U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from Nucleotide

    • Showing Current items.

    Ttc39a tetratricopeptide repeat domain 39A [ Mus musculus (house mouse) ]

    Gene ID: 230603, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Ttc39aprovided by MGI
    Official Full Name
    tetratricopeptide repeat domain 39Aprovided by MGI
    Primary source
    MGI:MGI:2444350
    See related
    Ensembl:ENSMUSG00000028555 AllianceGenome:MGI:2444350
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    4922503N01Rik
    Summary
    Predicted to be located in centrosome. Is expressed in bladder; gut; and liver. Orthologous to human TTC39A (tetratricopeptide repeat domain 39A). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in testis adult (RPKM 47.8), colon adult (RPKM 35.7) and 15 other tissues See more
    Orthologs
    human 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:
    4 C7; 4 51.29 cM
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (109251344..109301942)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (109394147..109444749)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene epidermal growth factor receptor pathway substrate 15 Neighboring gene predicted gene, 52702 Neighboring gene basic leucine zipper and W2 domains 1 pseudogene Neighboring gene Ttc39a opposite strand RNA 1 Neighboring gene STARR-seq mESC enhancer starr_11070 Neighboring gene ring finger protein 11 Neighboring gene RIKEN cDNA 4930522H14 gene Neighboring gene STARR-positive B cell enhancer ABC_E4645

    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: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. Prediction of the coding sequences of mouse homologues of KIAA gene: IV. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Jun 30. PMID 15368895
    2. Identification of transcripts with enriched expression in the developing and adult pancreas. Hoffman BG, et al. Genome Biol, 2008. PMID 18554416, Free PMC Article
    3. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article
    4. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article
    5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

    Go to the top of the page Help

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Targeted (2) 

    Pathways from PubChem

    Go to the top of the page

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC37599

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    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
    Names
    TPR 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_001145948.2 → NP_001139420.1  tetratricopeptide repeat protein 39A isoform 1

      See identical proteins and their annotated locations for NP_001139420.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      AL669905
      Consensus CDS
      CCDS51260.1
      UniProtKB/Swiss-Prot
      A2ACN9, A2ACP1, A2ACP2, A2ACP3, A2ACP4, Q6A067, Q8C612, Q8CFL5, Q8K1A9
      Related
      ENSMUSP00000102229.2, ENSMUST00000106618.8
      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

    2. NM_153392.3 → NP_700441.2  tetratricopeptide repeat protein 39A isoform 2

      See identical proteins and their annotated locations for NP_700441.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR and coding sequence compared to variant 1. The resulting isoform (2) has a shorter and distinct N-terminus compared to isoform 1.
      Source sequence(s)
      AL669905
      Consensus CDS
      CCDS18463.1
      UniProtKB/Swiss-Prot
      A2ACP1
      Related
      ENSMUSP00000066334.8, ENSMUST00000064129.14
      Conserved Domains (3) summary
      sd00006
      Location:467 → 496
      TPR; TPR repeat [structural motif]
      pfam10300
      Location:27 → 481
      DUF3808; Protein of unknown function (DUF3808)
      pfam13424
      Location:475 → 541
      TPR_12; Tetratricopeptide repeat

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000070.7 Reference GRCm39 C57BL/6J

      Range
      109251344..109301942
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006502994.5 → XP_006503057.1  tetratricopeptide repeat protein 39A isoform X1

      Conserved Domains (3) summary
      sd00006
      Location:484 → 513
      TPR; TPR repeat [structural motif]
      pfam13424
      Location:483 → 558
      TPR_12; Tetratricopeptide repeat
      pfam10300
      Location:32 → 498
      DUF3808; Protein of unknown function (DUF3808)

    2. XM_006502999.5 → XP_006503062.1  tetratricopeptide repeat protein 39A isoform X6

      Conserved Domains (1) summary
      pfam10300
      Location:32 → 498
      DUF3808; Protein of unknown function (DUF3808)

    3. XM_006502997.3 → XP_006503060.1  tetratricopeptide repeat protein 39A isoform X4

      Conserved Domains (3) summary
      sd00006
      Location:472 → 501
      TPR; TPR repeat [structural motif]
      pfam13424
      Location:471 → 546
      TPR_12; Tetratricopeptide repeat
      pfam10300
      Location:32 → 486
      DUF3808; Protein of unknown function (DUF3808)

    4. XM_030253439.2 → XP_030109299.1  tetratricopeptide repeat protein 39A isoform X7

      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_006502998.3 → XP_006503061.1  tetratricopeptide repeat protein 39A isoform X5

      Conserved Domains (3) summary
      sd00006
      Location:453 → 482
      TPR; TPR repeat [structural motif]
      pfam13424
      Location:452 → 527
      TPR_12; Tetratricopeptide repeat
      pfam10300
      Location:1 → 467
      DUF3808; Protein of unknown function (DUF3808)

    6. XM_030253440.2 → XP_030109300.1  tetratricopeptide repeat protein 39A isoform X8

      Conserved Domains (1) summary
      pfam10300
      Location:27 → 481
      DUF3808; Protein of unknown function (DUF3808)

    7. XM_006502996.4 → XP_006503059.1  tetratricopeptide repeat protein 39A isoform X3

      Conserved Domains (3) summary
      sd00006
      Location:479 → 508
      TPR; TPR repeat [structural motif]
      pfam13424
      Location:478 → 553
      TPR_12; Tetratricopeptide repeat
      pfam10300
      Location:27 → 493
      DUF3808; Protein of unknown function (DUF3808)

    8. XM_006502995.5 → XP_006503058.1  tetratricopeptide repeat protein 39A isoform X2

      Conserved Domains (3) summary
      sd00006
      Location:481 → 510
      TPR; TPR repeat [structural motif]
      pfam13424
      Location:480 → 555
      TPR_12; Tetratricopeptide repeat
      pfam10300
      Location:29 → 495
      DUF3808; Protein of unknown function (DUF3808)

    RNA

    1. XR_003954911.1 RNA Sequence

    2. XR_003954912.2 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    A2ACP1.1 GenPept UniProtKB/Swiss-Prot:A2ACP1

    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