FB2020_05, released Oct 14, 2020

Gene: Dmel\Atx2

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General Information
Symbol
Dmel\Atx2
Species
D. melanogaster
Name
Ataxin-2
Annotation Symbol
CG5166
Feature Type
protein_coding_gene
FlyBase ID
FBgn0041188
Gene Model Status
Current
Stock Availability
12 publicly available
Gene Snapshot
Ataxin-2 (Atx2) encodes the ortholog of human gene ATXN2, which is implicated in spinocerebellar ataxia 2. It contributes to eye development, circadian behaviour, and microRNA function. [Date last reviewed: 2019-03-07]
Other Summaries
Also Known As

dAtx2, l(3)06490, Atx-2, Sca2, dSCA2

Key Links
Genomic Location
Cytogenetic map
88F4-88F4
Sequence location
3R:15,408,423..15,417,277 [+]
Recombination map

3-57

RefSeq locus
NT_033777 REGION:15408423..15417277
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (23 terms)
Molecular Function (2 terms)
Terms Based on Experimental Evidence (2 terms)
CV Term
Evidence
References
protein binding
inferred from physical interaction with FLYBASE:tyf; FB:FBgn0026083
(Zhang et al., 2013)
RNA binding
inferred from direct assay
(Bakthavachalu et al., 2018)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
RNA binding
inferred from biological aspect of ancestor with PANTHER:PTN000304339
(assigned by GO_Central )
(Gaudet et al., 2011)
Biological Process (18 terms)
Terms Based on Experimental Evidence (16 terms)
CV Term
Evidence
References
chaeta development
inferred from mutant phenotype
(assigned by UniProt )
(Satterfield et al., 2002)
circadian regulation of translation
inferred from mutant phenotype
(Lim and Allada, 2013)
inferred from physical interaction with FLYBASE:tyf; FB:FBgn0026083
(Lim and Allada, 2013)
inferred from genetic interaction with FLYBASE:per; FB:FBgn0003068
(Zhang et al., 2013)
inferred from genetic interaction with FLYBASE:tyf; FB:FBgn0026083
(Zhang et al., 2013)
compound eye development
inferred from mutant phenotype
(assigned by UniProt )
(Satterfield et al., 2002)
compound eye photoreceptor development
inferred from mutant phenotype
(Lessing and Bonini, 2008)
habituation
inferred from mutant phenotype
(Sudhakaran et al., 2014, McCann et al., 2011)
locomotor rhythm
inferred from mutant phenotype
(Lim and Allada, 2013, Zhang et al., 2013)
long-term memory
inferred from mutant phenotype
(Bakthavachalu et al., 2018, Sudhakaran et al., 2014)
negative regulation of gene silencing by miRNA
inferred from mutant phenotype
(McCann et al., 2011)
oocyte differentiation
inferred from mutant phenotype
(assigned by UniProt )
(Satterfield et al., 2002)
positive regulation of neuron death
inferred from mutant phenotype
(Lessing and Bonini, 2008)
positive regulation of protein binding
inferred from mutant phenotype
(Zhang et al., 2013)
positive regulation of stress granule assembly
inferred from mutant phenotype
(Bakthavachalu et al., 2018)
regulation of actin filament polymerization
inferred from mutant phenotype
(assigned by UniProt )
(Satterfield et al., 2002)
regulation of olfactory learning
inferred from mutant phenotype
(Sudhakaran et al., 2014, McCann et al., 2011)
regulation of synapse structural plasticity
inferred from mutant phenotype
(McCann et al., 2011)
NOT short-term memory
inferred from mutant phenotype
(Sudhakaran et al., 2014)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
regulation of cytoplasmic mRNA processing body assembly
inferred from biological aspect of ancestor with PANTHER:PTN000304339
(assigned by GO_Central )
(Gaudet et al., 2011)
stress granule assembly
inferred from biological aspect of ancestor with PANTHER:PTN000304339
(assigned by GO_Central )
(Gaudet et al., 2011)
Cellular Component (3 terms)
Terms Based on Experimental Evidence (3 terms)
CV Term
Evidence
References
cytoplasm
inferred from high throughput direct assay
(Sarov et al., 2016)
inferred from direct assay
(assigned by UniProt )
(Satterfield et al., 2002)
cytoplasmic stress granule
inferred from direct assay
(Bakthavachalu et al., 2018)
ribonucleoprotein granule
inferred from direct assay
(Bakthavachalu et al., 2018)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
cytoplasmic stress granule
inferred from biological aspect of ancestor with PANTHER:PTN000304339
(assigned by GO_Central )
(Gaudet et al., 2011)
Protein Family (UniProt)
Belongs to the ataxin-2 family. (Q8SWR8)
Protein Signatures (InterPro)
Summaries
Protein Function (UniProtKB)
RNA binding protein that regulates various processes including circadian behaviors, actin filament formation, eye development and oocyte formation (PubMed:12524342, PubMed:28388438). Forms a complex with tyf and pAbp which functions in adult circadian pacemaker neurons to sustain circadian rhythms likely by switching between activator and repressor modes of post-transcriptional regulation via interaction with Lsm12a or me31B (PubMed:28388438). Forms an activator complex (Atx2-tyf activator complex) via association with Lsm12a and activates the TYF-dependent translation of per to maintain 24 hour periodicity in circadian locomotor behaviors (PubMed:28388438). Forms a repressor complex (Atx2-Not1 repressor complex) via the me31B-dependent association with Not1 to promote Not1-dependent post-transcriptional gene silencing and support high-amplitude circadian rhythms in a per-independent manner (PubMed:28388438). Regulates actin filament formation, though it does not directly assemble with actin filaments (PubMed:12524342). Required for oocyte specification and oocyte positioning in the female germline (PubMed:12524342). Also required for normal eye development and bristle morphology (PubMed:12524342).
(UniProt, Q8SWR8)
Summary (Interactive Fly)
Gene Model and Products
Number of Transcripts
4
Number of Unique Polypeptides
3

