U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

TUBD1 tubulin delta 1 [ Homo sapiens (human) ]

Gene ID: 51174, updated on 2-Nov-2024

Summary

Official Symbol
TUBD1provided by HGNC
Official Full Name
tubulin delta 1provided by HGNC
Primary source
HGNC:HGNC:16811
See related
Ensembl:ENSG00000108423 MIM:607344; AllianceGenome:HGNC:16811
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TUBD
Summary
Predicted to enable GTP binding activity. Predicted to be a structural constituent of cytoskeleton. Predicted to be involved in microtubule cytoskeleton organization; mitotic cell cycle; and positive regulation of smoothened signaling pathway. Located in cytosol and nucleoplasm. [provided by Alliance of Genome Resources, Nov 2024]
Expression
Ubiquitous expression in esophagus (RPKM 3.8), thyroid (RPKM 3.7) and 25 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See TUBD1 in Genome Data Viewer
Location:
17q23.1
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (59859479..59892943, complement)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (60728231..60761691, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (57936840..57970304, complement)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene vacuole membrane protein 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:57919688-57919882 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:57923900-57924888 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8783 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12518 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12519 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:57931677-57932291 Neighboring gene RNA, U6 small nuclear 450, pseudogene Neighboring gene microRNA 21 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12520 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8784 Neighboring gene NADH:ubiquinone oxidoreductase subunit B8 pseudogene 2 Neighboring gene ribosomal protein S6 kinase B1 Neighboring gene ribosomal protein S29 pseudogene 21 Neighboring gene TBC1D3P1-DHX40P1 readthrough, transcribed pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8785 Neighboring gene ring finger protein, transmembrane 1

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.
EBI GWAS Catalog
Novel genetic loci identified for the pathophysiology of childhood obesity in the Hispanic population.
EBI GWAS Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Tat tat HIV-1 Tat K29A, K50R, and K51R lysine mutations downregulate the proportion of soluble tubulin in cells, while the majority of other lysine mutations upregulate the percentage of soluble tubulin compared with the wild-type PubMed
tat HIV-1 Tat (specifically, amino acids 38-72), enhances tubulin polymerization and triggers the mitochondrial pathway to induce T cell apoptosis as shown in vitro by the release of cytochrome c from isolated mitochondria PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • FLJ12709

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables GTP binding IBA
Inferred from Biological aspect of Ancestor
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
involved_in 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 mitotic cell cycle IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in positive regulation of smoothened signaling pathway ISS
Inferred from Sequence or Structural Similarity
more info
 
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 cytosol IDA
Inferred from Direct Assay
more info
 
is_active_in microtubule IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
tubulin delta chain
Names
delta-tubulin

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001193609.2NP_001180538.1  tubulin delta chain isoform 2

    See identical proteins and their annotated locations for NP_001180538.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate, in-frame, segment, compared to variant 1. The resulting protein (isoform 2) is shorter when it is compared to isoform 1.
    Source sequence(s)
    AK024741, BC000258, BG682935, BX119803
    Consensus CDS
    CCDS54153.1
    UniProtKB/TrEMBL
    Q5KU37
    Related
    ENSP00000342399.5, ENST00000340993.10
    Conserved Domains (1) summary
    cd02189
    Location:2397
    delta_zeta_tubulin-like; The delta- and zeta-tubulin families
  2. NM_001193610.2NP_001180539.1  tubulin delta chain isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks an alternate, in-frame, segment and uses a different splice site in the 3' coding region, compared to variant 1. The resulting protein (isoform 3) is shorter when it is compared to isoform 1.
    Source sequence(s)
    AB030837, AK024741, AK298492, BG682935, BX119803
    Consensus CDS
    CCDS54154.1
    UniProtKB/TrEMBL
    B3KMV1
    Related
    ENSP00000377785.3, ENST00000394239.7
    Conserved Domains (2) summary
    cd02189
    Location:2395
    delta_zeta_tubulin-like; The delta- and zeta-tubulin families
    pfam00091
    Location:2213
    Tubulin; Tubulin/FtsZ family, GTPase domain
  3. NM_001193611.2NP_001180540.1  tubulin delta chain isoform 4

