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    Tubd1 tubulin, delta 1 [ Mus musculus (house mouse) ]

    Gene ID: 56427, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Tubd1provided by MGI
    Official Full Name
    tubulin, delta 1provided by MGI
    Primary source
    MGI:MGI:1891826
    See related
    Ensembl:ENSMUSG00000020513 AllianceGenome:MGI:1891826
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Tubd; 4930550G19Rik
    Summary
    Predicted to enable GTP binding activity. Predicted to be a structural constituent of cytoskeleton. Involved in positive regulation of smoothened signaling pathway. Located in cytoplasm and nucleus. Orthologous to human TUBD1 (tubulin delta 1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Ubiquitous expression in testis adult (RPKM 6.5), liver E14 (RPKM 3.3) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Tubd1 in Genome Data Viewer
    Location:
    11 C; 11 51.82 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (86435817..86462772)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (86544991..86571608)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 26439 Neighboring gene STARR-positive B cell enhancer ABC_E5259 Neighboring gene STARR-positive B cell enhancer ABC_E3003 Neighboring gene STARR-seq mESC enhancer starr_30268 Neighboring gene STARR-seq mESC enhancer starr_30269 Neighboring gene ring finger protein, transmembrane 1 Neighboring gene ribosomal protein S6 kinase, polypeptide 1 Neighboring gene STARR-seq mESC enhancer starr_30270 Neighboring gene STARR-positive B cell enhancer ABC_E3004 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:86395440-86395623 Neighboring gene predicted gene 9975 Neighboring gene microRNA 21a Neighboring gene vacuole membrane protein 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. Tissue-specific expression and subcellular localisation of mammalian delta-tubulin. Smrzka OW, et al. Curr Biol, 2000 Apr 6. PMID 10753753
    2. Cloning of the canine delta tubulin cDNA (TUBD) and mapping to CFA9. Sidjanin DJ, et al. Anim Genet, 2002 Apr. PMID 12047234
    3. Delta-tubulin is a component of intercellular bridges and both the early and mature perinuclear rings during spermatogenesis. Kato A, et al. Dev Biol, 2004 May 1. PMID 15081367
    4. Loss of RARRES1 function Promotes Follicular Lymphomagenesis and Inhibits B cell Differentiation in Mice. Patel J, et al. Int J Biol Sci, 2022. PMID 35541897, Free PMC Article
    5. CRISPR Screens Uncover Genes that Regulate Target Cell Sensitivity to the Morphogen Sonic Hedgehog. Pusapati GV, et al. Dev Cell, 2018 Jan 8. PMID 29290584, Free PMC Article

    See all (23) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables GTP binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables GTP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables structural constituent of cytoskeleton IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables structural constituent of cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell projection organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in cytoskeleton organization IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in microtubule cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in microtubule-based process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in mitotic cell cycle IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of smoothened signaling pathway IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in centriole IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cilium IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in microtubule IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in microtubule IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    tubulin delta chain
    Names
    delta-tubulin

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001199045.1 → NP_001185974.1  tubulin delta chain isoform 1

      See identical proteins and their annotated locations for NP_001185974.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1). Variants 1 and 3 encode the same isoform (1).
      Source sequence(s)
      AB024329, AK030214
      Consensus CDS
      CCDS56794.1
      UniProtKB/TrEMBL
      Q3TDA3, Q8CDD3
      Related
      ENSMUSP00000020821.4, ENSMUST00000020821.10
      Conserved Domains (2) summary
      cd02189
      Location:2 → 483
      delta_zeta_tubulin-like; The delta- and zeta-tubulin families
      pfam00091
      Location:2 → 213
      Tubulin; Tubulin/FtsZ family, GTPase domain

    2. NM_001199046.1 → NP_001185975.1  tubulin delta chain isoform 1

      See identical proteins and their annotated locations for NP_001185975.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) differs in the 5' UTR, compared to variant 1, and encodes isoform 1. Variants 1 and 3 encode the same isoform (1).
      Source sequence(s)
      AB024329, AK030214, AK169454
      Consensus CDS
      CCDS56794.1
      UniProtKB/TrEMBL
      Q3TDA3, Q8CDD3
      Related
      ENSMUSP00000103665.3, ENSMUST00000108030.9
      Conserved Domains (2) summary
      cd02189
      Location:2 → 483
      delta_zeta_tubulin-like; The delta- and zeta-tubulin families
      pfam00091
      Location:2 → 213
      Tubulin; Tubulin/FtsZ family, GTPase domain

    3. NM_001199047.1 → NP_001185976.1  tubulin delta chain isoform 2

      See identical proteins and their annotated locations for NP_001185976.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an in-frame exon in the coding region, compared to variant 1. It encodes a shorter isoform (2), compared to isoform 1. Variants 2 and 4 encode the same isoform (2).
      Source sequence(s)
      AB024329, AK030214, AK169454
      Consensus CDS
      CCDS25202.1
      UniProtKB/Swiss-Prot
      Q9R1K7
      UniProtKB/TrEMBL
      Q3TDA3, Q5SWF8
      Related
      ENSMUSP00000130909.3, ENSMUST00000167178.9
      Conserved Domains (2) summary
      cd02189
      Location:2 → 452
      delta_zeta_tubulin-like; The delta- and zeta-tubulin families
      pfam00091
      Location:2 → 213
      Tubulin; Tubulin/FtsZ family, GTPase domain

    4. NM_019756.3 → NP_062730.1  tubulin delta chain isoform 2

      See identical proteins and their annotated locations for NP_062730.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an in-frame exon in the coding region and differs in the 5' UTR, compared to variant 1. It encodes a shorter isoform (2), compared to isoform 1. Variants 2 and 4 encode the same isoform (2).
      Source sequence(s)
      AB024329, AK169454
      Consensus CDS
      CCDS25202.1
      UniProtKB/Swiss-Prot
      Q9R1K7
      UniProtKB/TrEMBL
      Q3TDA3, Q5SWF8
      Related
      ENSMUSP00000064383.7, ENSMUST00000069503.13
      Conserved Domains (2) summary
      cd02189
      Location:2 → 452
      delta_zeta_tubulin-like; The delta- and zeta-tubulin families
      pfam00091
      Location:2 → 213
      Tubulin; Tubulin/FtsZ family, GTPase domain

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000077.7 Reference GRCm39 C57BL/6J

      Range
      86435817..86462772
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006533800.4 → XP_006533863.1  tubulin delta chain isoform X1

      Conserved Domains (1) summary
      cd02189
      Location:23 → 326
      delta_zeta_tubulin-like; The delta- and zeta-tubulin families
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9R1K7.1 GenPept UniProtKB/Swiss-Prot:Q9R1K7

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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