Please see the JBrowse view of Dmel\Atx2 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

Gene model reviewed during 5.53

Sequence Ontology: Class of Gene
gene_with_edited_transcript
(Rodriguez et al., 2012, Graveley et al., 2011, Stapleton et al., 2006)
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
Atx2-RA
FBtr0083101
NM_142209
4323
888
Atx2-RB
FBtr0083099
NM_169657
4533
1084
Atx2-RC
FBtr0083100
NM_169658
4999
1023
Atx2-RD
FBtr0344377
NM_001300410
4935
1023
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
Atx2-PA
FBpp0082557
96.7
888
8.89
NP_650466
AAF55196
Atx2-PB
FBpp0082555
117.6
1084
9.25
NP_732033
AAN13663
Atx2-PC
FBpp0082556
111.4
1023
8.15
NP_732034
AAN13664
Atx2-PD
FBpp0310750
111.4
1023
8.15
NP_001287339
AHN57338
Polypeptides with Identical Sequences

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

1023 aa isoforms: Atx2-PC, Atx2-PD
Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Subunit Structure (UniProtKB)

Homodimer (PubMed:28388438). In the circadian pacemaker neurons, core component of the Atx2-tyf activator complex composed of at least Atx2, tyf, pAbp, Lsm12a (PubMed:28388438). In the circadian pacemaker neurons, also a core component of the Atx2-Not1 repressor complex composed of at least Atx2, tyf, pAbp, me31B (PubMed:28388438). Interacts (via PAM2 motif) with pAbp (PubMed:28388438). Interacts (via N-terminus) with tyf independently of pAbp (PubMed:28388438). Forms a subcomplex composed of Atx2 and pAbP which can associate with the 5' cap of pre-mRNAs independently of tyf, Lsm12a or me31B (PubMed:28388438). Interacts with Lsm12a and me31B (PubMed:28388438).

(UniProt, Q8SWR8)
Domain

The PAM2 motif, and therefore interaction with pAbp, is essential for binding to the 5' cap of pre-mRNAs.

(UniProt, Q8SWR8)
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Atx2 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
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 3
organism

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 4 -- 6
organism
(Fisher et al., 2012)
embryonic stage 7 -- 8
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 9 -- 10
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 11 -- 12
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 13 -- 16
organism | ubiquitous
(Fisher et al., 2012)
RT-PCR
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage -- pupal stage
organism
(Vianna et al., 2016)
adult stage | male
organism
(Vianna et al., 2016)
adult stage | female
organism
(Vianna et al., 2016)
Additional Descriptive Data

Two isoforms of Atx2 are differentially expressed. Atx2-RB is expressed at a low level throughout development. Levels of Atx2 increase about 8 times from the third instar larval to adult stages.

(Vianna et al., 2016)
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult brain | restricted
(Zhang et al., 2013)
l-LNv neuron
(Zhang et al., 2013)
LNd neuron
(Zhang et al., 2013)
DN1 neuron
(Zhang et al., 2013)
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
adult stage
adult head
(Aradska et al., 2015)
western blot
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage -- adult stage
organism
(Vianna et al., 2016)
adult stage | female
ovary
(Vianna et al., 2016)
adult stage | male
testis
(Vianna et al., 2016)
third instar larval stage
embryonic/larval central nervous system
(Vianna et al., 2016)
embryonic/larval fat body
(Vianna et al., 2016)
imaginal disc
(Vianna et al., 2016)
Additional Descriptive Data

An antibody directed against the N-terminal part of Atx2-PB detects protein at all stages confirming that the upstream ATG is used. Levels are significantly higher in embryos and first instar larvae than in second instar larvae, third instar larvae, pupae, and adults. An antibody that detects both forms detects similar levels at all stages. Atx2 protein levels are higher in extracts from ovaries than in imaginal disc, CNS, fat body, or testis extracts.

