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TUBA4B Gene

pseudogene   GIFtS: 37
GCID: GC02P220118

Tubulin, Alpha 4b (Pseudogene)

(Previous names: tubulin, alpha 4, tubulin, alpha 4b)
(Previous symbol: TUBA4)
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(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
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Aliases
Tubulin, Alpha 4b (Pseudogene)1 2
TUBA41 2 3
Tubulin, Alpha 41
Tubulin, Alpha 4b1
Putative Tubulin-Like Protein Alpha-4B2
Alpha-Tubulin 4B3

External Ids:    HGNC: 186371   Entrez Gene: 800862   Ensembl: ENSG000002439107   UniProtKB: Q9H8533   

Export aliases for TUBA4B gene to outside databases

Previous GC identifers: GC02P219827 GC02P211970


(According to Entrez Gene, GeneCards, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
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GeneCards Summary for TUBA4B Gene:
TUBA4B (tubulin, alpha 4b (pseudogene)) is a pseudogene. GO annotations related to this gene include GTP binding and structural constituent of cytoskeleton.

summary for TUBA4B Gene:
Microtubules are cylindrical tubes of 20-25 nm in diameter. They are composed of protofilaments which are in
turn composed of alpha- and beta-tubulin polymers. Each microtubule is polarized, at one end alpha-subunits
are exposed (-) and at the other beta-subunits are exposed (+). Microtubules act as a scaffold to determine
cell shape, and provide a backbone for cell organelles and vesicles to move on, a process that requires
motor proteins. The major microtubule motor proteins are kinesin, which generally moves towards the (+) end
of the microtubule, and dynein, which generally moves towards the (-) end. Microtubules also form the
spindle fibers for separating chromosomes during mitosis.




(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 75), Regulatory elements and Epigenetics data according to QIAGEN, and/or SwitchGear Genomics)
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RefSeq DNA sequence at NCBI GenBank:
NC_000002.11  NC_018913.2  NT_005403.18  
Regulatory elements:
   Regulatory transcription factor binding sites in the TUBA4B gene promoter:
         E2F-1   AP-1   MyoD   E2F-2   NF-kappaB1   
         Other transcription factors

Browse SwitchGear Promoter luciferase reporter plasmids
   Search Chromatin IP Primers for TUBA4B

Epigenetics:
DNA Methylation CpG Assay Predesigned for Pyrosequencing in human, mouse, rat TUBA4B


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 2q35   Ensembl cytogenetic band:  2q35   HGNC cytogenetic band: 2q35

TUBA4B Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TUBA4B gene location

GeneLoc information about chromosome 2         GeneLoc Exon Structure

GeneLoc location for GC02P220118:  view genomic region     (about GC identifiers)

Start:
220,117,965 bp from pter      End:
220,136,910 bp from pter
Size:
18,946 bases      Orientation:
plus strand

(According to 1UniProtKB, HORDE, 2neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, Cloud-Clone Corp., eBioscience, and/or antibodies-online,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, Cloud-Clone Corp., eBioscience, and/or antibodies-online, Antibodies by EMD Millipore, R&D Systems, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, Abcam, Cloud-Clone Corp, antibodies-online, and/or others.)
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UniProtKB/Swiss-Prot: TBA4B_HUMAN, Q9H853 (See protein sequence)
Recommended Name: Putative tubulin-like protein alpha-4B  
Size: 241 amino acids; 27551 Da
Caution: Could be the product of a pseudogene

Explore the universe of human proteins at neXtProt for TUBA4B: NX_Q9H853

Explore proteomics data for TUBA4B at MOPED

Post-translational modifications: 

  • Modification sites at neXtProt
  • Modification sites at PhosphoSitePlus

  • See TUBA4B Protein Expression from SPIRE MOPED, PaxDB, and MaxQB


    TUBA4B Human Recombinant Protein Products:

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    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
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    HGNC Gene Families:
    TUB: Tubulins

    3 InterPro protein domains:
     IPR002452 Alpha_tubulin
     IPR000217 Tubulin
     IPR003008 Tubulin_FtsZ_GTPase

    Graphical View of Domain Structure for InterPro Entry Q9H853

    ProtoNet protein and cluster: Q9H853

    UniProtKB/Swiss-Prot: TBA4B_HUMAN, Q9H853
    Similarity: Belongs to the tubulin family


