FlyBase Gene Report: Dmel\salt

General Information

Symbol

Dmel\salt

Species

D. melanogaster

Name

salty dog

Annotation Symbol

CG2196

Feature Type

protein_coding_gene

FlyBase ID

FBgn0039872

Gene Model Status

Current

Stock Availability

4 publicly available

Gene Summary

salty dog (salt) encodes a sodium/solute symporter in the SLC5 family involved in response to salt stress. [Date last reviewed: 2019-03-21] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

100D2-100D2

Sequence location

3R:31,751,825..31,754,705 [-]

Recombination map

3-102

RefSeq locus

NT_033777 REGION:31751825..31754705

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 (6 terms)

Molecular Function (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

enables symporter activity

inferred from biological aspect of ancestor with PANTHER:PTN000213468

(GO Reference Genome Project, 2011-)

enables transmembrane transporter activity

inferred from electronic annotation with InterPro:IPR001734

(InterPro Project Members, 2004-)

Biological Process (2 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in sodium ion transport

inferred from biological aspect of ancestor with PANTHER:PTN000213468

(GO Reference Genome Project, 2011-)

involved_in transmembrane transport

inferred from electronic annotation with InterPro:IPR001734

(InterPro Project Members, 2004-)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

located_in basolateral plasma membrane

inferred from direct assay

(Stergiopoulos et al., 2009)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

located_in membrane

inferred from electronic annotation with InterPro:IPR001734

(InterPro Project Members, 2004-)

Gene Group (FlyBase)

SLC5 FAMILY OF SODIUM-DEPENDENT SOLUTE TRANSPORTERS

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

salty dog (salt) encodes a sodium/solute symporter in the SLC5 family involved in response to salt stress. [Date last reviewed: 2019-03-21]

Gene Group (FlyBase)

SLC5 FAMILY OF SODIUM-DEPENDENT SOLUTE TRANSPORTERS -: Solute carrier family 5 (SLC5) members are sodium:solute symporters. The SLC5 family is most widely known for the import of glucose across the plasma membrane, but members of this group have been shown to transport a variety of solutes such as sugars, vitamins and choline. (Adapted from FBrf0214274, PMID:32810346 and PMID:32767111).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\salt 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 Q9V9U2)

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 5.49

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

salt-RB

FBtr0300915

NM_143632

2114

622

salt-RC

FBtr0339190

NM_001300697

2111

621

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

salt-PB

FBpp0290137

68.2

622

7.27

FBpp0308328

68.1

621

6.95

A0A0B4LHY2

NP_001287626

AHN57625

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

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\salt using the Feature Mapper tool.

External Data

Crossreferences

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

salt_1

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).

0.50

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult main segment of Malpighian tubule

(Stergiopoulos et al., 2009)

Malpighian tubule Type I cell

(Stergiopoulos et al., 2009)

RT-PCR

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult Malpighian tubule

(Stergiopoulos et al., 2009)

Additional Descriptive Data

salt expression is observedby in situ hybridiation in the principle cells ( but not the stellate cells) along the length of the tubule but particularly in the main segment. No staining is seen in the initial segment.

(Stergiopoulos et al., 2009)

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

located_in basolateral plasma membrane

inferred from direct assay

(Stergiopoulos et al., 2009)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\salt in JBrowse

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

View exonic expression by developmental stage for Dmel\salt

View exonic expression by tissue for Dmel\salt

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

43742/tissue=All

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

FBgn0039872

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0039872

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

FBgn0039872

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

CG2196

Flygut - An atlas of the Drosophila adult midgut

FBgn0039872

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 ( 7 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of salt

Transgenic constructs containing regulatory region of salt

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3R)Exel6220

(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.

