FlyBase Gene Report: Dmel\SNF4Aγ

General Information

Symbol

Dmel\SNF4Aγ

Species

D. melanogaster

Name

SNF4/AMP-activated protein kinase gamma subunit

Annotation Symbol

CG17299

Feature Type

protein_coding_gene

FlyBase ID

FBgn0264357

Gene Model Status

Current

Stock Availability

87 publicly available

Gene Summary

SNF4/AMP-activated protein kinase gamma subunit (SNF4Aγ) encodes a protein involved in lipid metabolism, autophagy and response to starvation. [Date last reviewed: 2019-09-26] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

loe, loechrig, AMPKγ, SNF4, SNF4A

Key Links

Genomic Location

Cytogenetic map

93C1-93C5

Sequence location

3R:21,140,739..21,214,269 [+]

Recombination map

3-71

RefSeq locus

NT_033777 REGION:21140739..21214269

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 (18 terms)

Molecular Function (3 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

enables AMP binding

inferred from biological aspect of ancestor with PANTHER:PTN000350001

(GO Reference Genome Project, 2011-)

enables protein kinase binding

inferred from sequence or structural similarity with HGNC:9386

(Gene Ontology Curators, 2002-)

inferred from biological aspect of ancestor with PANTHER:PTN000350001

(GO Reference Genome Project, 2011-)

enables protein kinase regulator activity

inferred from biological aspect of ancestor with PANTHER:PTN000350001

(GO Reference Genome Project, 2011-)

Biological Process (11 terms)

Terms Based on Experimental Evidence (7 terms)

CV Term

Evidence

References

involved_in behavioral response to starvation

inferred from mutant phenotype

(Johnson et al., 2010)

involved_in cellular response to starvation

inferred from mutant phenotype

(Johnson et al., 2010)

involved_in cholesterol homeostasis

inferred from mutant phenotype

(Tschäpe et al., 2002)

involved_in lipid metabolic process

inferred from mutant phenotype

(Johnson et al., 2010)

involved_in positive regulation of autophagy

inferred from mutant phenotype

(Lippai et al., 2008)

involved_in positive regulation of cell cycle

inferred from genetic interaction with FLYBASE:COX5A; FB:FBgn0019624

(Mandal et al., 2005)

involved_in triglyceride storage

inferred from mutant phenotype

(Johnson et al., 2010)

Terms Based on Predictions or Assertions (4 terms)

CV Term

Evidence

References

involved_in cellular response to glucose starvation

inferred from biological aspect of ancestor with PANTHER:PTN008551371

(GO Reference Genome Project, 2011-)

involved_in positive regulation of gluconeogenesis

inferred from biological aspect of ancestor with PANTHER:PTN008551371

(GO Reference Genome Project, 2011-)

involved_in regulation of carbon utilization

inferred from biological aspect of ancestor with PANTHER:PTN008551371

(GO Reference Genome Project, 2011-)

involved_in regulation of glycolytic process

inferred from biological aspect of ancestor with PANTHER:PTN008551371

(GO Reference Genome Project, 2011-)

Cellular Component (4 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

located_in cytosol

inferred from direct assay

(Lippai et al., 2008)

located_in nucleus

inferred from direct assay

(Lippai et al., 2008)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

is_active_in cytoplasm

inferred from biological aspect of ancestor with PANTHER:PTN000350001

(GO Reference Genome Project, 2011-)

part_of nucleotide-activated protein kinase complex

traceable author statement

(Pan and Hardie, 2002)

inferred from biological aspect of ancestor with PANTHER:PTN000350001

(GO Reference Genome Project, 2011-)

is_active_in nucleus

inferred from biological aspect of ancestor with PANTHER:PTN000350001

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

AMPK COMPLEX

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

SNF4/AMP-activated protein kinase gamma subunit (SNF4Aγ) encodes a protein involved in lipid metabolism, autophagy and response to starvation. [Date last reviewed: 2019-09-26]