    Find genes that share domains with TUBA4B           About GenesLikeMe


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, genOway,
    transcription factor targeting from QIAGEN and/or HOMER, miRNA Gene Targets from miRTarBase, shRNA from OriGene, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, SwitchGear Genomics, Gene Editing from DNA2.0, Clones from OriGene, GenScript, Sino Biological, DNA2.0, Vector BioLabs and/or Addgene, Cell Lines from GenScript, ESI BIO, In Situ Hybridization Assays from Advanced Cell Diagnostics, Flow cytometry from eBioscience, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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         Gene Ontology (GO): 2 molecular function terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005200structural constituent of cytoskeleton IEA--
    GO:0005525GTP binding IEA--
         
    Find genes that share ontologies with TUBA4B           About GenesLikeMe


    Phenotypes:
         5 GenomeRNAi human phenotypes for TUBA4B:
     Decreased Salmonella enterica   Decreased Salmonella-containin  Decreased cell number, increas  Decreased focal adhesion (FA)  
     Increased number of mitotic ce 

    Animal Models:
       genOway: Develop your customized and physiologically relevant rodent model for TUBA4B

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    (According to UniProtKB, COMPARTMENTS Subcellular localization database, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene.)
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    Subcellular locations from UniProtKB/Swiss-Prot
    TBA4B_HUMAN, Q9H853: Cytoplasm, cytoskeleton (Potential)
    Subcellular locations from COMPARTMENTS: 

    CompartmentConfidence
    cytoskeleton3
    cytosol3
    nucleus2
    extracellular1

    Gene Ontology (GO): 2 cellular component terms:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0005737cytoplasm IEA--
    GO:0005874microtubule IEA--

    Find genes that share ontologies with TUBA4B           About GenesLikeMe


    (SuperPaths according to PathCards, Pathways according to R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to QIAGEN, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Apr 2014 via Entrez Gene).
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    SuperPaths for TUBA4B About    
    See pathways by source

    SuperPathContained pathways About
    1Regulation of CFTR activity norm and CF
    Regulation of CFTR activity norm and CF 0.38
    wtCFTR and deltaF508 traffic Membrane expression norm and CF 0.38
    2Development Slit Robo signaling
    Development Slit Robo signaling0.92
    3Parkin-Ubiquitin Proteasomal System pathway
    Parkin-Ubiquitin Proteasomal System pathway0.89

    Pathways by source                                                                                                                                                                 See SuperPaths
    Show all pathways


    Selected GeneGo (Thomson Reuters) Pathways for TUBA4B (see all 10)
        Proteolysis Role of Parkin in the Ubiquitin-Proteasomal Pathway
    Cell cycle Spindle assembly and chromosome separation
    Regulation of CFTR activity (norm and CF)
    Neurophysiological process Receptor-mediated axon growth repulsion
    Cytoskeleton remodeling Keratin filaments

    1 BioSystems Pathway for TUBA4B
        Parkin-Ubiquitin Proteasomal System pathway


        Pathway & Disease-focused RT2 Profiler PCR Array including TUBA4B: 
              Gap Junctions in human mouse rat

    Interactions:

        Search GeneGlobe Interaction Network for TUBA4B

    1 Interacting protein for TUBA4B (Q9H8532, 3) via UniProtKB, MINT, STRING, and/or I2D
    InteractantInteraction Details
    GeneCardExternal ID(s)
    IKBKGQ9Y6K92, 3MINT-48163 I2D: score=2 
    About this table

    Gene Ontology (GO): 1 biological process term:    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0007017microtubule-based process IEA--

    Find genes that share ontologies with TUBA4B           About GenesLikeMe



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience, ApexBio, HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB)
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    Browse Small Molecules at EMD Millipore
       Browse drugs & compounds from Enzo Life Sciences
      Browse compounds at ApexBio 

    Compounds for TUBA4B available from Tocris Bioscience    About this table
    CompoundAction CAS #
    Vinorelbine ditartrateSelective mitotic microtubule antagonist[125317-39-7]
    DocetaxelMicrotubule stabilizer[114977-28-5]
    Vinblastine sulfateDisrupts microtubules[143-67-9]
    ColchicineInhibitor of tubulin[64-86-8]
    Epothilone BMicrotubule stabilization agent; promotes tubulin polymerization[152044-54-7]