(Vianna et al., 2016)
Marker for
 
Subcellular Localization
CV Term
Evidence
References
cytoplasm
inferred from high throughput direct assay
(Sarov et al., 2016)
inferred from direct assay
(assigned by UniProt )
(Satterfield et al., 2002)
cytoplasmic stress granule
inferred from direct assay
(Bakthavachalu et al., 2018)
ribonucleoprotein granule
inferred from direct assay
(Bakthavachalu et al., 2018)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Atx2 in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
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
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 11 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 25 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of Atx2
Transgenic constructs containing regulatory region of Atx2
Deletions and Duplications ( 4 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
lethal
lethal, with Scer\GAL4ey.PB
lethal, with Scer\GAL4how-24B
lethal (with Atx206490)
lethal (with Atx2X1)
lethal | recessive
lethal | recessive, with Scer\GAL4- :
lethal - all die before end of larval stage | recessive
lethal - all die before end of pupal stage, with Scer\GAL4pnr-MD237
lethal - all die during P-stage, with Scer\GAL4Mef2.PR
partially lethal - majority die, with Scer\GAL4elav-C155
partially lethal - majority die, with Scer\GAL4hs.PB
viable, with Scer\GAL4- :
viable, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
viable, with Scer\GAL4tin.CΔ4
Sterility
Allele
female sterile | germline clone
female sterile | germline clone, with Scer\GAL4- :
Other Phenotypes
Allele
circadian behavior defective, with Scer\GAL4P2.4.Pdf
circadian behavior defective, with Scer\GAL4tim.PE
circadian rhythm defective | adult stage, with Scer\GAL4P2.4.Pdf
decreased cell number | conditional, with Scer\GAL4ninaE.PD
increased cell death | somatic clone
learning defective, with Scer\GAL4GH146
learning defective, with Scer\GAL4GH146, Scer\GAL80ts.αTub84B
learning defective, with Scer\GAL4VPN
learning defective | heat sensitive, with Scer\GAL4NP1227, Scer\GAL80ts.αTub84B
locomotor rhythm defective, with Scer\GAL4Mz520
locomotor rhythm defective, with Scer\GAL4P2.4.Pdf
memory defective | adult stage
memory defective | adult stage, with Atx2X1/Atx206490
memory defective | adult stage (with Atx206490), with Atx2ΔcIDR
memory defective | adult stage (with Atx206490), with Atx2ΔmIDR
memory defective | adult stage (with Atx2X1), with Atx2ΔcIDR
memory defective | adult stage (with Atx2X1), with Atx2ΔmIDR
neuroanatomy defective | adult stage | somatic clone
neuroanatomy defective | larval stage
some die during larval stage | recessive
some die during pupal stage, with Scer\GAL4pnr-MD237
uncoordinated, with Atx2UAS.cSa, Scer\GAL4- :
uncoordinated, with Atx2X1, Scer\GAL4- :
uncoordinated, with Scer\GAL4elav-C155
visible, with Atx2UAS.cSa, Scer\GAL4- :
visible, with Atx2X1, Scer\GAL4- :
visible, with Scer\GAL4GMR.PF
visible, with Scer\GAL4GMR.PU
visible | adult stage, with Scer\GAL4GMR.PU
visible | somatic clone
visible | somatic clone, with Scer\GAL4- :
Phenotype manifest in
Allele
adult antennal lobe projection neuron | somatic clone
adult thorax & chaeta, with Atx2UAS.cSa, Scer\GAL4- :
adult thorax & chaeta, with Atx2X1, Scer\GAL4- :
border follicle cell | germline clone
eye, with Atx2UAS.cSa, Scer\GAL4- :
eye, with Atx2X1, Scer\GAL4- :
eye, with Scer\GAL4GMR.PF
eye | adult stage, with Scer\GAL4GMR.PU
eye | somatic clone
