FlyBase Gene Report: Dmel\stg1

General Information

Symbol

Dmel\stg1

Species

D. melanogaster

Name

stargazin-like protein

Annotation Symbol

CG46498

Feature Type

protein_coding_gene

FlyBase ID

FBgn0288700

Gene Model Status

Current

Stock Availability

11 publicly available

Gene Summary

stargazin-like protein (stg1) encodes a channel regulator that modulates both AMPA receptor activity and glutamatergic synaptic transmission. [Date last reviewed: 2019-09-19] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

19F1-19F1

Sequence location

X:21,093,844..21,111,417 [+]

Recombination map

1-65

RefSeq locus

NC_004354 REGION:21093844..21111417

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 (2 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

enables channel regulator activity

inferred from direct assay

(Walker et al., 2006)

enables neurotransmitter receptor regulator activity

inferred from direct assay

(Walker et al., 2006)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (1 term)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

involved_in regulation of synaptic transmission, glutamatergic

inferred from direct assay

(Walker et al., 2006)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

located_in membrane

inferred from electronic annotation with InterPro:IPR004031

(InterPro Project Members, 2004-)

inferred from sequence model

(Walker et al., 2006)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

stargazin-like protein (stg1) encodes a channel regulator that modulates both AMPA receptor activity and glutamatergic synaptic transmission. [Date last reviewed: 2019-09-19]

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\stg1 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 Q2MGK8)

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 5.53

Gene model reviewed during 6.46

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

stg1-RC

FBtr0481676

NM_001414114

3438

1000

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

stg1-PC

FBpp0428452

110.5

1000

8.46

AAZ52506

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\stg1 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).

-0.56

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\stg1 in JBrowse

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

View exonic expression by developmental stage for Dmel\stg1

View exonic expression by tissue for Dmel\stg1

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

318064/tissue=All

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

FBgn0288700

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

FBgn0288700

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 9 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 5 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of stg1

Transgenic constructs containing regulatory region of stg1

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 22 )

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

Sterility

Allele

fertile

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) (14)

Hsap\CACNG7

8 of 14

Yes

Hsap\CACNG4

7 of 14

Yes

Hsap\CACNG5

7 of 14

Yes

Hsap\CACNG8

7 of 14

Yes

Hsap\CACNG2

6 of 14

Yes

Hsap\CACNG3

6 of 14

Yes

Hsap\CACNG1

1 of 14

Yes

Hsap\CLDN18

1 of 14

Yes

Hsap\CLDN19

1 of 14

Yes

Hsap\GSG1L2

1 of 14

Yes

Hsap\GSG1L

1 of 14

Yes

Hsap\TMEM114

1 of 14

Yes

Hsap\TMEM178A

1 of 14

Yes

Hsap\TMEM178B

1 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) (15)

Rnor\Cacng4

7 of 14

Yes

Rnor\Cacng5

7 of 14

Yes

Rnor\Cacng7

7 of 14

Yes

Rnor\Cacng2

6 of 14

Yes

Rnor\Cacng3

6 of 14

Yes

Rnor\Cacng8

6 of 14

Yes

Rnor\Cacng1

1 of 14

Yes

Rnor\Cldn1

1 of 14

Yes

Rnor\Cldn10

1 of 14

Yes

Rnor\Cldn19

1 of 14

Yes

Rnor\Cldn20

1 of 14

Yes

Rnor\Gsg1l

1 of 14

Yes

Rnor\Tmem114

1 of 14

Yes

Rnor\Tmem178a

1 of 14

Yes

Rnor\Tmem235

1 of 14

Yes

Mus musculus (laboratory mouse) (19)

Mmus\Cacng7

8 of 14

Yes

Mmus\Cacng4

7 of 14

Yes

Mmus\Cacng5

7 of 14

Yes

Mmus\Cacng2

6 of 14

Yes

Mmus\Cacng3

6 of 14

Yes

Mmus\Cacng8

6 of 14

Yes

Mmus\Cacng1

1 of 14

Yes

Mmus\Cldn1

1 of 14

Yes

Mmus\Cldn7

1 of 14

Yes

Mmus\Cldn10

1 of 14

Yes

Mmus\Cldn19

1 of 14

Yes

Mmus\Cldn20

1 of 14

Yes

Mmus\Cldnd1

1 of 14

Yes

Mmus\Gsg1l2

1 of 14

Yes

Mmus\Gsg1l

1 of 14

Yes

Mmus\Tmem114

1 of 14

Yes

Mmus\Tmem178b

1 of 14

Yes

Mmus\Tmem178

1 of 14

Yes

Mmus\Tmem235

1 of 14

Yes

Xenopus tropicalis (Western clawed frog) (19)

