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

Gene ID: 56427, updated on 11-Apr-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, Apr 2022]
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. 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
  2. Cloning of the canine delta tubulin cDNA (TUBD) and mapping to CFA9. Sidjanin DJ, et al. Anim Genet, 2002 Apr. PMID 12047234
  3. Tissue-specific expression and subcellular localisation of mammalian delta-tubulin. Smrzka OW, et al. Curr Biol, 2000 Apr 6. PMID 10753753
  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 nucleotide 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
  
Process Evidence Code Pubs
acts_upstream_of_or_within cell projection 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
  
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of smoothened signaling pathway IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in cell projection 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 cytoskeleton IEA
Inferred from Electronic Annotation
more info
  
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 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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