eye | somatic clone, with Scer\GAL4- :
eye disc, with Scer\GAL4GMR.PF
eye disc | somatic clone
eye photoreceptor cell | adult stage, with Scer\GAL4GMR.PU
head, with Scer\GAL4ey.PB
interommatidial bristle | adult stage, with Scer\GAL4GMR.PU
larval neuroblast | larval stage
macrochaeta | adult stage, with Scer\GAL4sca-109-68
nurse cell & actin filament | germ-line clone
nurse cell & nucleus | germ-line clone
nurse cell | germline clone
ommatidium, with Atx2UAS.cSa, Scer\GAL4- :
ommatidium, with Atx2X1, Scer\GAL4- :
ommatidium | adult stage, with Scer\GAL4GMR.PU
ommatidium | somatic clone
ommatidium | somatic clone, with Scer\GAL4- :
oocyte | germline clone
photoreceptor | conditional, with Scer\GAL4ninaE.PD
retina, with Scer\GAL4GMR.PF
retina | adult stage, with Scer\GAL4GMR.PU
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (2)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\ATXN2L
10 of 15
Yes
Yes
Hsap\ATXN2
9 of 15
No
Yes
7  
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (3)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Atxn2l
9 of 15
Yes
Yes
Mmus\Atxn2
9 of 15
Yes
Yes
Mmus\Maml1
1 of 15
No
Yes
Rattus norvegicus (Norway rat) (2)
Rnor\Atxn2
9 of 13
Yes
Yes
Rnor\Atxn2l
8 of 13
No
Yes
Xenopus tropicalis (Western clawed frog) (2)
Xtro\atxn2l
5 of 12
Yes
Yes
Xtro\atxn2
5 of 12
Yes
Yes
Danio rerio (Zebrafish) (2)
Drer\atxn2l
10 of 15
Yes
Yes
Drer\atxn2
9 of 15
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (1)
Cele\atx-2
8 of 15
Yes
Yes
Arabidopsis thaliana (thale-cress) (4)
Atha\CID3
3 of 9
Yes
Yes
Atha\CID4
3 of 9
Yes
Yes
Atha\AT4G26990
1 of 9
No
Yes
Atha\AT5G54920
1 of 9
No
Yes
Saccharomyces cerevisiae (Brewer's yeast) (2)
Scer\PBP1
6 of 15
Yes
Yes
Scer\AIM3
1 of 15
No
Yes
Schizosaccharomyces pombe (Fission yeast) (1)
Spom\SPBC21B10.03c
3 of 12
Yes
Yes
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG091908AH )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00010742
Drosophila simulans
Dsim\GD19023
Drosophila sechellia
Dsec\GM24233
Drosophila erecta
Dere\GG16926
Drosophila yakuba
Dyak\GE24310
Drosophila ananassae
Dana\GF18298
Drosophila pseudoobscura pseudoobscura
Dpse\GA18704
Drosophila persimilis
Dper\GL24477
Drosophila willistoni
Dwil\GK11664
Drosophila virilis
Dvir\GJ22880
Drosophila mojavensis
Dmoj\GI23221
Drosophila grimshawi
Dgri\GH19076
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091502HF )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17017010
Glossina morsitans
Tsetse fly
Gmor\GMOY000539
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_07650
Mayetiola destructor
Hessian fly
Mdes\Mdes017470
Anopheles darlingi
American malaria mosquito
Adar\ADAC007759
Anopheles gambiae
Malaria mosquito
Agam\AGAP013455
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ012359
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W029Q )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Danaus plexippus
Monarch butterfly
Dple\DPOGS207099-PA
Apis florea
Little honeybee
Aflo\2417176742
Apis mellifera
Western honey bee
Amel\GB55453
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP20455
Bombus terrestris
Buff-tailed bumblebee
Bter\15203417
Linepithema humile
Argentine ant
Lhum\LH10748
Linepithema humile
Argentine ant
Lhum\LH10746
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:000af7
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG004164
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_08343
Tribolium castaneum
Red flour beetle
Tcas\GLEAN_14868
