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

    Gene ID: 360702, updated on 9-Dec-2024

    Summary

    Official Symbol
    Ttc3provided by RGD
    Official Full Name
    tetratricopeptide repeat domain 3provided by RGD
    Primary source
    RGD:1308654
    See related
    EnsemblRapid: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 negative regulation of cell differentiation; protein K48-linked ubiquitination; and ubiquitin-dependent protein catabolic process. Predicted to be located in cytosol; nuclear lumen; and vacuole. Orthologous to human TTC3 (tetratricopeptide repeat domain 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 1044.2), Heart (RPKM 315.3) and 9 other tissues See more
    Orthologs
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    Genomic context

    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

    Expression

    • 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

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables transferase activity 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

    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)

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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_001108315.1NP_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, ENSRNOT00000065600.5
      Conserved Domains (4) summary
      sd00006
      Location:251278
      TPR; TPR repeat [structural motif]
      pfam03528
      Location:15011828
      Rabaptin; Rabaptin
      pfam13414
      Location:251313
      TPR_11; TPR repeat
      pfam13639
      Location:19501991
      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_039088473.2XP_038944401.1  E3 ubiquitin-protein ligase TTC3 isoform X12

      UniProtKB/TrEMBL
      A0A8I6A4G2
      Conserved Domains (6) summary
      PTZ00121
      Location:11521395
      PTZ00121; MAEBL; Provisional
      sd00006
      Location:182209
      TPR; TPR repeat [structural motif]
      pfam13424
      Location:231293
      TPR_12; Tetratricopeptide repeat
      cd16481
      Location:16221662
      RING-H2_TTC3; RING finger, H2 subclass, found in Tetratricopeptide repeat protein 3 (TTC3) and similar proteins
      pfam00515
      Location:269296
      TPR_1; Tetratricopeptide repeat
      pfam19179
      Location:313428
      DUF5861; Family of unknown function (DUF5861)
    2. XM_063270621.1XP_063126691.1  E3 ubiquitin-protein ligase TTC3 isoform X11

      UniProtKB/TrEMBL
      A0A8I6A4G2
    3. XM_063270625.1XP_063126695.1  E3 ubiquitin-protein ligase TTC3 isoform X13

      UniProtKB/TrEMBL
      A6KPW8
    4. XM_063270627.1XP_063126697.1  E3 ubiquitin-protein ligase TTC3 isoform X13

      UniProtKB/TrEMBL
      A6KPW8
    5. XM_063270629.1XP_063126699.1  E3 ubiquitin-protein ligase TTC3 isoform X14

      UniProtKB/TrEMBL
      A6KPW8
    6. XM_039088466.2XP_038944394.2  E3 ubiquitin-protein ligase TTC3 isoform X7

      UniProtKB/TrEMBL
      A0A8I6AR04, A6KPW6
    7. XM_039088467.2XP_038944395.1  E3 ubiquitin-protein ligase TTC3 isoform X9

      UniProtKB/Swiss-Prot
      D3ZSP7
      Conserved Domains (6) summary
      PTZ00121
      Location:14811701
      PTZ00121; MAEBL; Provisional
      PLN03088
      Location:256400
      PLN03088; SGT1, suppressor of G2 allele of SKP1; Provisional
      sd00006
      Location:251278
      TPR; TPR repeat [structural motif]
      cd16481
      Location:19281968
      RING-H2_TTC3; RING finger, H2 subclass, found in Tetratricopeptide repeat protein 3 (TTC3) and similar proteins
      pfam00515
      Location:598625
      TPR_1; Tetratricopeptide repeat
      pfam19179
      Location:642757
      DUF5861; Family of unknown function (DUF5861)
    8. XM_039088461.2XP_038944389.1  E3 ubiquitin-protein ligase TTC3 isoform X5

      UniProtKB/Swiss-Prot
      D3ZSP7
      Conserved Domains (6) summary
      PTZ00121
      Location:14801723
      PTZ00121; MAEBL; Provisional
      PLN03088
      Location:256400
      PLN03088; SGT1, suppressor of G2 allele of SKP1; Provisional
      sd00006
      Location:251278
      TPR; TPR repeat [structural motif]
      cd16481
      Location:19501990
      RING-H2_TTC3; RING finger, H2 subclass, found in Tetratricopeptide repeat protein 3 (TTC3) and similar proteins
      pfam00515
      Location:598625
      TPR_1; Tetratricopeptide repeat
      pfam19179
      Location:642757
      DUF5861; Family of unknown function (DUF5861)
    9. XM_063270620.1XP_063126690.1  E3 ubiquitin-protein ligase TTC3 isoform X8

      UniProtKB/Swiss-Prot
      D3ZSP7
    10. XM_063270615.1XP_063126685.1  E3 ubiquitin-protein ligase TTC3 isoform X1

      UniProtKB/Swiss-Prot
      D3ZSP7
    11. XM_039088460.2XP_038944388.2  E3 ubiquitin-protein ligase TTC3 isoform X3

      UniProtKB/Swiss-Prot
      D3ZSP7
    12. XM_063270616.1XP_063126686.1  E3 ubiquitin-protein ligase TTC3 isoform X2

      UniProtKB/Swiss-Prot
      D3ZSP7
    13. XM_063270617.1XP_063126687.1  E3 ubiquitin-protein ligase TTC3 isoform X4

      UniProtKB/TrEMBL
      A0A8I5Y675
      Related
      ENSRNOP00000077352.2, ENSRNOT00000105771.2
    14. XM_063270619.1XP_063126689.1  E3 ubiquitin-protein ligase TTC3 isoform X6

      UniProtKB/TrEMBL
      A0A8I6ABF8, A6KPW5
    15. XM_063270622.1XP_063126692.1  E3 ubiquitin-protein ligase TTC3 isoform X11

      UniProtKB/TrEMBL
      A0A8I6A4G2
    16. XM_063270624.1XP_063126694.1  E3 ubiquitin-protein ligase TTC3 isoform X13

      UniProtKB/TrEMBL
      A6KPW8
    17. XM_063270626.1XP_063126696.1  E3 ubiquitin-protein ligase TTC3 isoform X13

      UniProtKB/TrEMBL
      A6KPW8
    18. XM_063270628.1XP_063126698.1  E3 ubiquitin-protein ligase TTC3 isoform X14

      UniProtKB/TrEMBL
      A6KPW8
    19. XM_039088464.2XP_038944392.2  E3 ubiquitin-protein ligase TTC3 isoform X7

      UniProtKB/TrEMBL
      A0A8I6AR04, A6KPW6
    20. XM_039088465.2XP_038944393.2  E3 ubiquitin-protein ligase TTC3 isoform X7

      UniProtKB/TrEMBL
      A0A8I6AR04, A6KPW6
    21. XM_039088471.2XP_038944399.2  E3 ubiquitin-protein ligase TTC3 isoform X10

      UniProtKB/TrEMBL
      A0A8I6A4G2