    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN, SwitchGear Genomics,
    Tagged/untagged cDNA clones from OriGene, GenScript, DNA2.0, Vector BioLabs, and/or Addgene, Primers from OriGene, and/or QIAGEN, Flow cytometry from eBioscience )
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    Unigene Cluster for TUBA4B:

    Tubulin, alpha 4b (pseudogene)
    Hs.664469  [show with all ESTs]
    Unigene Representative Sequence: AK024002
    4 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000485041 ENST00000473885(uc002vku.3) ENST00000490341(uc002vkv.1)
    ENST00000486997
    miRNA
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    Clone
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    Primer
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      QuantiFast Probe-based Assays in human, mouse, rat TUBA4B

    Additional mRNA sequence: 

    AK024002.1 BC121126.1 BC121127.1 NR_003063.1 

    10 DOTS entries:

    DT.121017618  DT.100810989  DT.95258481  DT.91724808  DT.100810985  DT.100810991  DT.118885  DT.121017490 
    DT.121017611  DT.91934824 

    10 AceView cDNA sequences:

    AU142757 AK024002 NM_025019 AA716340 BX279921 BG483961 BG541833 BG536778 
    CD698522 BF337330 

    GeneLoc Exon Structure


    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MaxQB, plus additional links to SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from QIAGEN, Primers from OriGene, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
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    TUBA4B expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: GATAGTGTGG
    TUBA4B Expression
    About this image

    TUBA4B Protein expression data from MOPED1, PaxDb2 and MaxQB3    About this image

    TUBA4B Protein Expression

    SOURCE GeneReport for Unigene cluster: Hs.664469
        Pathway & Disease-focused RT2 Profiler PCR Array including TUBA4B: 
              Gap Junctions in human mouse rat

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    In Situ
    Assay Products:
     

     
    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TUBA4B

    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
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    ENSEMBL Gene Tree for TUBA4B (if available)
    TreeFam Gene Tree for TUBA4B (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
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    Paralogs for TUBA4B gene
    Selected SIMAP similar genes for TUBA4B using alignment to 1 protein entry:     TBA4B_HUMAN(see all similar genes):
    TUBA1C    TUBA1A    TUBA2    TUBA3C    TUBA3D    TUBA3E
    DKFZp686L04275    TUBA8    TUBA4A    TUBA1B    TUBA1    TUBAL3
    MGC16703    TUBB2B    TUBB2A    TUBB8    TUBB3    TUBB6

    Find genes that share paralogs with TUBA4B           About GenesLikeMe



    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD), the Human Cytochrome P450 Allele Nomenclature Database, and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers, Cancer Mutation PCR Arrays and Assays, and Copy Number PCR Arrays from QIAGEN)
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    Selected SNPs for TUBA4B (see all 281)    About this table                                 

    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 2 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs58387291,2
    C--211970178(+) GAGGC-/ACCCCC 1 -- us2k10--------
    rs1490943101,2
    --211973621(+) CAGGGG/TCGTAT 1 -- int10--------
    rs1878945261,2
    C--211973632(+) AATGAA/GGCTTC 1 -- int10--------
    rs721273121,2
    C--211973634(+) TGAGG-/CTTCTTTG 1 -- int10--------
    rs1459339171,2
    --211973776(+) AGAGAC/GTTGAG 1 -- int10--------
    rs781436511,2
    C,F--211973817(+) ACCTTC/TAGGTG 1 -- int11Minor allele frequency- T:0.11EA 120
    rs1923689101,2
    --211973845(+) AAACCA/GGGATA 1 -- int10--------
    rs1168376291,2
    C,F--211973847(+) ACCGGG/TATAAC 1 -- int11Minor allele frequency- T:0.02NA 120
    rs556349001,2
    C--211973997(+) TATAGA/TTAGCA 1 -- int14Minor allele frequency- T:0.08WA NA EA 360
    rs1166091971,2
    C,F--211974013(+) TTGGAG/TGTAAG 1 -- int11Minor allele frequency- T:0.03NA 120

    HapMap Linkage Disequilibrium report for TUBA4B (220117965 - 220136910 bp)