Pediculus humanus
Human body louse
Phum\PHUM213790
Rhodnius prolixus
Kissing bug
Rpro\ataxin-2
Cimex lectularius
Bed bug
Clec\CLEC001053
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI004961
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_05482
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0277 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR001786
Strigamia maritima
European centipede
Smar\SMAR009297
Strigamia maritima
European centipede
Smar\SMAR008831
Ixodes scapularis
Black-legged tick
Isca\ISCW011365
Stegodyphus mimosarum
African social velvet spider
Smim\KFM71103.1
Stegodyphus mimosarum
African social velvet spider
Smim\KFM77427.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur18g02380
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_198276
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G02M9 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Sca2L
Paralogs
Downloads
Download All DIOPT 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 ( 0 )
Allele
Disease
Evidence
References
Potential Models Based on Orthology ( 2 )
Human Ortholog
Disease
Evidence
References
ATXN2; ataxin 2
model of  spinocerebellar ataxia type 2
IEA
(FlyBase, 2019-)
model of  late onset Parkinson's disease
IEA
(FlyBase, 2019-)
Modifiers Based on Experimental Evidence ( 9 )
Allele
Disease
Interaction
References
Atx206490
ameliorates  autosomal dominant cerebellar ataxia
modeled by Hsap\ATXN7102Q.T.UAS.Tag:NLS(SV40-largeT)
(Latouche et al., 2007)
ameliorates  amyotrophic lateral sclerosis
modeled by Hsap\SS18L1UAS.cKa
(Park et al., 2019)
Atx2EP3145
exacerbates  tauopathy
modeled by Hsap\MAPTV337M.UAS
(Shulman and Feany, 2003)
exacerbates  autosomal dominant cerebellar ataxia
modeled by Hsap\ATXN182.UAS
(Ghosh and Feany, 2004, Shulman and Feany, 2003)
modeled by Hsap\ATXN3tr.Q78.UAS.Tag:HA
(Ghosh and Feany, 2004)
exacerbates  neurodegenerative disease
modeled by Zzzz\CAG127Q.UAS.Tag:HA
(Ghosh and Feany, 2004)
exacerbates  amyotrophic lateral sclerosis
modeled by Hsap\TARDBPUAS.cEa
(Elden et al., 2010)
Atx2UAS.cSa
exacerbates  autosomal dominant cerebellar ataxia
modeled by Hsap\ATXN3tr.Q78.UAS.Tag:HA
(Lessing and Bonini, 2008, Ghosh and Feany, 2004)
modeled by Hsap\ATXN182.UAS
(Ghosh and Feany, 2004)
modeled by Hsap\ATXN182Q.UAS
(Al-Ramahi et al., 2007)
exacerbates  neurodegenerative disease
modeled by Zzzz\CAG127Q.UAS.Tag:HA
(Ghosh and Feany, 2004)
Atx2X1
ameliorates  autosomal dominant cerebellar ataxia
modeled by Hsap\ATXN3tr.Q78.UAS.Tag:HA
(Lessing and Bonini, 2008)
ameliorates  amyotrophic lateral sclerosis
modeled by Hsap\TARDBPUAS.cEa
(Elden et al., 2010)
Atx2HMS01392
ameliorates  Huntington's disease
modeled by Hsap\HTTQ128.UAS
(Xu et al., 2019)
Atx2KK100423
ameliorates  Huntington's disease
modeled by Hsap\HTTQ128.UAS
(Xu et al., 2019)
Atx2UAS.Tag:FLAG
exacerbates  Huntington's disease
modeled by Hsap\HTTQ128.UAS
(Xu et al., 2019)
Atx2ΔPAM2.UAS.Tag:FLAG
ameliorates  Machado-Joseph disease
modeled by Hsap\ATXN3tr.Q78.UAS.Tag:HA
(Xu et al., 2019)
Atx2HMS02726
ameliorates  Huntington's disease
modeled by Hsap\HTTQ128.UAS
(Xu et al., 2019)
ameliorates  Machado-Joseph disease
modeled by Hsap\ATXN3tr.Q78.UAS.Tag:HA
(Xu et al., 2019)
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.
Homo sapiens (Human)
Gene name
Score
OMIM
OMIM Phenotype
DO term
Complementation?
Transgene?
ATXN2L; ataxin 2 like
10 of 15
607931
      ATXN2; ataxin 2
      9 of 15
      601517
       