Gene Group (FlyBase)

AMPK COMPLEX -: AMP-activated protein kinase (AMPK) is a heterotrimeric serine/threonine kinase complex which can act as an 'energy sensor' to regulate cellular energy metabolism. Energy stress manifests as a drop in the ratio of ATP to AMP/ADP, which activates AMPK's kinase activity, allowing it to upregulate ATP-generating catabolic pathways and to reduce energy-consuming catabolic pathways and cellular programs: inhibits protein, carbohydrate and lipid biosynthesis, as well as cell growth and proliferation. AMPK acts via direct phosphorylation of metabolic enzymes, and by longer-term effects via phosphorylation of transcription regulators. (Adapted from FBrf0234007, FBrf0241085 and Complex Portal.)

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\SNF4Aγ 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 Q9VDD2)

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

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

Annotated transcripts do not represent all possible combinations of alternative exons and/or alternative promoters.

Annotated transcripts do not represent all supported alternative splices within 5' UTR.

Gene model reviewed during 5.46

Tissue-specific extension of 3' UTRs observed during later stages (FBrf0218523, FBrf0219848); all variants may not be annotated

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

SNF4Aγ-RA

FBtr0084018

NM_169946

3614

947

SNF4Aγ-RB

FBtr0084019

NM_080509

3348

947

SNF4Aγ-RC

FBtr0084021

NM_169948

3197

906

SNF4Aγ-RE

FBtr0084022

NM_169949

3308

906

SNF4Aγ-RF

FBtr0084020

NM_169947

4769

1400

SNF4Aγ-RG

FBtr0084024

NM_169950

2786

814

SNF4Aγ-RI

FBtr0110937

NM_001043274

2109

538

SNF4Aγ-RJ

FBtr0110938

NM_001043273

3675

906

SNF4Aγ-RK

FBtr0110939

NM_001043272

3128

906

SNF4Aγ-RM

FBtr0112915

NM_001104384

2093

614

SNF4Aγ-RN

FBtr0112916

NM_001104385

2524

614

SNF4Aγ-RO

FBtr0301585

NM_001043271

2123

614

SNF4Aγ-RP

FBtr0301586

NM_001170198

4774

906

SNF4Aγ-RQ

FBtr0301587

NM_001170199

3243

906

SNF4Aγ-RR

FBtr0301588

NM_001170200

6292

1400

SNF4Aγ-RS

FBtr0301589

NM_001170201

4592

1400

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

SNF4Aγ-PA

FBpp0083421

103.1

947

7.27

FBpp0083422

103.1

947

7.27

FBpp0083424

100.0

906

6.47

FBpp0083425

100.0

906

6.47

FBpp0083423

152.4

1400

5.94

FBpp0083427

90.4

814

7.25

FBpp0110237

60.0

538

4.64

FBpp0110238

100.0

906

6.47

FBpp0110239

100.0

906

6.47

FBpp0111828

67.8

614

5.33

FBpp0111829

67.8

614

5.33

FBpp0290800

67.8

614

5.33

FBpp0290801

100.0

906

6.47

FBpp0290802

100.0

906

6.47

FBpp0290803

152.4

1400

5.94

FBpp0290804

152.4

1400

5.94

Q9VDD2

NP_001163672

ACZ94968

Polypeptides with Identical Sequences

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

614 aa isoforms: SNF4Aγ-PM, SNF4Aγ-PN, SNF4Aγ-PO

906 aa isoforms: SNF4Aγ-PC, SNF4Aγ-PE, SNF4Aγ-PJ, SNF4Aγ-PK, SNF4Aγ-PP, SNF4Aγ-PQ

947 aa isoforms: SNF4Aγ-PA, SNF4Aγ-PB

1400 aa isoforms: SNF4Aγ-PF, SNF4Aγ-PR, SNF4Aγ-PS

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\SNF4Aγ 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).