Xtro\cacng2

5 of 13

Yes

Xtro\cacng3

5 of 13

Yes

Xtro\cacng7

5 of 13

Yes

Xtro\cacng8

4 of 13

Yes

Xtro\cacng4

3 of 13

Yes

Xtro\cacng5

3 of 13

Yes

Xtro\cldn1

1 of 13

Yes

Xtro\cldn3

1 of 13

Yes

Xtro\cldn10

1 of 13

Yes

Xtro\cldn18

1 of 13

Yes

Xtro\gsg1l

1 of 13

Yes

Xtro\gsg1l

1 of 13

Yes

Xtro\LOC100492460

1 of 13

Yes

Xtro\LOC100496232

1 of 13

Yes

Xtro\nrap

1 of 13

Yes

Xtro\tmem114

1 of 13

Yes

Xtro\tmem178.2

1 of 13

Yes

Xtro\tmem178a

1 of 13

Yes

Xtro\tmem182

1 of 13

Yes

Danio rerio (Zebrafish) (31)

Drer\cacng7a

8 of 14

Yes

Drer\cacng4b

7 of 14

Yes

Drer\cacng5b

7 of 14

Yes

Drer\cacng7b

7 of 14

Yes

Drer\cacng8a

7 of 14

Yes

Drer\cacng8b

7 of 14

Yes

Drer\cacng2a

6 of 14

Yes

Drer\cacng3b

6 of 14

Yes

Drer\cacng4a

6 of 14

Yes

Drer\cacng5a

6 of 14

Yes

Drer\cacng2b

5 of 14

Yes

Drer\cacng3a

2 of 14

Yes

Drer\cacng1a

1 of 14

Yes

Drer\cacng1b

1 of 14

Yes

Drer\cacng6a

1 of 14

Yes

Drer\cldn5b

1 of 14

Yes

Drer\cldn18

1 of 14

Yes

Drer\cldn30

1 of 14

Yes

Drer\cldnd

1 of 14

Yes

Drer\gsg1l

1 of 14

Yes

Drer\lim2.1

1 of 14

Yes

Drer\lim2.3

1 of 14

Yes

Drer\lim2.4

1 of 14

Yes

Drer\LOC100000694

1 of 14

Yes

Drer\si:ch211-149k23.9

1 of 14

Yes

Drer\si:ch211-232m10.6

1 of 14

Yes

Drer\tmem114

1 of 14

Yes

Drer\tmem178

1 of 14

Yes

Drer\tmem235b

1 of 14

Yes

Drer\tmem276a

1 of 14

Drer\tmem276b

1 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (3)

Cele\stg-1

6 of 14

Yes

Cele\stg-2

4 of 14

Yes

Cele\F53B3.5

1 of 14

Anopheles gambiae (African malaria mosquito) (2)

Agam\AgaP_AGAP012963

7 of 12

Yes

Agam\AgaP_AGAP004834

1 of 12

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:stg1. 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 ( 1 )

Human Ortholog

Disease

Evidence

References

CACNG2; calcium voltage-gated channel auxiliary subunit gamma 2

model of autosomal dominant intellectual developmental disorder 10

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?