Lethality

Allele

viable, with Scer\GAL4^Mef2.PR

salt^GD12732

viable, with Scer\GAL4^pnr-MD237

salt^GD12732

viable, with Scer\GAL4^tin.CΔ4

salt^GD12732

Other Phenotypes

Allele

abnormal stress response, with Scer\GAL4^c42

salt^RNAi.WIZ.UAS

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) (12)

Hsap\SLC5A5

8 of 14

Yes

Hsap\SLC5A8

8 of 14

Yes

Hsap\SLC5A12

8 of 14

Yes

6 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

2 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) (13)

Rnor\Slc5a5

8 of 14

Yes

Rnor\Slc5a8

8 of 14

Yes

Rnor\Slc5a12

8 of 14

Yes

5 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

2 of 14

2 of 14

2 of 14

2 of 14

Mus musculus (laboratory mouse) (14)

Mmus\Slc5a5

8 of 14

Yes

Mmus\Slc5a8

8 of 14

Yes

7 of 14

6 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

Yes

Mmus\Slc5a10

3 of 14

Mmus\Slc5a11

3 of 14

Mmus\Slc5a7

2 of 14

Xenopus tropicalis (Western clawed frog) (11)

Xtro\LOC100488353

6 of 13

Yes

Xtro\slc5a5

6 of 13

Yes

Xtro\slc5a8.1

6 of 13

Yes

Xtro\slc5a12

6 of 13

Yes

3 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Xtro\sgms1

1 of 13

Xtro\slc5a7

1 of 13

Danio rerio (Zebrafish) (14)

Drer\slc5a5

7 of 14

Yes

Drer\slc5a6a

7 of 14

Yes

Drer\slc5a8

7 of 14

Yes

Drer\slc5a8l

7 of 14

Yes

Drer\slc5a12

7 of 14

Yes

5 of 14

3 of 14

3 of 14

3 of 14

3 of 14

3 of 14

2 of 14

2 of 14

2 of 14

Caenorhabditis elegans (Nematode, roundworm) (3)

Cele\ZK822.5

7 of 14

Yes

Cele\F52H2.4

6 of 14

Cele\cho-1

2 of 14

Anopheles gambiae (African malaria mosquito) (18)

Agam\AgaP_AGAP002622

12 of 12

Yes

6 of 12

6 of 12

6 of 12

6 of 12

6 of 12

6 of 12

6 of 12

Yes

Agam\AgaP_AGAP008387

6 of 12

Yes

6 of 12

6 of 12

5 of 12

5 of 12

4 of 12

4 of 12

3 of 12

3 of 12

Yes

Agam\AgaP_AGAP002366

2 of 12

Arabidopsis thaliana (thale-cress) (1)

Atha\DUR3

2 of 13

Yes

Saccharomyces cerevisiae (Brewer's yeast) (1)

Scer\DUR3

5 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (3)

Spom\SPAC869.03c

4 of 12

Yes

Spom\SPBC23G7.13c

4 of 12

Yes

Spom\SPBPB8B6.02c

4 of 12

Yes

Escherichia coli (enterobacterium) (4)

Ecol\putP

6 of 11

Yes

Ecol\panF

4 of 11

Yes

Ecol\yidK

3 of 11

Ecol\actP

2 of 11

Yes

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:salt. 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) (15)

11 of 13

11 of 13

10 of 13

10 of 13

10 of 13

10 of 13

10 of 13

10 of 13

10 of 13

10 of 13

10 of 13

9 of 13

7 of 13

ChT

3 of 13

CG34337

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

high-salt diet, locomotor and cardiac dysfunction

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

SLC5A5; solute carrier family 5 member 5

model of thyroid dyshormonogenesis 1

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?

