U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Ttc39a tetratricopeptide repeat domain 39A [ Rattus norvegicus (Norway rat) ]

    Gene ID: 298366, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Symbol
    Ttc39aprovided by RGD
    Full Name
    tetratricopeptide repeat domain 39Aprovided by RGD
    Primary source
    RGD:1311126
    See related
    EnsemblRapid:ENSRNOG00000047573 AllianceGenome:RGD:1311126
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    RGD1311126
    Summary
    Predicted to be located in centrosome. Orthologous to human TTC39A (tetratricopeptide repeat domain 39A). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Testes (RPKM 56.8), Spleen (RPKM 41.7) 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 Ttc39a in Genome Data Viewer
    Location:
    5q35
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (129379560..129441779)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (124165102..124204740)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (129024505..129083226)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC108351012 Neighboring gene calreticulin 4 Neighboring gene epidermal growth factor receptor pathway substrate 15 Neighboring gene ring finger protein 11 Neighboring gene similar to human chromosome 1 open reading frame 185 Neighboring gene RNA, U4 small nuclear 2

    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. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by RGD

    Component Evidence Code Pubs
    located_in centrosome IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in centrosome ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    tetratricopeptide repeat protein 39A

    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_001415826.1 → NP_001402755.1  tetratricopeptide repeat protein 39A

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      A6JYY5, M0R3L2
      Related
      ENSRNOP00000101187.1, ENSRNOT00000144812.1

    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_086023.1 Reference GRCr8

      Range
      129379560..129441779
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063287386.1 → XP_063143456.1  tetratricopeptide repeat protein 39A isoform X1

      UniProtKB/TrEMBL
      A6JYY5, F7F7D5, M0R3L2
      Related
      ENSRNOP00000013459.6, ENSRNOT00000013459.8

    2. XM_063287387.1 → XP_063143457.1  tetratricopeptide repeat protein 39A isoform X3

      UniProtKB/TrEMBL
      A6JYY5, M0R3L2, M0RC03
      Related
      ENSRNOP00000099685.1, ENSRNOT00000128949.1

    3. XM_008763953.4 → XP_008762175.1  tetratricopeptide repeat protein 39A isoform X4

      UniProtKB/TrEMBL
      A6JYY6
      Conserved Domains (3) summary
      sd00006
      Location:441 → 470
      TPR; TPR repeat [structural motif]
      pfam13424
      Location:440 → 515
      TPR_12; Tetratricopeptide repeat
      pfam10300
      Location:1 → 455
      DUF3808; Protein of unknown function (DUF3808)

    4. XM_039109557.2 → XP_038965485.1  tetratricopeptide repeat protein 39A isoform X4

      UniProtKB/TrEMBL
      A6JYY6
      Conserved Domains (3) summary
      sd00006
      Location:441 → 470
      TPR; TPR repeat [structural motif]
      pfam13424
      Location:440 → 515
      TPR_12; Tetratricopeptide repeat
      pfam10300
      Location:1 → 455
      DUF3808; Protein of unknown function (DUF3808)

    5. XM_006238582.5 → XP_006238644.1  tetratricopeptide repeat protein 39A isoform X2

      See identical proteins and their annotated locations for XP_006238644.1

      UniProtKB/TrEMBL
      A6JYY5, B5DEK2, D4A4G3, M0R3L2
      Related
      ENSRNOP00000067106.3, ENSRNOT00000072396.4
      Conserved Domains (3) summary
      sd00006
      Location:469 → 498
      TPR; TPR repeat [structural motif]
      pfam10300
      Location:29 → 483
      DUF3808; Protein of unknown function (DUF3808)
      pfam13424
      Location:477 → 543
      TPR_12; Tetratricopeptide repeat

    6. XM_039109556.2 → XP_038965484.1  tetratricopeptide repeat protein 39A isoform X4

      UniProtKB/TrEMBL
      A6JYY6
      Conserved Domains (3) summary
      sd00006
      Location:441 → 470
      TPR; TPR repeat [structural motif]
      pfam13424
      Location:440 → 515
      TPR_12; Tetratricopeptide repeat
      pfam10300
      Location:1 → 455
      DUF3808; Protein of unknown function (DUF3808)

    7. XM_017593270.3 → XP_017448759.1  tetratricopeptide repeat protein 39A isoform X5

    Nucleotide Protein Strain
    Heading Accession and Version

    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