U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Ttc3 tetratricopeptide repeat domain 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 360702, updated on 11-Apr-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Ttc3provided by RGD
    Official Full Name
    tetratricopeptide repeat domain 3provided by RGD
    Primary source
    RGD:1308654
    See related
    Ensembl:ENSRNOG00000001682 AllianceGenome:RGD:1308654
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable ubiquitin-protein transferase activity. Predicted to be involved in protein K48-linked ubiquitination and ubiquitin-dependent protein catabolic process. Predicted to act upstream of or within negative regulation of cell morphogenesis involved in differentiation and negative regulation of neuron differentiation. Predicted to be located in cytosol; nuclear lumen; and vacuole. Orthologous to human TTC3 (tetratricopeptide repeat domain 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Brain (RPKM 1044.2), Heart (RPKM 315.3) and 9 other tissues See more
    Orthologs
    human mouse all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See Ttc3 in Genome Data Viewer
    Location:
    11q11
    Exon count:
    49
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (47158766..47258612)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (33689119..33788976)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (34598324..34739986)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene holocarboxylase synthetase Neighboring gene ripply transcriptional repressor 3 Neighboring gene phosphatidylinositol glycan anchor biosynthesis, class P Neighboring gene U1 spliceosomal RNA Neighboring gene large ribosomal subunit protein uL5-like Neighboring gene VPS26 endosomal protein sorting factor C Neighboring gene dual specificity tyrosine phosphorylation regulated kinase 1A

    Genomic regions, transcripts, and products

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. The DCR protein TTC3 affects differentiation and Golgi compactness in neurons through specific actin-regulating pathways. Berto GE, et al. PLoS One, 2014. PMID 24695496, Free PMC Article
    2. The Down syndrome critical region protein TTC3 inhibits neuronal differentiation via RhoA and Citron kinase. Berto G, et al. J Cell Sci, 2007 Jun 1. PMID 17488780
    3. The E3 ligase TTC3 facilitates ubiquitination and degradation of phosphorylated Akt. Suizu F, et al. Dev Cell, 2009 Dec. PMID 20059950
    4. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin-protein transferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables ubiquitin-protein transferase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ubiquitin-protein transferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in negative regulation of axon extension ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of neuron differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein K48-linked ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in protein K48-linked ubiquitination ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein ubiquitination IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ubiquitin-dependent protein catabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in Golgi apparatus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in vacuole ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    E3 ubiquitin-protein ligase TTC3
    Names
    RING-type E3 ubiquitin transferase TTC3
    TPR repeat protein D
    NP_001101785.1
    XP_038944388.2
    XP_038944389.1
    XP_038944392.2
    XP_038944393.2
    XP_038944394.2
    XP_038944395.1
    XP_038944399.2
    XP_038944401.1
    XP_063126685.1
    XP_063126686.1
    XP_063126687.1
    XP_063126689.1
    XP_063126690.1
    XP_063126691.1
    XP_063126692.1
    XP_063126694.1
    XP_063126695.1
    XP_063126696.1
    XP_063126697.1
    XP_063126698.1
    XP_063126699.1

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    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_001108315.1 → NP_001101785.1  E3 ubiquitin-protein ligase TTC3

      See identical proteins and their annotated locations for NP_001101785.1

      Status: PROVISIONAL

      Source sequence(s)
      CH474083
      UniProtKB/Swiss-Prot
      D3ZSP7
      UniProtKB/TrEMBL
      A0A8L2QUD9, A6KPW4
      Related
      ENSRNOP00000059742.4, ENSRNOT00000065600.4
      Conserved Domains (4) summary
      sd00006
      Location:251 → 278
      TPR; TPR repeat [structural motif]
      pfam03528
      Location:1501 → 1828
      Rabaptin; Rabaptin
      pfam13414
      Location:251 → 313
      TPR_11; TPR repeat
      pfam13639
      Location:1950 → 1991
      zf-RING_2; Ring finger domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086029.1 Reference GRCr8

      Range
      47158766..47258612
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039088473.2 → XP_038944401.1  E3 ubiquitin-protein ligase TTC3 isoform X12

      UniProtKB/TrEMBL
      A0A8I6A4G2
      Conserved Domains (6) summary
      PTZ00121
      Location:1152 → 1395
      PTZ00121; MAEBL; Provisional
      sd00006
      Location:182 → 209
      TPR; TPR repeat [structural motif]
      pfam13424
      Location:231 → 293
      TPR_12; Tetratricopeptide repeat
      cd16481
      Location:1622 → 1662
      RING-H2_TTC3; RING finger, H2 subclass, found in Tetratricopeptide repeat protein 3 (TTC3) and similar proteins
      pfam00515
      Location:269 → 296
      TPR_1; Tetratricopeptide repeat
      pfam19179
      Location:313 → 428
      DUF5861; Family of unknown function (DUF5861)

