Human Gene TUBA1C (uc010smh.1)
  Description: Homo sapiens tubulin, alpha 1c (TUBA1C), mRNA.
Transcript (Including UTRs)
   Position: hg19 chr12:49,621,709-49,667,113 Size: 45,405 Total Exon Count: 4 Strand: +
Coding Region
   Position: hg19 chr12:49,621,737-49,667,010 Size: 45,274 Coding Exon Count: 4 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:49,621,709-49,667,113)mRNA (may differ from genome)Protein (519 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsGeneNetwork
H-INVHGNCLynxMalacardsMGIPubMed
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: F5H5D3_HUMAN
DESCRIPTION: SubName: Full=Tubulin alpha-1C chain;
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.
CAUTION: The sequence shown here is derived from an Ensembl automatic analysis pipeline and should be considered as preliminary data.

-  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: TUBA1C
Diseases sorted by gene-association score: distal hereditary motor neuropathy, type ii (2)

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

+  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: 146.76 RPKM in Esophagus - Mucosa
Total median expression: 1212.32 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 -4.8028-0.171 Picture PostScript Text
3' UTR -9.00103-0.087 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
55307 - Tubulin C-terminal domain-like

ModBase Predicted Comparative 3D Structure on F5H5D3
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 orthologGenome BrowserNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 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:0015630 microtubule cytoskeleton


-  Descriptions from all associated GenBank mRNAs
  AK293589 - Homo sapiens cDNA FLJ55956 complete cds, highly similar to Tubulin alpha-6 chain.
BC005946 - Homo sapiens tubulin, alpha 1c, mRNA (cDNA clone MGC:14580 IMAGE:4134187), complete cds.
AK223024 - Homo sapiens mRNA for tubulin alpha 6 variant, clone: JTH01540.
BC011790 - Homo sapiens tubulin, alpha 1c, mRNA (cDNA clone MGC:19827 IMAGE:4025017), complete cds.
BC063036 - Homo sapiens tubulin, alpha 1c, mRNA (cDNA clone MGC:64889 IMAGE:4397636), complete cds.
BC004949 - Homo sapiens tubulin, alpha 1c, mRNA (cDNA clone MGC:10851 IMAGE:3617714), complete cds.
BC033064 - Homo sapiens tubulin, alpha 1c, mRNA (cDNA clone MGC:45598 IMAGE:3926854), complete cds.
BC051297 - Homo sapiens tubulin, alpha 1c, mRNA (cDNA clone MGC:59688 IMAGE:3832363), complete cds.
BC019298 - Homo sapiens tubulin, alpha 1c, mRNA (cDNA clone MGC:4112 IMAGE:2905506), complete cds.
BC021088 - Homo sapiens tubulin, alpha 1c, mRNA (cDNA clone MGC:1754 IMAGE:3543481), complete cds.
CU678818 - Synthetic construct Homo sapiens gateway clone IMAGE:100019456 5' read TUBA1C mRNA.
CU676808 - Synthetic construct Homo sapiens gateway clone IMAGE:100017294 5' read TUBA1C mRNA.
CU675203 - Synthetic construct Homo sapiens gateway clone IMAGE:100017296 5' read TUBA1C mRNA.
DQ896235 - Synthetic construct Homo sapiens clone IMAGE:100010695; FLH191421.01L; RZPDo839D0167D tubulin, alpha 6 (TUBA6) gene, encodes complete protein.
DQ892986 - Synthetic construct clone IMAGE:100005616; FLH191425.01X; RZPDo839D0177D tubulin, alpha 6 (TUBA6) gene, encodes complete protein.
KJ899828 - Synthetic construct Homo sapiens clone ccsbBroadEn_09222 TUBA1C gene, encodes complete protein.
KJ906372 - Synthetic construct Homo sapiens clone ccsbBroadEn_16042 TUBA1C gene, encodes complete protein.
KJ906373 - Synthetic construct Homo sapiens clone ccsbBroadEn_16043 TUBA1C gene, encodes complete protein.
JD034886 - Sequence 15910 from Patent EP1572962.
DL492088 - Novel nucleic acids.
DL490632 - Novel nucleic acids.
JD035670 - Sequence 16694 from Patent EP1572962.
JD032220 - Sequence 13244 from Patent EP1572962.
DQ589802 - Homo sapiens piRNA piR-56914, complete sequence.
JD024485 - Sequence 5509 from Patent EP1572962.
JD027061 - Sequence 8085 from Patent EP1572962.
JD035518 - Sequence 16542 from Patent EP1572962.
JD029285 - Sequence 10309 from Patent EP1572962.
JD029721 - Sequence 10745 from Patent EP1572962.
JD033115 - Sequence 14139 from Patent EP1572962.
JD027868 - Sequence 8892 from Patent EP1572962.
JD060811 - Sequence 41835 from Patent EP1572962.
JD545462 - Sequence 526486 from Patent EP1572962.
JD220127 - Sequence 201151 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04540 - Gap junction
hsa05130 - Pathogenic Escherichia coli infection

-  Other Names for This Gene
  Alternate Gene Symbols: AK293589, F5H5D3, F5H5D3_HUMAN, NM_032704, NP_116093
UCSC ID: uc010smh.1
RefSeq Accession: NM_032704
Protein: F5H5D3

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: AK293589.1
exon count: 4CDS single in 3' UTR: no RNA size: 1692
ORF size: 1560CDS single in intron: no Alignment % ID: 99.82
txCdsPredict score: 2987.00frame shift in genome: no % Coverage: 99.94
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.