-1.32

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism | intense | ubiquitous

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

organism

(Fisher et al., 2012)

organism | intense | ubiquitous

(Fisher et al., 2012)

embryonic stage 7 -- 8

organism | ubiquitous

(Fisher et al., 2012)

posterior endoderm

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | ubiquitous

(Fisher et al., 2012)

anterior endoderm

(Fisher et al., 2012)

posterior endoderm

(Fisher et al., 2012)

embryonic stage 9 -- 12

midline primordium | subset

(Kearney et al., 2004)

embryonic stage 11 -- 12

organism | ubiquitous

(Fisher et al., 2012)

anterior midgut primordium

(Fisher et al., 2012)

posterior midgut primordium

(Fisher et al., 2012)

embryonic stage 13

larval H-cell

(Wheeler et al., 2006)

larval VUM motor neuron

(Wheeler et al., 2006)

embryonic stage 13 -- 16

organism | ubiquitous

(Fisher et al., 2012)

embryonic/larval midgut

(Fisher et al., 2012)

larval midline neuron

(Kearney et al., 2004)

embryonic stage 17

larval H-cell

(Wheeler et al., 2006)

larval VUM motor neuron

(Wheeler et al., 2006)

Additional Descriptive Data

Expression assayed at stages 9, 11, 13, and 17. Expression may be continuous between assayed stages in some tissues.

(Wheeler et al., 2006)

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 cytosol

inferred from direct assay

(Lippai et al., 2008)

located_in nucleus

inferred from direct assay

(Lippai et al., 2008)

Expression Deduced from Reporters

Reporter: P{GawB}SNF4Aγ^NP0037

Stage

Tissue/Position (including subcellular localization)

Reference

third instar larval stage

CNS surface glial cell

(Olson et al., 2019)

adult stage

neuron | subset of adult ventral nerve cord

(Yu et al., 2010)

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\SNF4Aγ in JBrowse

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

View exonic expression by developmental stage for Dmel\SNF4Aγ

View exonic expression by tissue for Dmel\SNF4Aγ

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

FBgn0264357

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

42515/tissue=All

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

FBgn0264357

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0025803

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

FBgn0264357

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

CG17299

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 61 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 18 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of SNF4Aγ

Transgenic constructs containing regulatory region of SNF4Aγ

Aberrations (Deficiencies and Duplications) ( 3 )

Inferred from experimentation ( 3 )

Gene disrupted in

Df(3R)e-N19

(Lippai et al., 2008, Szeged Stock Center, 1998-)

Df(3R)e-R1

(Lippai et al., 2008)

Gene partially disrupted in

Df(3R)CRIMIC-CR71235

(Gene Disruption Project members, 2018-)

Inferred from location ( 4 )

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

lethal

lethal (with Df(3R)ED10845)

SNF4Aγ^{MI11063-TG4.0p}

lethal (with SNF4Aγ^S005042)

SNF4Aγ^S012719

lethal (with SNF4Aγ^S012719)

SNF4Aγ^S005042

lethal | recessive

lethal - all die before end of larval stage | recessive

lethal - all die before end of pupal stage (with SNF4Aγ^{MI09417-FF.PT-EGFP}), with Scer\FLP1^UAS.cUa

SNF4Aγ^{MI09417-TG4.1}

lethal - all die before end of pupal stage (with SNF4Aγ^{MI09417-TG4.1}), with Scer\FLP1^UAS.cUa