      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
      View in Interactions Browser
      Please see the Physical Interaction reports below for full details
      protein-protein
      Physical Interaction
      Assay
      References
      Atx2
      aggregation assay, molecular weight estimation by staining
      (Bakthavachalu et al., 2018)
      Atx2 - AGO1
      experimental knowledge based
      (Guruharsha et al., 2011)
      Atx2 - CG10077
      experimental knowledge based
      (Guruharsha et al., 2011)
      Atx2 - CG6701
      experimental knowledge based
      (Guruharsha et al., 2011)
      Atx2 - CG7903
      experimental knowledge based
      (Guruharsha et al., 2011)
      Atx2 - Dhx15
      experimental knowledge based
      (Guruharsha et al., 2011)
      Atx2 - Fmr1
      anti tag coimmunoprecipitation, western blot
      (Sudhakaran et al., 2014)
      Atx2 - Larp4B
      experimental knowledge based
      (Guruharsha et al., 2011)
      Atx2 - Lsm12a
      two hybrid, anti bait coimmunoprecipitation, western blot, anti tag coimmunoprecipitation
      (Hu et al., 2017.6.13, Lee et al., 2017)
      Atx2 - Map205
      experimental knowledge based
      (Guruharsha et al., 2011)
      Atx2 - Not1
      anti bait coimmunoprecipitation, western blot
      (Lee et al., 2017)
      Atx2 - Syp
      experimental knowledge based
      (Guruharsha et al., 2011)
      Atx2 - Tdrd3
      experimental knowledge based
      (Guruharsha et al., 2011)
      Atx2 - kel
      proximity-dependent biotin identification, Identification by mass spectrometry
      (Mannix et al., 2019)
      Atx2 - me31B
      anti tag coimmunoprecipitation, western blot, anti bait coimmunoprecipitation
      (Lee et al., 2017)
      Atx2 - nito
      experimental knowledge based
      (Guruharsha et al., 2011)
      Atx2 - pAbp
      anti tag coimmunoprecipitation, western blot, cosedimentation through density gradient, anti bait coimmunoprecipitation
      (Lee et al., 2017, Lim and Allada, 2013, Satterfield and Pallanck, 2006)
      Atx2 - qkr54B
      experimental knowledge based
      (Guruharsha et al., 2011)
      Atx2 - qkr58E-3
      experimental knowledge based
      (Guruharsha et al., 2011)
      Atx2 - rictor
      anti tag coimmunoprecipitation, Identification by mass spectrometry
      (Vinayagam et al., 2016)
      Atx2 - tyf
      anti bait coimmunoprecipitation, western blot, experimental knowledge based, anti tag coimmunoprecipitation, anti tag western blot, peptide massfingerprinting
      (Lee et al., 2017, Lim and Allada, 2013, Zhang et al., 2013, Guruharsha et al., 2011)
      RNA-protein
      Physical Interaction
      Assay
      References
      Atx2 - CaMKII
      anti tag coimmunoprecipitation, primer specific pcr
      (Sudhakaran et al., 2014)
      Atx2 - Clk
      anti tag coimmunoprecipitation, quantitative reverse transcription pcr, primer specific pcr
      (Lee et al., 2017, Lim and Allada, 2013)
      Atx2 - Gapdh1
      anti bait coimmunoprecipitation, primer specific pcr
      (Zhang et al., 2013)
      Atx2 - Pdp1
      anti tag coimmunoprecipitation, primer specific pcr, quantitative reverse transcription pcr
      (Lee et al., 2017, Lim and Allada, 2013)
      Atx2 - cry
      anti bait coimmunoprecipitation, primer specific pcr
      (Zhang et al., 2013)
      Atx2 - cwo
      anti tag coimmunoprecipitation, primer specific pcr
      (Lim and Allada, 2013)
      Atx2 - cyc
      anti tag coimmunoprecipitation, quantitative reverse transcription pcr, primer specific pcr
      (Lee et al., 2017, Lim and Allada, 2013)
      Atx2 - per
      anti tag coimmunoprecipitation, quantitative reverse transcription pcr, primer specific pcr, anti bait coimmunoprecipitation
      (Lee et al., 2017, Lim and Allada, 2013, Zhang et al., 2013)
      Atx2 - sgg
      anti bait coimmunoprecipitation, primer specific pcr
      (Zhang et al., 2013)
      Atx2 - slmb
      anti bait coimmunoprecipitation, primer specific pcr
      (Zhang et al., 2013)
      Atx2 - tim
      anti tag coimmunoprecipitation, quantitative reverse transcription pcr, primer specific pcr, anti bait coimmunoprecipitation
      (Lee et al., 2017, Lim and Allada, 2013, Zhang et al., 2013)
      Atx2 - vri
      anti tag coimmunoprecipitation, primer specific pcr, quantitative reverse transcription pcr
      (Lee et al., 2017, Lim and Allada, 2013)
      Summary of Genetic Interactions
      esyN Network Diagram
      esyN Network Key:
      Suppression
      Enhancement
      View in Interactions Browser
      Please look at the allele data for full details of the genetic interactions
      Starting gene(s)
      Interaction type
      Interacting gene(s)
      Reference
      Atx2
      suppressible
      pAbp
      (Lessing and Bonini, 2008)
      Atx2
      suppressible
      per
      (Zhang et al., 2013)
      Starting gene(s)
      Interaction type
      Interacting gene(s)
      Reference
      kay
      enhanceable
      Atx2
      (Sun et al., 2006)
      lap
      enhanceable
      Atx2
      (Sun et al., 2006)
      me31B
      enhanceable
      Atx2
      (Lee et al., 2017)
      Not1
      enhanceable
      Atx2
      (Lee et al., 2017)
      pnr
      enhanceable
      Atx2
      (Pena-Rangel et al., 2002)
      External Data
      Subunit Structure (UniProtKB)
      Homodimer (PubMed:28388438). In the circadian pacemaker neurons, core component of the Atx2-tyf activator complex composed of at least Atx2, tyf, pAbp, Lsm12a (PubMed:28388438). In the circadian pacemaker neurons, also a core component of the Atx2-Not1 repressor complex composed of at least Atx2, tyf, pAbp, me31B (PubMed:28388438). Interacts (via PAM2 motif) with pAbp (PubMed:28388438). Interacts (via N-terminus) with tyf independently of pAbp (PubMed:28388438). Forms a subcomplex composed of Atx2 and pAbP which can associate with the 5' cap of pre-mRNAs independently of tyf, Lsm12a or me31B (PubMed:28388438). Interacts with Lsm12a and me31B (PubMed:28388438).
      (UniProt, Q8SWR8 )
      Linkouts
      BioGRID - A database of protein and genetic interactions.
      DroID - A comprehensive database of gene and protein interactions.
      InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
      MIST (genetic) - An integrated Molecular Interaction Database
      MIST (protein-protein) - An integrated Molecular Interaction Database
      Pathways
      Signaling Pathways (FlyBase)
      Metabolic Pathways
      External Data
      Linkouts
      Genomic Location and Detailed Mapping Data
      Chromosome (arm)
      3R
      Recombination map

