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General Information
Symbol
Dmel\SNF4Aγ
Species
D. melanogaster
Name
SNF4/AMP-activated protein kinase gamma subunit
Annotation Symbol
CG17299
Feature Type
FlyBase ID
FBgn0264357
Gene Model Status
Stock Availability
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]
Also Known As

loe, loechrig, AMPKγ, SNF4, SNF4A

Key Links
Genomic Location
Cytogenetic map
Sequence location
3R:21,140,739..21,214,269 [+]
Recombination map

3-71

RefSeq locus
NT_033777 REGION:21140739..21214269
Sequence
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (18 terms)
Molecular Function (4 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000350000
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000350000
(assigned by GO_Central )
inferred from sequence or structural similarity with HGNC:9386
inferred from biological aspect of ancestor with PANTHER:PTN000350000
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000350000
(assigned by GO_Central )
Biological Process (11 terms)
Terms Based on Experimental Evidence (7 terms)
CV Term
Evidence
References
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
inferred from mutant phenotype
Terms Based on Predictions or Assertions (4 terms)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000350000
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000350000
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000350000
(assigned by GO_Central )
inferred from electronic annotation with InterPro:IPR039170
(assigned by InterPro )
Cellular Component (3 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
inferred from direct assay
inferred from direct assay
Terms Based on Predictions or Assertions (3 terms)
CV Term
Evidence
References
inferred from biological aspect of ancestor with PANTHER:PTN000350000
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000350000
(assigned by GO_Central )
inferred from biological aspect of ancestor with PANTHER:PTN000350000
(assigned by GO_Central )
Protein Family (UniProt)
-
Summaries
Gene Model and Products
Number of Transcripts
16
Number of Unique Polypeptides
6

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
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

Sequence Ontology: Class of Gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
FBtr0084018
3614
947
FBtr0084019
3348
947
FBtr0084021
3197
906
FBtr0084022
3308
906
FBtr0084020
4769
1400
FBtr0084024
2786
814
FBtr0110937
2109
538
FBtr0110938
3675
906
FBtr0110939
3128
906
FBtr0112915
2093
614
FBtr0112916
2524
614
FBtr0301585
2123
614
FBtr0301586
4774
906
FBtr0301587
3243
906
FBtr0301588
6292
1400
FBtr0301589
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
RefSeq ID
GenBank
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
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
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
 
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
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
Polypeptide Expression
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
inferred from direct assay
inferred from direct assay
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\SNF4Aγ in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
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
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Images
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 58 )
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
Deletions and Duplications ( 2 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
Sterility
Allele
Other Phenotypes
Allele
Phenotype manifest in
Allele
Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (3)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
9 of 15
Yes
Yes
8 of 15
No
Yes
1  
6 of 15
No
Yes
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (3)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Alignment
Complementation?
Transgene?
9 of 15
Yes
Yes
8 of 15
No
Yes
6 of 15
No
Yes
Rattus norvegicus (Norway rat) (3)
6 of 13
Yes
Yes
5 of 13
No
Yes
4 of 13
No
Yes
Xenopus tropicalis (Western clawed frog) (3)
6 of 12
Yes
Yes
5 of 12
No
Yes
5 of 12
No
Yes
Danio rerio (Zebrafish) (5)
9 of 15
Yes
Yes
8 of 15
No
Yes
7 of 15
No
Yes
6 of 15
No
Yes
6 of 15
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (5)
8 of 15
Yes
Yes
5 of 15
No
Yes
4 of 15
No
Yes
4 of 15
No
Yes
3 of 15
No
Yes
Arabidopsis thaliana (thale-cress) (1)
5 of 9
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (3)
10 of 15
Yes
Yes
1 of 15
No
Yes
1 of 15
No
Yes
Schizosaccharomyces pombe (Fission yeast) (1)
8 of 12
Yes
Yes
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG091901SJ )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Drosophila simulans
Drosophila sechellia
Drosophila erecta
Drosophila yakuba
Drosophila ananassae
Drosophila pseudoobscura pseudoobscura
Drosophila persimilis
Drosophila willistoni
Drosophila virilis
Drosophila mojavensis
Drosophila grimshawi
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG0915010C )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Glossina morsitans
Tsetse fly
Lucilia cuprina
Australian sheep blowfly
Mayetiola destructor
Hessian fly
Aedes aegypti
Yellow fever mosquito
Anopheles darlingi
American malaria mosquito
Culex quinquefasciatus
Southern house mosquito
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W00T2 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bombyx mori
Silkmoth
Bombyx mori
Silkmoth
Danaus plexippus
Monarch butterfly
Danaus plexippus
Monarch butterfly
Danaus plexippus
Monarch butterfly
Danaus plexippus
Monarch butterfly
Heliconius melpomene
Postman butterfly
Heliconius melpomene
Postman butterfly
Apis florea
Little honeybee
Apis mellifera
Western honey bee
Apis mellifera
Western honey bee
Bombus impatiens
Common eastern bumble bee
Bombus impatiens
Common eastern bumble bee
Bombus terrestris
Buff-tailed bumblebee
Linepithema humile
Argentine ant
Linepithema humile
Argentine ant
Megachile rotundata
Alfalfa leafcutting bee
Megachile rotundata
Alfalfa leafcutting bee
Nasonia vitripennis
Parasitic wasp
Nasonia vitripennis
Parasitic wasp
Dendroctonus ponderosae
Mountain pine beetle
Tribolium castaneum
Red flour beetle
Tribolium castaneum
Red flour beetle
Pediculus humanus
Human body louse
Rhodnius prolixus
Kissing bug
Cimex lectularius
Bed bug
Acyrthosiphon pisum
Pea aphid
Zootermopsis nevadensis
Nevada dampwood termite
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X07B9 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Ixodes scapularis
Black-legged tick
Stegodyphus mimosarum
African social velvet spider
Tetranychus urticae
Two-spotted spider mite
Daphnia pulex
Water flea
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0CZV )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Ciona intestinalis
Vase tunicate
Gallus gallus
Domestic chicken
Gallus gallus
Domestic chicken
Gallus gallus
Domestic chicken
Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (0)
No records found.
Human Disease Associations
FlyBase Human Disease Model Reports
Disease Model Summary Ribbon
Disease Ontology (DO) Annotations
Models Based on Experimental Evidence ( 1 )
Allele
Disease
Evidence
References
Potential Models Based on Orthology ( 3 )
Modifiers Based on Experimental Evidence ( 4 )
Disease Associations of Human Orthologs (via DIOPT v8.0 and OMIM)
Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
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:
Select Layout:
Legend:
Protein
RNA
Selected Interactor(s)
Interactions Browser