SNF4Aγ^{MI09417-FF.PT-EGFP}

viable

Sterility

Allele

female semi-sterile, with Scer\GAL4^{VP16.nanos.UTR}, Scer\GAL4^VP16.otu, Scer\GAL4^nanos.PG

fertile

SNF4Aγ^EY07066

Other Phenotypes

Allele

abnormal feeding behavior, with Scer\GAL4^Ubi.PU

SNF4Aγ^RNAi.UAS

abnormal locomotor rhythm | nutrition conditional, with Scer\GAL4^Ubi.PU

SNF4Aγ^RNAi.UAS

abnormal neuroanatomy

SNF4Aγ^loe

abnormal neuroanatomy, with Scer\GAL4^109(2)80

SNF4Aγ^RNAi.UAS

abnormal neuroanatomy, with Scer\GAL4^Appl.G1a

SNF4Aγ^JF02060

abnormal neuroanatomy, with Scer\GAL4^elav-C155

SNF4Aγ^JF02060

abnormal neuroanatomy | adult stage

SNF4Aγ^loe

abnormal neuroanatomy | adult stage (with SNF4Aγ^MI09417), with Scer\FLP1^hs.PU

SNF4Aγ^{MI09417-FF.PT-EGFP}

abnormal neuroanatomy | adult stage (with SNF4Aγ^{MI09417-FF.PT-EGFP}), with Scer\FLP1^hs.PU

SNF4Aγ^MI09417

abnormal neuroanatomy | third instar larval stage

SNF4Aγ^loe

abnormal neurophysiology | adult stage (with Df(3R)e-R1), with Scer\FLP1^ey.PU

SNF4Aγ^{MI09417-FF.PT-EGFP}

abnormal phototaxis

SNF4Aγ^loe

abnormal phototaxis, with Scer\GAL4^elav-C155

SNF4Aγ^JF02060

abnormal size | larval stage (with SNF4Aγ^{MI09417-FF.PT-EGFP}), with Scer\FLP1^UAS.cUa

SNF4Aγ^{MI09417-TG4.1}

abnormal size | larval stage (with SNF4Aγ^{MI09417-TG4.1}), with Scer\FLP1^UAS.cUa

SNF4Aγ^{MI09417-FF.PT-EGFP}

abnormal starvation stress response, with Scer\GAL4^hs.PB

SNF4Aγ^RNAi.UAS

abnormal starvation stress response, with Scer\GAL4^Ubi.PU

SNF4Aγ^RNAi.UAS

increased rate of movement | nutrition conditional, with Scer\GAL4^Ubi.PU

SNF4Aγ^RNAi.UAS

short lived, with Scer\GAL4^hs.PB

SNF4Aγ^RNAi.UAS

short lived, with Scer\GAL4^Ubi.PU

SNF4Aγ^RNAi.UAS

some die during larval stage | recessive

visible, with Scer\GAL4^sca-537.4

SNF4Aγ^EP3015b

Phenotype manifest in

Allele

adult brain

SNF4Aγ^loe

adult brain (with SNF4Aγ^MI09417), with Scer\FLP1^hs.PU

SNF4Aγ^{MI09417-FF.PT-EGFP}

adult brain (with SNF4Aγ^{MI09417-FF.PT-EGFP}), with Scer\FLP1^hs.PU

SNF4Aγ^MI09417

adult central complex

SNF4Aγ^loe

adult central nervous system

SNF4Aγ^loe

embryonic/larval fat body | wandering third instar larval stage

SNF4Aγ^S005042

eye

SNF4Aγ^loe

germline cell | male, with Scer\GAL4^ptc-559.1

SNF4Aγ^EP648

larval brain | third instar larval stage

SNF4Aγ^loe

larval multidendritic class IV neuron, with Scer\GAL4^109(2)80

SNF4Aγ^RNAi.UAS

oenocyte, with Scer\GAL4^Ubi.PU

SNF4Aγ^RNAi.UAS

photoreceptor | adult stage (with Df(3R)e-R1), with Scer\FLP1^ey.PU

SNF4Aγ^{MI09417-FF.PT-EGFP}

retina | adult stage (with Df(3R)e-R1), with Scer\FLP1^ey.PU

SNF4Aγ^{MI09417-FF.PT-EGFP}

rhabdomere | adult stage (with Df(3R)e-R1), with Scer\FLP1^ey.PU

SNF4Aγ^{MI09417-FF.PT-EGFP}

scutellar bristle | ectopic, with Scer\GAL4^sca-537.4

SNF4Aγ^EP3015b

tormogen cell, with Scer\GAL4^sca-537.4

SNF4Aγ^EP3015b

trichogen cell, with Scer\GAL4^sca-537.4

SNF4Aγ^EP3015b

vacuole

SNF4Aγ^loe

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) (4)