      3-57

      Cytogenetic map
      88F4-88F4
      Sequence location
      3R:15,408,423..15,417,277 [+]
      FlyBase Computed Cytological Location
      Cytogenetic map
      Evidence for location
      88F4-88F4
      Limits computationally determined from genome sequence between P{lacW}MRG15j6A3 and P{PZ}l(3)0653606536
      Experimentally Determined Cytological Location
      Cytogenetic map
      Notes
      References
      88F-89A1
      (determined by in situ hybridisation)
      (Pallanck, 2000.3.3)
      88F7-88F8
      (determined by in situ hybridisation)
      (Spradling et al., 1999, BDGP Project Members, 1994-1999)
      Experimentally Determined Recombination Data
      Location

      3-57

      (FlyBase, 2016)

      3-56.6

      (Comeron et al., 2012)
      Left of (cM)
      Right of (cM)
      Notes
      Stocks and Reagents
      Stocks (12)
      Genomic Clones (11)
       

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

      cDNA Clones (66)
       

      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
      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.

        cDNA Clones, End Sequenced (ESTs)
        BDGP DGC clones
        Other clones
        RNAi and Array Information
        Linkouts
        DRSC - Results frm RNAi screens
        GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
        Antibody Information
        Laboratory Generated Antibodies
         

        polyclonal

        (Bakthavachalu et al., 2018, Lee et al., 2017, Vianna et al., 2016, Zhang et al., 2013)
        Commercially Available Antibodies
         
        Other Information
        Relationship to Other Genes
        Source for database identify of
        Source for database merge of

        Source for merge of: Atx2 l(3)06490 BEST:GH27029

        (Satterfield et al., 2002)

        Source for merge of: Atx2 CG5166

        (FlyBase, 1996-)

        Source for merge of: Atx2 anon-WO0118547.351 anon-WO0140519.1

        (FlyBase, 1996-)

        Source for merge of: Atx2 anon- EST:fe2E1

        (FlyBase, 1996-)
        Additional comments

        Source for merge of Atx2 CG5166 was a shared cDNA ( date:030206 ).

        (FlyBase, 1996-)

        Source for merge of Atx2 anon-WO0118547.351 anon-WO0140519.1 was sequence comparison ( date:051113 ).

        (FlyBase, 1996-)

        Source for merge of Atx2 anon- EST:fe2E1 was sequence comparison ( date:030620 ).

        (FlyBase, 1996-)
        Other Comments

        S2 cells treated with dsRNA generated against this gene show reduced phagocytosis of Candida albicans compared to untreated cells.

        (Stroschein-Stevenson et al., 2006)

        RNAi generated by PCR using primers directed to this gene causes a cell growth and viability phenotype when assayed in Kc167 and S2R+ cells.

        (Boutros et al., 2004)

        Area matching Drosophila EST AI062939.