    Structural Variations
         Database of Genomic Variants (DGV) 4 variations for TUBA4B:    About this table    
    Variant IDTypeSubtypePubMed ID
    nsv508885CNV Insertion20534489
    nsv834543CNV Loss17160897
    nsv527936CNV Loss19592680
    esv25352CNV Loss19812545

    Site Specific Mutation Identification with PCR Assays
    Search QIAGEN SeqTarget long-range PCR primers for resequencing TUBA4B
    DNA2.0 Custom Variant and Variant Library Synthesis for TUBA4B

    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
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    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
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    PubMed articles for TUBA4B gene, integrated from 10 sources (see all 11):
    (articles sorted by number of sources associating them with TUBA4B)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PubMed id 14702039)1, 2 Ota T.... Sugano S. (Nat. Genet. 2004)
    2. Six mouse alpha-tubulin mRNAs encode five distinct isotypes: testis- specific expression of two sister genes. (PubMed id 3785200)1, 3 Villasante A.... Cowan N.J. (Mol. Cell. Biol. 1986)
    3. Proteomic analysis identifies dysfunction in cellular transport, energy, and protein metabolism in different brain regions of atypical frontotemporal lobar degeneration. (PubMed id 22360420)1 Martins-de-Souza D....Bahn S. (J. Proteome Res. 2012)
    4. A high-throughput approach for measuring temporal changes in the interactome. (PubMed id 22863883)1 Kristensen A.R....Foster L.J. (Nat. Methods 2012)
    5. Identification of SUMOylated proteins in neuroblastoma cells after treatment with hydrogen peroxide or ascorbate. (PubMed id 21110914)1 Grant M.M. (BMB Rep 2010)
    6. Dynamics of cullin-RING ubiquitin ligase network revealed by systematic quantitative proteomics. (PubMed id 21145461)1 Bennett E.J....Harper J.W. (Cell 2010)
    7. Charting the molecular network of the drug target Bcr-Abl. (PubMed id 19380743)1 Brehme M....Superti-Furga G. (Proc. Natl. Acad. Sci. U.S.A. 2009)
    8. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PubMed id 15815621)2 Hillier L.W.... Wilson R.K. (Nature 2005)
    9. HIV-1 Tat targets microtubules to induce apoptosis, a process promoted by the pro-apoptotic Bcl-2 relative Bim. (PubMed id 12486001)1 Chen D....Zhou Q. (EMBO J. 2002)
    10. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PubMed id 12477932)1 Strausberg R.L....Marra M.A. (Proc. Natl. Acad. Sci. U.S.A. 2002)

    (in PubMed, OMIM, and NCBI Bookshelf)
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     ANDOR
    Aliases
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
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    Entrez Gene: 80086 HGNC: 18637 AceView: TUBA4 Ensembl:ENSG00000243910 euGenes: HUgn80086
    ECgene: TUBA4B H-InvDB: TUBA4B

    (According to HUGE)
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    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL, and/or others, e.g. Wikipedia and GeneReviews, via UniProtKB/Swiss-Prot)
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    NameDescription
    PharmGKB entry for TUBA4B Pharmacogenomics, SNPs, Pathways

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
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    Patent Information for TUBA4B gene:
    Search GeneIP for patents involving TUBA4B

    GeneCards and IP:
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    (Antibodies, recombinant proteins, and assays from EMD Millipore, R&D Systems, OriGene, QIAGEN, GenScript, Cell Signaling Technology, Novus Biologicals, Sino Biological, Enzo Life Sciences, Abcam, ProSpec, Cloud-Clone Corp., Thermo Fisher Scientific, eBioscience, antibodies-online, and/or others, Gene Editing from DNA2.0. Clones from OriGene, GenScript, Sino Biological, DNA2.0, SwitchGear Genomics, Vector BioLabs, Addgene, Cell lines from GenScript, and ESI BIO, Flow cytometery from eBioscience, PCR Arrays from QIAGEN, Drugs and/or compounds from EMD Millipore, Tocris Bioscience, Enzo Life Sciences, and/or ApexBio, In Situ Hybridization Assays from
    Advanced Cell Diagnostics, Animal models from genOway)
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    GeneCards Homepage - Last full update: 7 May 2014 - Incrementals: 9 May 2014 , 2 Jun 2014 , 26 Jun 2014 , 30 Jun 2014 , 21 Aug 2014 , 8 Sep 2014 , 7 Oct 2014

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