Hsap\PRKAG1

8 of 14

Yes

Hsap\PRKAG2

8 of 14

Yes

Hsap\PRKAG3

7 of 14

Yes

Hsap\CLCN6

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) (4)

Rnor\Prkag2

8 of 14

Yes

Rnor\Prkag1

7 of 14

Yes

Rnor\Prkag3

7 of 14

Yes

Rnor\Clcn6

1 of 14

Mus musculus (laboratory mouse) (4)

Mmus\Prkag1

8 of 14

Yes

Mmus\Prkag2

8 of 14

Yes

Mmus\Prkag3

6 of 14

Yes

Mmus\Clcn6

1 of 14

Xenopus tropicalis (Western clawed frog) (4)

Xtro\prkag2

6 of 13

Yes

Xtro\kmt2d

3 of 13

Yes

Xtro\prkag3

3 of 13

Yes

Xtro\irx4

1 of 13

Danio rerio (Zebrafish) (8)

Drer\prkag2a

9 of 14

Yes

Drer\prkag1

8 of 14

Yes

Drer\prkag2b

8 of 14

Yes

Drer\prkag3b

7 of 14

Yes

Drer\prkag3a

5 of 14

Yes

Drer\clcn5a

1 of 14

Drer\clcn6

1 of 14

Drer\clcn7

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (6)

Cele\aakg-1

9 of 14

Yes

Cele\aakg-2

4 of 14

Yes

Cele\aakg-3

4 of 14

Yes

Cele\aakb-1

1 of 14

Cele\aakg-4

1 of 14

Yes

Cele\aakg-5

1 of 14

Yes

Anopheles gambiae (African malaria mosquito) (3)

Agam\AgaP_AGAP001446

8 of 12

Yes

Agam\AgaP_AGAP005777

1 of 12

Agam\AgaP_AGAP011133

1 of 12

Arabidopsis thaliana (thale-cress) (18)

Atha\SNF4

7 of 13

Yes

Atha\AT1G15330

2 of 13

Yes

Atha\AT1G47271

2 of 13

Yes

Atha\AT1G69800

2 of 13

Yes

Atha\AT5G53750

2 of 13

Yes

Atha\CBSX3

2 of 13

Yes

Atha\CBSX4

2 of 13

Yes

Atha\CBSX5

2 of 13

Yes

Atha\CBSX6

2 of 13

Yes

Atha\KING1

2 of 13

Yes

Atha\LEJ1

2 of 13

Yes

Atha\LEJ2

2 of 13

Yes

Atha\AT2G36500

1 of 13

Yes

Atha\AT3G52950

1 of 13

Yes

Atha\AT5G50530

1 of 13

Yes

Atha\AT5G50640

1 of 13

Yes

Atha\AT5G63490

1 of 13

Yes

Atha\SETH3

1 of 13

Yes

Saccharomyces cerevisiae (Brewer's yeast) (5)

Scer\SNF4

9 of 13

Yes

Scer\SDS23

2 of 13

Yes

Scer\SDS24

2 of 13

Yes

Scer\IMD2

1 of 13

Scer\IMD4

1 of 13

Schizosaccharomyces pombe (Fission yeast) (3)

Spom\cbs2

9 of 12

Yes

Spom\mug70

2 of 12

Yes

Spom\sds23

2 of 12

Yes

Escherichia coli (enterobacterium) (3)

Ecol\guaB

1 of 11

Yes

Ecol\gutQ

1 of 11

Yes

Ecol\kdsD

1 of 11

Yes

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:SNF4Aγ. 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) (2)

ClC-c

1 of 13

ras

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

neurodegenerative disease (postulated), AMPK-related

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 1 )

