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

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

Summary

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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
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Genomic context

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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

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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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

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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

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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_001108315.1 → 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

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