        (Davies, 2001.3.15)
        Origin and Etymology
        Discoverer
        Etymology
        Identification
        External Crossreferences and Linkouts ( 70 )
        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 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/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
        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
        Flygut - An atlas of the Drosophila adult midgut
        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.
        modMine - A data warehouse for the modENCODE project
        Linkouts
        BioGRID - A database of protein and genetic interactions.
        DroID - A comprehensive database of gene and protein interactions.
        DRSC - Results frm RNAi screens
        FLIGHT - Cell culture data for RNAi and other high-throughput technologies
        FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
        FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
        FlyMine - An integrated database for Drosophila genomics
        Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
        InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
        MIST (genetic) - An integrated Molecular Interaction Database
        MIST (protein-protein) - An integrated Molecular Interaction Database
        Synonyms and Secondary IDs (29)
        Reported As
        Symbol Synonym
        ATX2
        (Du et al., 2018, Tataroglu and Emery, 2015, Lim and Allada, 2013, Zhang et al., 2013, Latouche et al., 2007, Sofola et al., 2007, Satterfield and Pallanck, 2006)
        Atx-2
        (Golovin and Broadie, 2016, Costa et al., 2013, Das et al., 2013)
        Atx2
        (Bai and Suzuki, 2020, Yusuff et al., 2020, Mannix et al., 2019, Meltzer et al., 2019, Xu et al., 2019, Kuznetsova et al., 2018, Hu et al., 2017.6.13, Lee et al., 2017, Transgenic RNAi Project members, 2017-, Lee et al., 2016, Sarov et al., 2016, Vianna et al., 2016, Van Bortle et al., 2015, Sudhakaran et al., 2014, Kwon et al., 2013, Schertel et al., 2013, Zhang et al., 2013, Rodriguez et al., 2012, Friedman et al., 2011, Neumüller et al., 2011, Arancio et al., 2010, Elden et al., 2010, Müller et al., 2010, Saj et al., 2010, Tastan et al., 2010, FlyBase Curators, 2008-, Stapleton et al., 2006)
        Atxain-2
        (Zhang et al., 2010)
        BEST:GH27029
        CG43368
        (Xu et al., 2015)
        CG5166
        (Kolkhof et al., 2017, Hosono et al., 2015, Costa et al., 2013, Schertel et al., 2013, Ni et al., 2011.7.19, Müller et al., 2010, Ni et al., 2010.12.1, Keleman et al., 2009.8.5, Perkins et al., 2009, Bier, 2005, Boutros et al., 2004, Ghosh and Feany, 2004, Huntley and Golding, 2004, Driscoll and Gerstbrein, 2003, Driscoll and Gerstbrein, 2003, Shulman and Feany, 2003)
        CG5166a
        (Ruby et al., 2007)
        DAtx2
        (Del Castillo et al., 2019)
        Datx2
        (Jackson et al., 2002, Satterfield et al., 2002)
        GH27029
        (Pena-Rangel et al., 2002)
        SCA2
        (Kumar, 2000)
        Sca2
        (Pallanck, 2000.3.3)
        anon-EST:fe2E1
        anon-WO0118547.351
        anon-WO0140519.1
        atx-2
        (Costa et al., 2013)
        atx2
        (Buddika et al., 2020, Bakthavachalu et al., 2018, Zhang et al., 2018, Sudhakaran et al., 2014, Lessing and Bonini, 2008, Lessing and Bonini, 2007, Sofola et al., 2007, Lessing and Bonini, 2006, Stroschein-Stevenson et al., 2006)
        dAtx2
        (Park et al., 2019, Vianna et al., 2016, McGurk et al., 2015, Rumpf et al., 2014, Bonini and Gitler, 2011, Al-Ramahi et al., 2007)
        dSCA2
        (Satterfield and Pallanck, 2001, Greene et al., 2000)
        l(3)06490
        (Spradling et al., 1999, BDGP Project Members, 1994-1999)
        Name Synonyms
        ATAXIN-2
        (Dubowy and Sehgal, 2017, Lim and Allada, 2013, Zhang et al., 2013)
        Ataxin 2
        (Ghosh and Feany, 2004)
        Ataxin-2
        (McGurk et al., 2015, Xu et al., 2015, Sudhakaran et al., 2014, Toret et al., 2014, Costa et al., 2013, Lawlor et al., 2011, Yu et al., 2011, Tountas and Fortini, 2007, Greene et al., 2000)
        Ataxin2
        (Xu et al., 2019)
        Dataxin-2
        (Sun et al., 2006)
        anon-fast-evolving-2E1
        ataxin-2
        (Moskalev et al., 2018, Vianna et al., 2016, Bonini and Gitler, 2011, Lawlor et al., 2011, Lessing and Bonini, 2006)
        dAtaxin-2
        (Al-Ramahi et al., 2007)
        Secondary FlyBase IDs
        • FBgn0010892
        • FBgn0025221
        • FBgn0038338
        • FBgn0044786
        • FBgn0062074
        • FBgn0063367
        Datasets (0)
        Study focus (0)
        Experimental Role
        Project
        Project Type
        Title
        References (119)