Allele

Disease

Evidence

References

SNF4Aγ^loe

model of neurodegenerative disease

CEA

(Tschäpe et al., 2002)

Potential Models Based on Orthology ( 3 )

Human Ortholog

Disease

Evidence

References

PRKAG2; protein kinase AMP-activated non-catalytic subunit gamma 2

model of lethal congenital glycogen storage disease of heart

IEA

(FlyBase, 2019-)

model of Wolff-Parkinson-White syndrome

IEA

(FlyBase, 2019-)

model of hypertrophic cardiomyopathy 6

IEA

(FlyBase, 2019-)

Modifiers Based on Experimental Evidence ( 6 )

Allele

Disease

Interaction

References

SNF4Aγ^EP3015b

exacerbates Alzheimer's disease

modeled by Hsap\APP^{Aβ42.GMR.Tag:SS(rPENK)}

(Cao et al., 2008)

exacerbates Huntington's disease

modeled by Hsap\HTT^Q93.ex1.UAS

(Cao et al., 2008)

SNF4Aγ^loe

model of neurodegenerative disease

is ameliorated by Hmgcr^clb2

(Tschäpe et al., 2002)

is exacerbated by Hmgcr^UAS.cvDa

(Tschäpe et al., 2002)

is ameliorated by Hmgcr^clb1

(Tschäpe et al., 2002)

is exacerbated by Appl^d

(Tschäpe et al., 2002)

is ameliorated by Rho1^72F

(Cook et al., 2012)

is exacerbated by Rho1^V14.UAS

(Cook et al., 2012)

is ameliorated by Fpps^k03514

(Cook et al., 2012)

is ameliorated by Fpps^k06103

(Cook et al., 2012)

SNF4Aγ^loeI.UAS

ameliorates neurodegenerative disease

modeled by Rho1^V14.UAS

(Cook et al., 2012)

SNF4Aγ^KG10152

exacerbates Alzheimer's disease

modeled by Hsap\APP^{Aβ42.GMR.Tag:SS(rPENK)}

(Cao et al., 2008)

exacerbates Huntington's disease

modeled by Hsap\HTT^Q93.ex1.UAS

(Cao et al., 2008)

SNF4Aγ^MI09417

exacerbates tauopathy

modeled by Hsap\MAPT^UAS.cWa

(Feuillette et al., 2020)

SNF4Aγ^UAS.GFP

exacerbates tauopathy

modeled by Hsap\MAPT^UAS.cWa

(Feuillette et al., 2020)

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?

PRKAG1; protein kinase AMP-activated non-catalytic subunit gamma 1

8 of 14

602742

PRKAG2; protein kinase AMP-activated non-catalytic subunit gamma 2

8 of 14

602743

PRKAG3; protein kinase AMP-activated non-catalytic subunit gamma 3

7 of 14

604976

SKELETAL MUSCLE GLYCOGEN CONTENT AND METABOLISM QUANTITATIVE TRAIT LOCUS; SMGMQTL

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:

Off

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

Select Layout:

Force Directed

Circle

Concentric

Legend:

Protein

RNA

Selected Interactor(s)

Other Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

SNF4Aγ - Clk

anti tag coimmunoprecipitation, anti tag western blot

(Cho et al., 2019)

SNF4Aγ - Eb1

two hybrid

(Hu et al., 2017.6.13)

Summary of Genetic Interactions

esyN Network Diagram

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

esyN Network Key:

Suppression

Enhancement

Other Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please look at the allele data for full details of the genetic interactions

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

SNF4Aγ

enhanceable

Appl

(Wentzell et al., 2012, Tschäpe et al., 2002)

SNF4Aγ

suppressible

Appl

(Wentzell et al., 2012)

SNF4Aγ

enhanceable

Bace

(Wentzell et al., 2012)

SNF4Aγ

suppressible

Fpps

(Cook et al., 2012)

