CG42514-PB

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\CG42514 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

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).

-0.80

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 11 -- 12

embryonic central brain neuron

(Fisher et al., 2012)

embryonic stage 13 -- 16

embryonic brain

(Fisher et al., 2012)

embryonic dorsal epidermis

(Fisher et al., 2012)

larval nervous system

(Fisher et al., 2012)

larval ventral nerve cord

(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\CG42514 in JBrowse

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

View exonic expression by developmental stage for Dmel\CG42514

View exonic expression by tissue for Dmel\CG42514

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

FBgn0260388

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

8674108/tissue=All

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

FBgn0260388

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

FBgn0260388

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

CG32158

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 5 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 1 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of CG42514

Transgenic constructs containing regulatory region of CG42514

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 6 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

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

Lethality

Allele

viable

CG42514^e01330

viable, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

CG42514^GD3595

viable, with Scer\GAL4^Mef2.PR

CG42514^GD3595

viable, with Scer\GAL4^pnr-MD237

CG42514^GD3595

viable, with Scer\GAL4^tin.CΔ4

CG42514^GD3595

Sterility

Allele

fertile

CG42514^e01330

Other Phenotypes

Allele

abnormal flight, with Scer\GAL4^Mef2.PR

CG42514^GD3595

short lived | heat sensitive, with Scer\GAL4^tin.CΔ4

CG42514^GD3595

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) (10)

Hsap\SLC46A1

8 of 14

Yes

Hsap\SLC46A3

8 of 14

Yes

Hsap\SLC46A2

5 of 14

Yes

3 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (11)

Rnor\Slc46a3

9 of 14

Yes

Rnor\Slc46a1

8 of 14

Rnor\Slc46a2

7 of 14

Yes

3 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (10)

Mmus\Slc46a1

9 of 14

Yes

Mmus\Slc46a3

9 of 14

Yes

Mmus\Slc46a2

6 of 14

Yes

3 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (15)

Xtro\LOC100487203

6 of 13

Yes

Xtro\LOC100487354

6 of 13

Yes

Xtro\slc46a3

6 of 13

Yes

Xtro\slc46a2

5 of 13

Yes

3 of 13

3 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Danio rerio (Zebrafish) (17)

Drer\zgc:174356

10 of 14

Yes

8 of 14

8 of 14

8 of 14

5 of 14

Yes

Drer\si:ch211-262i1.4

5 of 14

Yes

3 of 14

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (11)

Cele\slc-46A

8 of 14

Yes

Cele\slcr-46.1

8 of 14

Yes

Cele\slcr-46.2

8 of 14

Yes

7 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (9)

Agam\AgaP_AGAP003000

12 of 12

Yes

6 of 12

6 of 12

6 of 12

6 of 12

4 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (6)

Atha\AT2G16980

2 of 13

Yes

Atha\AT2G16990

2 of 13

Yes

Atha\AT5G42210

2 of 13

Yes

Atha\MEE15

2 of 13

Yes

Atha\ZIFL1

1 of 13

Atha\ZIFL2

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (1)

Scer\YJL163C

8 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (2)

Spom\SPAC14C4.07

5 of 12

Yes

Spom\gms1

1 of 12

Escherichia coli (enterobacterium) (1)

Ecol\mdtG

1 of 11

Yes

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:CG42514. 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) (13)

11 of 13

11 of 13

11 of 13

10 of 13

10 of 13

8 of 13

8 of 13

2 of 13

2 of 13

2 of 13

2 of 13

1 of 13

1 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 ( 1 )

Human Ortholog

Disease

Evidence

References

SLC46A1; solute carrier family 46 member 1

model of hereditary folate malabsorption

IEA

(FlyBase, 2019-)

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?

SLC46A1; solute carrier family 46 member 1

8 of 14

611672

FOLATE MALABSORPTION, HEREDITARY

hereditary folate malabsorption

SLC46A3; solute carrier family 46 member 3

8 of 14

616764

SLC46A2; solute carrier family 46 member 2

5 of 14

608956

MFSD14B; major facilitator superfamily domain containing 14B

3 of 14

620348

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

Other Interaction Browsers

Summary of Genetic Interactions

esyN Network Diagram

Other Interaction Browsers

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.

FBgn0260388

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

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

Metabolism of folate and pterines

External Data

Linkouts

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

Class of Gene

nuclear_gene

(FlyBase, 1992-)

protein_coding_gene

(FlyBase, 1992-)

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-44

Cytogenetic map

73A3-73A3

Sequence location

3L:16,491,838..16,496,236 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

73A3-73A3

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-44

(FlyBase, 2016)

3-39.0

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (5)

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

Bloomington

13384

y¹ w^67c23; P{SUPor-P}CG42514^KG00167 ry⁵⁰⁶

17944

w¹¹¹⁸; PBac{RB}st^e01330 CG43373^e01330 CG42514^e01330

59501

y¹ w^*; Mi{MIC}CG33158^MI14337 CG42514^MI14337 CG43373^MI14337/TM3, Sb¹ Ser¹

VDRC

v45641

w¹¹¹⁸; P{GD3595}v45641

v45643

w¹¹¹⁸; P{GD3595}v45643

Genomic Clones (26)

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

cDNA Clones (121)

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

SD10674

Other clones

GH08173

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.

FBgn0260388

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0260388

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

dsRNA made from templates generated with primers directed against this gene tested in RNAi screen for effects on Kc167 and S2R[+] cell morphology.

(Kiger et al., 2003)

Relationship to Other Genes

Source for database merge of

Source for merge of: CG12243 CG4526

(FlyBase Genome Annotators, 2002-2003)

Source for merge of: CG32158 anon-WO0257455.11 anon-WO0118547.377

(FlyBase, 1996-)

Additional comments

Annotation CG32158 split into CG42513 and CG42514 in release 5.14 of the genome annotation.

(FlyBase Genome Annotators, 2008)

Annotations CG12243, CG4526 merged as CG32158 in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Area matching Drosophila EST AA141908. This EST forms a 794bp contig with EST AA802528.

(Davies, 2001.3.15)

Source for merge of CG32158 anon-WO0257455.11 anon-WO0118547.377 was sequence comparison ( date:051113 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Nomenclature comments

Etymology

Synonyms and Secondary IDs (4)

Reported As

Symbol Synonym

(Morrison et al., 2000)

CG32158

(Aradska et al., 2015, Southall and Brand, 2009, FlyBase Genome Annotators, 2008, Ueno and Kidokoro, 2008, Gene Disruption Project members and Exelixis, 2005, Bloomington Drosophila Stock Center, 2004.11.6, Kiger et al., 2003, FlyBase Genome Annotators, 2002-2003, FlyBase, 1996-)

CG42514

(Denecke et al., 2020, Paik et al., 2017, Naganos et al., 2016)

CG4526

(Gene Disruption Project members, 2001-)

Name Synonyms

Secondary FlyBase IDs

FBan0032158
FBgn0052158
FBgn0036635
FBgn0062056
FBgn0063802

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 65 )

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.

8674108

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.

Q0E8E1

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.

Q0E8E1

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0260388

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

8674108/tissue=All

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

FBgn0260388

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

FBgn0260388

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

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

dme:Dmel_CG42514

MARRVEL_MODEL - MARRVEL (model organism gene)

8674108

Linkouts

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

FBgn0260388

DroID - A comprehensive database of gene and protein interactions.

FBgn0260388

DRSC - Results frm RNAi screens

FBgn0260388

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0260388

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

CG32158

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

FBgn0260388

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

TC006261

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

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

Metabolism of folate and pterines

References (34)

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

-0.80

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