Human Gene ATXN10 (ENST00000252934.10_4) from GENCODE V47lift37
  Description: ataxin 10, transcript variant 1 (from RefSeq NM_013236.4)
Gencode Transcript: ENST00000252934.10_4
Gencode Gene: ENSG00000130638.18_11
Transcript (Including UTRs)
   Position: hg19 chr22:46,067,714-46,241,187 Size: 173,474 Total Exon Count: 12 Strand: +
Coding Region
   Position: hg19 chr22:46,067,944-46,239,551 Size: 171,608 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsOther NamesGeneReviewsModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr22:46,067,714-46,241,187)mRNA (may differ from genome)Protein (475 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MalacardsMGIOMIMPubMedUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: ATX10_HUMAN
DESCRIPTION: RecName: Full=Ataxin-10; AltName: Full=Brain protein E46 homolog; AltName: Full=Spinocerebellar ataxia type 10 protein;
FUNCTION: Necessary for the survival of cerebellar neurons (By similarity). Induces neuritogenesis by activating the Ras-MAP kinase pathway (By similarity). May play a role in the maintenance of a critical intracellular glycosylation level and homeostasis (By similarity).
SUBUNIT: Homooligomer (By similarity). Interacts with OGT (By similarity). Interacts with GNB2. Interacts with IQCB1.
SUBCELLULAR LOCATION: Cytoplasm, perinuclear region.
TISSUE SPECIFICITY: Expressed in the central nervous system.
DISEASE: Defects in ATXN10 are the cause of spinocerebellar ataxia type 10 (SCA10) [MIM:603516]. Spinocerebellar ataxia is a clinically and genetically heterogeneous group of cerebellar disorders. Patients show progressive incoordination of gait and often poor coordination of hands, speech and eye movements, due to degeneration of the cerebellum with variable involvement of the brainstem and spinal cord. SCA10 is an autosomal dominant cerebellar ataxia (ADCA).
DISEASE: Note=Defects in ATXN1 may be a cause of nephronophthisis a chronic tubulo-interstitial nephropathy taht leads to anemia, polyuria, polydipsia, isosthenuria and death in uremia.
SIMILARITY: Belongs to the ataxin-10 family.
WEB RESOURCE: Name=GeneReviews; URL="http://www.ncbi.nlm.nih.gov/sites/GeneTests/lab/gene/ATXN10";

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: ATXN10
Diseases sorted by gene-association score: spinocerebellar ataxia 10* (1299), spinocerebellar ataxia type10* (100), autosomal dominant cerebellar ataxia (12), cerebellar ataxia (7), spinocerebellar ataxia 8 (7), ataxia (7), spinocerebellar ataxia 36 (6), cerebellar disease (6), myotonic disease (4)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 29.91 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 978.43 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -89.70230-0.390 Picture PostScript Text
3' UTR -405.501636-0.248 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR011989 - ARM-like
IPR016024 - ARM-type_fold
IPR019156 - Ataxin-10_domain

Pfam Domains:
PF09759 - Spinocerebellar ataxia type 10 protein domain

SCOP Domains:
48371 - ARM repeat
100909 - IP3 receptor type 1 binding core, domain 2

ModBase Predicted Comparative 3D Structure on Q9UBB4
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0019899 enzyme binding
GO:0042802 identical protein binding

Biological Process:
GO:0007399 nervous system development
GO:0031175 neuron projection development
GO:0060271 cilium assembly
GO:0070207 protein homotrimerization

Cellular Component:
GO:0005615 extracellular space
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0005886 plasma membrane
GO:0016020 membrane
GO:0030425 dendrite
GO:0043025 neuronal cell body
GO:0048471 perinuclear region of cytoplasm


-  Descriptions from all associated GenBank mRNAs
  AK294348 - Homo sapiens cDNA FLJ54600 complete cds, highly similar to Ataxin-10.
AF086923 - Homo sapiens HUMEEP mRNA, complete cds.
AL050282 - Homo sapiens mRNA; cDNA DKFZp586H2219 (from clone DKFZp586H2219).
AK025734 - Homo sapiens cDNA: FLJ22081 fis, clone HEP13961, highly similar to AF119662 Homo sapiens E46 protein mRNA.
AF119662 - Homo sapiens E46 protein mRNA, complete cds.
BC007508 - Homo sapiens ataxin 10, mRNA (cDNA clone MGC:4152 IMAGE:3030062), complete cds.
CR456568 - Homo sapiens SCA10 full length open reading frame (ORF) cDNA clone (cDNA clone C22ORF:pGEM.SCA10).
AK095309 - Homo sapiens cDNA FLJ37990 fis, clone CTONG2011716, moderately similar to Rattus norvegicus mRNA for neuronal beta-catenin like protein (ORF1).
CR457381 - Homo sapiens full open reading frame cDNA clone RZPDo834B0314D for gene E46L, like mouse brain protein E46; complete cds, incl. stopcodon.
DQ893240 - Synthetic construct clone IMAGE:100005870; FLH195524.01X; RZPDo839D05152D ataxin 10 (ATXN10) gene, encodes complete protein.
DQ896570 - Synthetic construct Homo sapiens clone IMAGE:100011030; FLH195520.01L; RZPDo839D05151D ataxin 10 (ATXN10) gene, encodes complete protein.
JD022082 - Sequence 3106 from Patent EP1572962.
JD407415 - Sequence 388439 from Patent EP1572962.
JD031598 - Sequence 12622 from Patent EP1572962.
JD242150 - Sequence 223174 from Patent EP1572962.
JD076002 - Sequence 57026 from Patent EP1572962.
JD398043 - Sequence 379067 from Patent EP1572962.
JD289376 - Sequence 270400 from Patent EP1572962.
JD399253 - Sequence 380277 from Patent EP1572962.
JD406520 - Sequence 387544 from Patent EP1572962.
AL137374 - Homo sapiens mRNA; cDNA DKFZp434I1726 (from clone DKFZp434I1726); partial cds.
JD393126 - Sequence 374150 from Patent EP1572962.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NLC4, ATX10_HUMAN, B4DG05, ENST00000252934.1, ENST00000252934.2, ENST00000252934.3, ENST00000252934.4, ENST00000252934.5, ENST00000252934.6, ENST00000252934.7, ENST00000252934.8, ENST00000252934.9, NM_013236, O14998, O15009, Q6I9X4, Q9UBB4, SCA10, uc317fjc.1, uc317fjc.2
UCSC ID: ENST00000252934.10_4
RefSeq Accession: NM_013236.4
Protein: Q9UBB4 (aka ATX10_HUMAN or ATXX_HUMAN)

-  GeneReviews for This Gene
  GeneReviews article(s) related to gene ATXN10:
ataxias (Hereditary Ataxia Overview)
sca10 (Spinocerebellar Ataxia Type 10)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.