SNF4Aγ

suppressible

Hmgcr

(Tschäpe et al., 2002)

SNF4Aγ

enhanceable

Hmgcr

(Tschäpe et al., 2002)

SNF4Aγ

suppressible

kuz

(Wentzell et al., 2012)

SNF4Aγ

enhanceable

Rho1

(Cook et al., 2012)

SNF4Aγ

suppressible

Rho1

(Cook et al., 2012)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

COX5A

suppressible

SNF4Aγ

(Mandal et al., 2005)

suppressible

(Kim et al., 2010)

enhanceable

(Di Cara et al., 2013)

lok

suppressible

SNF4Aγ

(Park and Song, 2008)

Rac1

enhanceable

SNF4Aγ

(Raymond et al., 2004)

RacGAP84C

enhanceable

SNF4Aγ

(Raymond et al., 2004)

Rho1

suppressible

SNF4Aγ

(Cook et al., 2012)

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0264357

MIST (genetic) - An integrated Molecular Interaction Database

42515

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

42515

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.

External Data

Linkouts

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

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

Class of Gene

gene

gene_with_edited_transcript

(Rodriguez et al., 2012)

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-71

Cytogenetic map

93C1-93C5

Sequence location

3R:21,140,739..21,214,269 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

93C1-93C5

Limits computationally determined from genome sequence between P{PZ}Atpα⁰¹¹⁶⁴ and P{PZ}mod(mdg4)⁰⁷⁰³⁸&P{lacW}mod(mdg4)^L3101

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

93B5-93B10

(Tschäpe, 2002.10.16)

93C4-93C5

(determined by in situ hybridisation)

(Abdelilah-Seyfried et al., 2000)

93C-93C

(Yoshida, 1998.9.25)

93C-93C

(determined by in situ hybridisation)

(Szeged Stock Center, 1998-, Deak et al., 1997)

Experimentally Determined Recombination Data

Location

3-71

(FlyBase, 2016)

3-73.9

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (87)

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

FlyORF

F001733

M{UAS-SNF4Aγ.ORF}ZH-86Fb

Korea

12195

P{VT045108-GAL4}attP2

12497

P{VT045101-GAL4}attP2

12763

P{VT045106-GAL4}attP2

14885

P{VT045091-GAL4}attP2

15254

P{VT045105-GAL4}attP2

15366

P{VT045096-GAL4}attP2

14472

P{VT045106-lexA}attP2

11028

17299R-1

17299R-3

v330582

More stocks available...

Genomic Clones (53)

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

cDNA Clones (111)

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.

FBgn0264357

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

RNAi and Array Information

Linkouts

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Lippai et al., 2008)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Nonsense-mediated mRNA decay (NMD) down-regulates a distinct splice isoform(s) of this gene.

(Hansen et al., 2009)

SNF4Aγ is involved in neurodegeneration and cholesterol homeostatis.

(Tschäpe et al., 2002)

Area matching Drosophila EST AA539974.

(Davies, 2001.3.15)

Mutants show age-dependent neurodegeneration.

(Tschape et al., 2001)

Relationship to Other Genes

Source for database merge of

Source for merge of: SNF4Aγ anon-WO0118547.338 anon-WO0118547.575 anon-WO0257455.21

(FlyBase, 1996-)

Source for merge of: SNF4Aγ CG5806

(FlyBase Genome Annotators, 2002-2003)

Source for merge of: SNF4Aγ l(3)S005042 l(3)S012719

(Lippai et al., 2008)

Additional comments

Annotations CG17299 and CG5806 merged as CG17299 in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Southern analysis suggests that SNF4 is present as two copies in the genome that are relatively divergent.

(Yoshida et al., 1999)

Source for merge of SNF4Aγ anon-WO0118547.338 anon-WO0118547.575 anon-WO0257455.21 was sequence comparison ( date:051113 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Source for identity of: SNF4Aγ CG17299

(Gong, 1999.11)

Source for identity of: SNF4Aγ loe

(Tschäpe, 2002.3.5)

Nomenclature comments

Etymology

Gene was called 'lochrig' by the authors which is the German word for 'full of holes'.