    2. XM_063270621.1 → XP_063126691.1  E3 ubiquitin-protein ligase TTC3 isoform X11

    3. XM_063270625.1 → XP_063126695.1  E3 ubiquitin-protein ligase TTC3 isoform X13

    4. XM_063270627.1 → XP_063126697.1  E3 ubiquitin-protein ligase TTC3 isoform X13

    5. XM_063270629.1 → XP_063126699.1  E3 ubiquitin-protein ligase TTC3 isoform X14

    6. XM_039088466.2 → XP_038944394.2  E3 ubiquitin-protein ligase TTC3 isoform X7

    7. XM_039088467.2 → XP_038944395.1  E3 ubiquitin-protein ligase TTC3 isoform X9

      UniProtKB/Swiss-Prot
      D3ZSP7
      Conserved Domains (6) summary
      PTZ00121
      Location:1481 → 1701
      PTZ00121; MAEBL; Provisional
      PLN03088
      Location:256 → 400
      PLN03088; SGT1, suppressor of G2 allele of SKP1; Provisional
      sd00006
      Location:251 → 278
      TPR; TPR repeat [structural motif]
      cd16481
      Location:1928 → 1968
      RING-H2_TTC3; RING finger, H2 subclass, found in Tetratricopeptide repeat protein 3 (TTC3) and similar proteins
      pfam00515
      Location:598 → 625
      TPR_1; Tetratricopeptide repeat
      pfam19179
      Location:642 → 757
      DUF5861; Family of unknown function (DUF5861)

    8. XM_039088461.2 → XP_038944389.1  E3 ubiquitin-protein ligase TTC3 isoform X5

      UniProtKB/Swiss-Prot
      D3ZSP7
      Conserved Domains (6) summary
      PTZ00121
      Location:1480 → 1723
      PTZ00121; MAEBL; Provisional
      PLN03088
      Location:256 → 400
      PLN03088; SGT1, suppressor of G2 allele of SKP1; Provisional
      sd00006
      Location:251 → 278
      TPR; TPR repeat [structural motif]
      cd16481
      Location:1950 → 1990
      RING-H2_TTC3; RING finger, H2 subclass, found in Tetratricopeptide repeat protein 3 (TTC3) and similar proteins
      pfam00515
      Location:598 → 625
      TPR_1; Tetratricopeptide repeat
      pfam19179
      Location:642 → 757
      DUF5861; Family of unknown function (DUF5861)

    9. XM_063270620.1 → XP_063126690.1  E3 ubiquitin-protein ligase TTC3 isoform X8

    10. XM_063270615.1 → XP_063126685.1  E3 ubiquitin-protein ligase TTC3 isoform X1

    11. XM_039088460.2 → XP_038944388.2  E3 ubiquitin-protein ligase TTC3 isoform X3

    12. XM_063270616.1 → XP_063126686.1  E3 ubiquitin-protein ligase TTC3 isoform X2

    13. XM_063270617.1 → XP_063126687.1  E3 ubiquitin-protein ligase TTC3 isoform X4

    14. XM_063270619.1 → XP_063126689.1  E3 ubiquitin-protein ligase TTC3 isoform X6

    15. XM_063270622.1 → XP_063126692.1  E3 ubiquitin-protein ligase TTC3 isoform X11

    16. XM_063270624.1 → XP_063126694.1  E3 ubiquitin-protein ligase TTC3 isoform X13

    17. XM_063270626.1 → XP_063126696.1  E3 ubiquitin-protein ligase TTC3 isoform X13

    18. XM_063270628.1 → XP_063126698.1  E3 ubiquitin-protein ligase TTC3 isoform X14

    19. XM_039088464.2 → XP_038944392.2  E3 ubiquitin-protein ligase TTC3 isoform X7

    20. XM_039088465.2 → XP_038944393.2  E3 ubiquitin-protein ligase TTC3 isoform X7

    21. XM_039088471.2 → XP_038944399.2  E3 ubiquitin-protein ligase TTC3 isoform X10

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    D3ZSP7.3 GenPept UniProtKB/Swiss-Prot:D3ZSP7

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools
    Miscellaneous