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks two alternate, in-frame, segments in the 3' coding region, compared to variant 1. The resulting protein (isoform 4) is shorter when it is compared to isoform 1.
    Source sequence(s)
    AB030837, AB031045, AK024741, BG682935, BX119803, DA607129
    Consensus CDS
    CCDS54152.1
    UniProtKB/TrEMBL
    Q5KU37
    Related
    ENSP00000480387.1, ENST00000613721.4
    Conserved Domains (2) summary
    cd02189
    Location:2350
    delta_zeta_tubulin-like; The delta- and zeta-tubulin families
    pfam00091
    Location:2213
    Tubulin; Tubulin/FtsZ family, GTPase domain
  4. NM_001193612.2NP_001180541.1  tubulin delta chain isoform 5

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) contains an alternate exon in the 5' end, which results in the use of a downstream start codon, and lacks an alternate, in-frame segment in the 3' coding region, compared to variant 1. The resulting protein (isoform 5) has a shorter N-terminus when it is compared to isoform 1.
    Source sequence(s)
    AB030837, AK024741, AK315172, BG682935, BX119803, DA607129
    UniProtKB/Swiss-Prot
    Q9UJT1
    Conserved Domains (2) summary
    cd02189
    Location:1278
    delta_zeta_tubulin-like; The delta- and zeta-tubulin families
    pfam00091
    Location:194
    Tubulin; Tubulin/FtsZ family, GTPase domain
  5. NM_001193613.2NP_001180542.1  tubulin delta chain isoform 6

    See identical proteins and their annotated locations for NP_001180542.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) lacks three alternate exons in the 5' coding region, which results in the use of a downstream start codon, compared to variant 1. The resulting protein (isoform 6) has a shorter N-terminus when it is compared to isoform 1.
    Source sequence(s)
    AB030837, AK024741, AK301312, BG682935, BX119803
    Consensus CDS
    CCDS54151.1
    UniProtKB/Swiss-Prot
    Q9UJT1
    Related
    ENSP00000441757.1, ENST00000539018.5
    Conserved Domains (1) summary
    cd02189
    Location:1236
    delta_zeta_tubulin-like; The delta- and zeta-tubulin families
  6. NM_016261.4NP_057345.2  tubulin delta chain isoform 1

    See identical proteins and their annotated locations for NP_057345.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and it encodes the longest protein (isoform 1).
    Source sequence(s)
    AB030837, AK024741, BG682935, BX119803, DA607129
    Consensus CDS
    CCDS11620.1
    UniProtKB/Swiss-Prot
    B4DPT8, B4DW01, D3DU02, E9PCA7, E9PCQ8, Q5KU36, Q9BWG9, Q9H7Z8, Q9UJT1
    UniProtKB/TrEMBL
    B3KMV1
    Related
    ENSP00000320797.3, ENST00000325752.8
    Conserved Domains (2) summary
    cd02189
    Location:2452
    delta_zeta_tubulin-like; The delta- and zeta-tubulin families
    pfam00091
    Location:2213
    Tubulin; Tubulin/FtsZ family, GTPase domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    59859479..59892943 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047436202.1XP_047292158.1  tubulin delta chain isoform X5

  2. XM_047436200.1XP_047292156.1  tubulin delta chain isoform X3

  3. XM_011524871.4XP_011523173.1  tubulin delta chain isoform X1

    UniProtKB/TrEMBL
    B3KMV1
    Conserved Domains (2) summary
    cd02189
    Location:2405
    delta_zeta_tubulin-like; The delta- and zeta-tubulin families
    pfam00091
    Location:2213
    Tubulin; Tubulin/FtsZ family, GTPase domain
  4. XM_017024716.3XP_016880205.1  tubulin delta chain isoform X2

  5. XM_047436201.1XP_047292157.1  tubulin delta chain isoform X4

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    60728231..60761691 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054316354.1XP_054172329.1  tubulin delta chain isoform X5

  2. XM_054316352.1XP_054172327.1  tubulin delta chain isoform X3

  3. XM_054316350.1XP_054172325.1  tubulin delta chain isoform X1

  4. XM_054316351.1XP_054172326.1  tubulin delta chain isoform X2

  5. XM_054316353.1XP_054172328.1  tubulin delta chain isoform X4