(Tschäpe et al., 2002)

Synonyms and Secondary IDs (36)

Reported As

Symbol Synonym

0050/42

(Deak et al., 1997)

0127/19

(Deak et al., 1997)

AMPK

(Richardson and Portela, 2017)

AMPK-γ

(Sinnett and Brenman, 2016, Sopko et al., 2015)

AMPKγ

(Cox et al., 2021, Cho et al., 2019, Hegazi et al., 2019, Braco et al., 2012, Johnson et al., 2010, Moser et al., 2010)

AMPγ

(Cao et al., 2008)

CG17299

(Meadows, 2018.10.31, Krahmer et al., 2013, Schertel et al., 2013, Christis and Munro, 2012, Guo et al., 2011, Ni et al., 2011.7.19, Ni et al., 2010.12.1, Hansen et al., 2009, Perkins et al., 2009.3.31, Stempfl et al., 2002)

CG5806

EP3015b

(Abdelilah-Seyfried et al., 2001, Abdelilah-Seyfried et al., 2000)

FBgn0025803

(Pan and Hardie, 2002)

SNF4

(Onyenwoke et al., 2015, Kim et al., 2010, Kuronen et al., 2009, Yoshida et al., 1999)

SNF4A

(Krahmer et al., 2013, Solano et al., 2003, Yoshida, 1998.9.25, Yoshida, 1998.9.25)

SNF4A-γ

(Sopko et al., 2015)

SNF4Ag

(Kearney et al., 2004)

SNF4a

(Shaw et al., 2002)

SNF4γ

(Toshniwal et al., 2019, Di Cara et al., 2013)

Snfg

(Cao et al., 2008)

Snfγ

(Cao et al., 2008)

anon-WO0118547.338

anon-WO0118547.575

anon-WO0257455.21

l(3)S005042

(Lippai et al., 2008)

l(3)S012719

loe

(Cassar and Kretzschmar, 2016, Cook et al., 2012, Poeck et al., 2012, Wentzell et al., 2012, Cao et al., 2008, Spasic et al., 2007, Tschäpe, 2002.10.16, Tschäpe et al., 2002, Tschape et al., 2001)

loeI

(Kuronen et al., 2009)

snf4

(Braco et al., 2012)

Name Synonyms

AMP-activated protein kinase γ subunit

(Kim et al., 2010)

Lochrig

(Cao et al., 2008)

SNF4/AMP-activated protein kinase gamma

(Yoshida, 1998.9.25, Yoshida, 1998.9.25)

SNF4/AMP-activated protein kinase gamma subunit

(Wheeler et al., 2006)

lethal (3) S005042

lethal (3) S012719

lochrig

(Tschäpe et al., 2002, Tschape et al., 2001)

loechrig

(Cook et al., 2012, Wentzell et al., 2012, Hortsch et al., 2010, Cao et al., 2008, Spasic et al., 2007, Gronke et al., 2005, Tschäpe, 2002.10.16)

Secondary FlyBase IDs

FBgn0025803
FBgn0038864
FBgn0043354
FBgn0061867
FBgn0062083
FBgn0063797
FBgn0028227
FBgn0028205

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 190 )

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.

42515

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.

Q9VDD2

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.

Q9VDD2

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0264357

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

42515/tissue=All

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

FBgn0264357

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

FBgn0264357

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

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

dme:Dmel_CG17299

MARRVEL_MODEL - MARRVEL (model organism gene)

42515

Linkouts

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

FBgn0264357

DroID - A comprehensive database of gene and protein interactions.

FBgn0264357

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

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0025803

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0264357

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

CG17299

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

FBgn0264357

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

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

MIST (genetic) - An integrated Molecular Interaction Database

42515

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

42515

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.

References (139)

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

-1.32

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