Please see the Physical Interaction reports below for full details
protein-protein
Physical Interaction
Assay
References
Summary of Genetic Interactions
esyN Network Diagram
esyN Network Key:
Suppression
Enhancement

Please look at the allele data for full details of the genetic interactions
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.
MIST (genetic) - An integrated Molecular Interaction Database
MIST (protein-protein) - An integrated Molecular Interaction Database
Pathways
Signaling Pathways (FlyBase)
Metabolic Pathways
External Data
Genomic Location and Detailed Mapping Data
Chromosome (arm)
3R
Recombination map

3-71

Cytogenetic map
Sequence location
3R:21,140,739..21,214,269 [+]
FlyBase Computed Cytological Location
Cytogenetic map
Evidence for location
93C1-93C
Limits computationally determined from genome sequence between P{PZ}Atpα01164 and P{PZ}mod(mdg4)07038&P{lacW}mod(mdg4)L3101; Left limit from in situ hybridisation (FBrf0099762) Right limit from in situ hybridisation (FBrf0099762)
Experimentally Determined Cytological Location
Cytogenetic map
Notes
References
93C4-93C5
(determined by in situ hybridisation)
93C-93C
(determined by in situ hybridisation)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Stocks and Reagents
Stocks (31)
Genomic Clones (53)
cDNA Clones (133)
 

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 GBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced
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)
RNAi and Array Information
Linkouts
GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
Antibody Information
Laboratory Generated Antibodies
 
Commercially Available Antibodies
 
Other Information
Relationship to Other Genes
Source for database identify of

Source for identity of: SNF4Aγ CG17299

Source for identity of: SNF4Aγ loe

Source for database merge of

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

Source for merge of: SNF4Aγ CG5806

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

Additional comments

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

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

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

Other Comments

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

SNF4Aγ is involved in neurodegeneration and cholesterol homeostatis.

Area matching Drosophila EST AA539974.

Mutants show age-dependent neurodegeneration.

Origin and Etymology
Discoverer
Etymology

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

Identification
External Crossreferences and Linkouts ( 177 )
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.
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.
UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
Other crossreferences
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
InterPro - A database of protein families, domains and functional sites
KEGG Genes - Molecular building blocks of life in the genomic space.
Linkouts
DroID - A comprehensive database of gene and protein interactions.
KEGG Pathways - Wiring diagrams of molecular interactions, reactions and relations.
MIST (genetic) - An integrated Molecular Interaction Database
MIST (protein-protein) - An integrated Molecular Interaction Database
Synonyms and Secondary IDs (36)
Reported As
Symbol Synonym
CG5806
anon-WO0118547.338
anon-WO0118547.575
anon-WO0257455.21
l(3)S005042
l(3)S012719
Name Synonyms
AMP-activated protein kinase γ subunit
SNF4/AMP-activated protein kinase gamma
SNF4/AMP-activated protein kinase gamma subunit
lethal (3) S005042
lethal (3) S012719
Secondary FlyBase IDs
  • FBgn0025803
  • FBgn0038864
  • FBgn0043354
  • FBgn0061867
  • FBgn0062083
  • FBgn0063797
  • FBgn0028227
  • FBgn0028205
Datasets (0)
Study focus (0)
Experimental Role
Project
Project Type
Title
References (123)