CACNG7; calcium voltage-gated channel auxiliary subunit gamma 7

8 of 14

606899

CACNG4; calcium voltage-gated channel auxiliary subunit gamma 4

7 of 14

606404

CACNG5; calcium voltage-gated channel auxiliary subunit gamma 5

7 of 14

606405

CACNG8; calcium voltage-gated channel auxiliary subunit gamma 8

7 of 14

606900

CACNG2; calcium voltage-gated channel auxiliary subunit gamma 2

6 of 14

602911

INTELLECTUAL DEVELOPMENTAL DISORDER, AUTOSOMAL DOMINANT 10; MRD10

autosomal dominant intellectual developmental disorder 10

CACNG3; calcium voltage-gated channel auxiliary subunit gamma 3

6 of 14

606403

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

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

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

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

1-65

Cytogenetic map

19F1-19F1

Sequence location

X:21,093,844..21,111,417 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

19F1-19F1

Limits computationally determined from genome sequence between P{EP}CG1702^EP1525 and P{EP}EP1465&P{EP}CG1486^EP1192

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

1-65

(FlyBase, 2016)

1-65.7

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (11)

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

Bloomington

82731

y¹ v¹; P{TKO.GS05074}attP40

60383

y¹ v¹; P{TRiP.HMJ22600}attP40

41928

y¹ sc^* v¹ sev²¹; P{TRiP.HMS02325}attP40

93992

y¹ w^* TI{CRIMIC.TG4.2}CG1503^{CR60303-TG4.2} stg1^{CR60303-TG4.2-X}

80611

y¹ w^* TI{CRIMIC.TG4.2}stg1^{CR00637-TG4.2} CG15446^{CR00637-TG4.2-X}

10665

11290

105127

y^* w^* P{GawB}stg1^NP6102 / FM7c

NIG-Fly

10985R-3

P{NIG.10985R}3

11566R-2

P{NIG.11566R}2

HMJ22600

y¹ v¹; P{TRiP.HMJ22600}attP40/CyO

Genomic Clones (17)

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

cDNA Clones (1)

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

GH12419

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

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Predicted to encode for a 366 residue protein, exhibiting 25% sequence identity with vertebrate starglazin.

(Walker et al., 2006)

Relationship to Other Genes

Source for database merge of

Source for merge of: stg1 CG11566

(FlyBase Genome Annotators, 2022)

Additional comments

Annotations CG33670 and CG11566 merged as CG46498 in release 6.46 of the genome annotation; merge based on RNA-Seq junction and coverage data.

(FlyBase Genome Annotators, 2022)

Dicistronic annotation CG32514 split out into separate annotations for each open reading frame, CG33670 and CG11566 in release 4.2 of the genome annotation.

(FlyBase Genome Annotators, 2005)

Nomenclature History

Source for database identify of

Source for identity of: stg1 CG33670

(Walker et al., 2006)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (15)

Reported As

Symbol Synonym

CG10985

CG11566

(Murphy, 2021.9.2, Murphy, 2021.9.2, Gene Disruption Project members, 2018-, Levis, 2018.8.30, Transgenic RNAi Project members, 2017-, Japanese National Institute of Genetics, 2012.5.21, Kong et al., 2010, Perkins et al., 2009)

CG11568

CG11569

CG32514

(Giot et al., 2003)

CG32514-ORFA

CG33670

(Ashraf et al., 2020, Ni et al., 2010.12.1, Walker et al., 2006)

CG46498

(FlyBase Genome Annotators, 2022)

Dro STG1

(Walker et al., 2006)

STG1

(Walker et al., 2006)

Stg1

(Liebl and Featherstone, 2008)

stg1

(Murphy, 2021.9.2, Murphy, 2021.9.2, Ashraf et al., 2020, Kiragasi et al., 2020, Yildirim et al., 2019, Gene Disruption Project members, 2018-, Levis, 2018.8.30, Japanese National Institute of Genetics, 2012.5.21, Kong et al., 2010, Walker et al., 2006)

Name Synonyms

CG33670

stargazin

(Kiragasi et al., 2020)

stargazin-like

(Kiragasi et al., 2020)

stargazin-like protein

(Walker et al., 2006)

Secondary FlyBase IDs

FBgn0064123
FBgn0031154
FBgn0031156
FBgn0053670
FBgn0031159
FBgn0031158
FBgn0052514
FBtr0077248
FBtr0077249
FBpp0076941

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 31 )

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.

318064

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.

NM_001414114

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.

Q2MGK8

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.

Q2MGK8

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

318064/tissue=All

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

FBgn0288700

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

FBgn0288700

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

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

dme:Dmel_CG46498

MARRVEL_MODEL - MARRVEL (model organism gene)

318064

Linkouts

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0288700

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

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

References (34)

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

-0.56

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