Mouse Gene Tuba1c (ENSMUST00000058914.9) from GENCODE VM23 Comprehensive Transcript Set (only Basic displayed by default)
  Description: Mus musculus tubulin, alpha 1C (Tuba1c), mRNA. (from RefSeq NM_009448)
Gencode Transcript: ENSMUST00000058914.9
Gencode Gene: ENSMUSG00000043091.9
Transcript (Including UTRs)
   Position: mm10 chr15:99,029,891-99,038,110 Size: 8,220 Total Exon Count: 4 Strand: +
Coding Region
   Position: mm10 chr15:99,030,422-99,038,009 Size: 7,588 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDRNA Structure
Protein StructureOther SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther Names
Model InformationMethods
Data last updated at UCSC: 2019-09-19

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr15:99,029,891-99,038,110)mRNA (may differ from genome)Protein (449 aa)
Gene SorterGenome BrowserOther Species FASTATable SchemaAlphaFoldBioGPS
EnsemblEntrez GeneExonPrimerGeneCardsMGIPubMed
SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: Q52L87_MOUSE
DESCRIPTION: SubName: Full=Tubulin, alpha 1C;
FUNCTION: Tubulin is the major constituent of microtubules. It binds two moles of GTP, one at an exchangeable site on the beta chain and one at a non-exchangeable site on the alpha-chain (By similarity).
SUBUNIT: Dimer of alpha and beta chains (By similarity).
SIMILARITY: Belongs to the tubulin family.

-  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


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -196.50531-0.370 Picture PostScript Text
3' UTR -12.10101-0.120 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
IPR002452 - Alpha_tubulin
IPR008280 - Tub_FtsZ_C
IPR000217 - Tubulin
IPR018316 - Tubulin/FtsZ_2-layer-sand-dom
IPR023123 - Tubulin_C
IPR017975 - Tubulin_CS
IPR003008 - Tubulin_FtsZ_GTPase

Pfam Domains:
PF00091 - Tubulin/FtsZ family, GTPase domain
PF03953 - Tubulin C-terminal domain

SCOP Domains:
52490 - Tubulin nucleotide-binding domain-like
53474 - alpha/beta-Hydrolases
55307 - Tubulin C-terminal domain-like

ModBase Predicted Comparative 3D Structure on Q52L87
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.
HumanRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologGenome BrowserNo orthologNo orthologGenome BrowserNo ortholog
Gene Details     
Gene Sorter     
 RGD  WormBase 
 Protein Sequence  Protein Sequence 
 Alignment  Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0003924 GTPase activity
GO:0005200 structural constituent of cytoskeleton
GO:0005525 GTP binding

Biological Process:
GO:0007010 cytoskeleton organization
GO:0007017 microtubule-based process

Cellular Component:
GO:0005737 cytoplasm
GO:0005856 cytoskeleton
GO:0005874 microtubule
GO:0005881 cytoplasmic microtubule


-  Descriptions from all associated GenBank mRNAs
  BC094022 - Mus musculus tubulin, alpha 1C, mRNA (cDNA clone MGC:103284 IMAGE:4162287), complete cds.
AK145567 - Mus musculus blastocyst blastocyst cDNA, RIKEN full-length enriched library, clone:I1C0015P17 product:tubulin, alpha 6, full insert sequence.
AK167654 - Mus musculus 14 days pregnant adult female amnion cDNA, RIKEN full-length enriched library, clone:I530027E06 product:tubulin, alpha 6, full insert sequence.
BC004745 - Mus musculus tubulin, alpha 1C, mRNA (cDNA clone MGC:6150 IMAGE:3583832), complete cds.
BC022182 - Mus musculus tubulin, alpha 1C, mRNA (cDNA clone MGC:14067 IMAGE:3661220), complete cds.
AK167759 - Mus musculus TIB-55 BB88 cDNA, RIKEN full-length enriched library, clone:I730007C23 product:tubulin, alpha 6, full insert sequence.
BC026753 - Mus musculus tubulin, alpha 1C, mRNA (cDNA clone MGC:30244 IMAGE:5124686), complete cds.
M13441 - Mouse alpha-tubulin isotype M-alpha-6 mRNA, complete cds.
AK217320 - Mus musculus cDNA, clone:Y2G0141G10, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000063628, based on BLAT search.
AK219610 - Mus musculus cDNA, clone:Y2G0149A03, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK199651 - Mus musculus cDNA, clone:Y1G0131P10, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
U89398 - Mus musculus strain BALB/c alpha-tubulin mRNA, partial cds.
AB345661 - Mus musculus non-coding RNA, oocyte_clustered_small_RNA10862, complete sequence.
AK183185 - Mus musculus cDNA, clone:Y0G0125A03, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AB345667 - Mus musculus non-coding RNA, oocyte_clustered_small_RNA10868, complete sequence.
AK194490 - Mus musculus cDNA, clone:Y1G0115H19, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000039800, based on BLAT search.
AK013029 - Mus musculus 10, 11 days embryo whole body cDNA, RIKEN full-length enriched library, clone:2810407E13 product:tubulin alpha 6, full insert sequence.
AK182649 - Mus musculus cDNA, clone:Y0G0123E21, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK218261 - Mus musculus cDNA, clone:Y2G0144J02, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK210120 - Mus musculus cDNA, clone:Y2G0117G09, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK188831 - Mus musculus cDNA, clone:Y0G0146J23, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK197049 - Mus musculus cDNA, clone:Y1G0123N06, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK212976 - Mus musculus cDNA, clone:Y2G0126L18, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK193296 - Mus musculus cDNA, clone:Y1G0111M03, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK194797 - Mus musculus cDNA, clone:Y1G0116H12, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK202573 - Mus musculus cDNA, clone:Y1G0142A12, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK202495 - Mus musculus cDNA, clone:Y1G0141L08, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK203182 - Mus musculus cDNA, clone:Y1G0144B02, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK195795 - Mus musculus cDNA, clone:Y1G0119K12, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000039800, based on BLAT search.
AK192326 - Mus musculus cDNA, clone:Y1G0108I18, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.
AK196733 - Mus musculus cDNA, clone:Y1G0122M06, strand:plus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000039800, based on BLAT search.
AK191962 - Mus musculus cDNA, clone:Y1G0107H11, strand:minus, reference:ENSEMBL:Mouse-Transcript-ENST:ENSMUST00000058914, based on BLAT search.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
mmu04145 - Phagosome
mmu04540 - Gap junction

BioCarta from NCI Cancer Genome Anatomy Project
m_mta3Pathway - Downregulated of MTA-3 in ER-negative Breast Tumors

-  Other Names for This Gene
  Alternate Gene Symbols: NM_009448, Q52L87, Q52L87_MOUSE, Tuba6, uc007xom.1, uc007xom.2
UCSC ID: uc007xom.2
RefSeq Accession: NM_009448
Protein: Q52L87 CCDS: CCDS37198.1

-  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.