SLC5A5; solute carrier family 5 member 5

8 of 14

601843

THYROID DYSHORMONOGENESIS 1; TDH1

thyroid dyshormonogenesis 1

SLC5A8; solute carrier family 5 member 8

8 of 14

608044

SLC5A12; solute carrier family 5 member 12

8 of 14

612455

SLC5A6; solute carrier family 5 member 6

6 of 14

604024

SLC5A1; solute carrier family 5 member 1

3 of 14

182380

GLUCOSE/GALACTOSE MALABSORPTION; GGM

SLC5A2; solute carrier family 5 member 2

3 of 14

182381

RENAL GLUCOSURIA; GLYS

renal glycosuria

SLC5A3; solute carrier family 5 member 3

3 of 14

600444

SLC5A4; solute carrier family 5 member 4

3 of 14

618633

SLC5A7; solute carrier family 5 member 7

3 of 14

608761

SLC5A9; solute carrier family 5 member 9

3 of 14

620216

SLC5A10; solute carrier family 5 member 10

3 of 14

618636

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.

FBgn0039872

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

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

Thyroxine biosynthesis

External Data

Linkouts

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

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-102

Cytogenetic map

100D2-100D2

Sequence location

3R:31,751,825..31,754,705 [-]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

100D2-100D2

Limits computationally determined from genome sequence between P{EP}pygo^EP1076 and P{PZ}ttk⁰²⁶⁶⁷&P{lacW}ttk^j6C7

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-102

(FlyBase, 2016)

3-99.1

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (4)

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

Bloomington

58888

w^*; TI{TI}mir-1014^KO salt^mir-1014-KO

NIG-Fly

HMJ22216

y¹ v¹; P{TRiP.HMJ22216}attP40/CyO

VDRC

v108782

P{KK113232}VIE-260B

v28349

w¹¹¹⁸; P{GD12732}v28349/TM3

Genomic Clones (13)

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

cDNA Clones (3)

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

GH19680

Other clones

FI19428

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.

FBgn0039872

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

LP15253

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0039872

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

One of the introns of CG2196 has the sequence and structural characteristics of a "mirtron"- mirtrons are encoded as an intron of another gene which accumulate as a lariats after splicing and require debranching enzyme for conversion into a functional miRNA. The mirtron encoded by the CG2196 intron is mir-1014.

(Ruby et al., 2007)

Nomenclature History

Source for database identify of

Source for identity of: salt CG2196

(Stergiopoulos et al., 2009)

Nomenclature comments

Etymology

The gene has been named "salty dog" based on its role as a determinant of survival upon salt stress.

(Stergiopoulos et al., 2009)

Synonyms and Secondary IDs (6)

Reported As

Symbol Synonym

CG2196

(National Institute of Genetics Fly Stocks, 2023-, Sitnik et al., 2016, Hosono et al., 2015, Dus et al., 2013, Japanese National Institute of Genetics, 2012.5.21, Bauer et al., 2010, Fernández-Ayala et al., 2010, Keleman et al., 2009.8.5, Stergiopoulos et al., 2009, Ruby et al., 2007, Wang et al., 2004)

dSLC5A7

(Dus et al., 2013)

salt

(Ceder and Fredriksson, 2022, Ding et al., 2022, Wen et al., 2021, Wang and Spradling, 2020, Wen et al., 2020, Chen et al., 2014, Stergiopoulos et al., 2009)

Name Synonyms

Salt

(Anthoney et al., 2023)

salty

(Dus et al., 2013)

salty dog

(Stergiopoulos et al., 2009)

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 ( 38 )

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.

43742

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.

Q9V9U2

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.

Q9V9U2

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

43742/tissue=All

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

FBgn0039872

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

FBgn0039872

FlyMine - An integrated database for Drosophila genomics

FBgn0039872

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

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

dme:Dmel_CG2196

MARRVEL_MODEL - MARRVEL (model organism gene)

43742

Linkouts

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

FBgn0039872

DroID - A comprehensive database of gene and protein interactions.

FBgn0039872

DRSC - Results frm RNAi screens

FBgn0039872

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

salt_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0039872

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0039872

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

CG2196

Flygut - An atlas of the Drosophila adult midgut

FBgn0039872

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

FBgn0039872

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.

Thyroxine biosynthesis

References (38)

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

0.50

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