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    Ttc16 tetratricopeptide repeat domain 16 [ Mus musculus (house mouse) ]

    Gene ID: 338348, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Ttc16provided by MGI
    Official Full Name
    tetratricopeptide repeat domain 16provided by MGI
    Primary source
    MGI:MGI:2443048
    See related
    Ensembl:ENSMUSG00000039021 AllianceGenome:MGI:2443048
    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
    1200002K10Rik
    Summary
    Is expressed in hip; sensory organ; and skeleton. Orthologous to human TTC16 (tetratricopeptide repeat domain 16). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in testis adult (RPKM 34.7), ovary adult (RPKM 5.8) and 8 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Ttc16 in Genome Data Viewer
    Location:
    2 B; 2 22.09 cM
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 2 NC_000068.8 (32647038..32665688, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 2 NC_000068.7 (32757026..32775784, complement)

    Chromosome 2 - NC_000068.8Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:32577778-32577887 Neighboring gene STARR-positive B cell enhancer ABC_E3368 Neighboring gene predicted gene, 33457 Neighboring gene RIKEN cDNA 6330409D20 gene Neighboring gene SH2 domain containing 3C Neighboring gene STARR-positive B cell enhancer ABC_E411 Neighboring gene torsin family 2, member A Neighboring gene STARR-positive B cell enhancer ABC_E10097 Neighboring gene CapStarr-seq enhancer MGSCv37_chr2:32633660-32633899 Neighboring gene cilia and flagella associated protein 157 Neighboring gene peptidyl-tRNA hydrolase 1 homolog Neighboring gene syntaxin binding protein 1 Neighboring gene predicted gene, 24165

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data 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

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    Related articles in PubMed

    1. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
    2. 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
    3. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    4. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
    5. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (2) 

    General gene information

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    Markers

    Homology

    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
    is_active_in cellular_component ND
    No biological Data available
    more info
    		  

    General protein information

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    Preferred Names
    tetratricopeptide repeat protein 16
    Names
    TPR repeat protein 16

    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_001290563.1 → NP_001277492.1  tetratricopeptide repeat protein 16 isoform b

      See identical proteins and their annotated locations for NP_001277492.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) contains an alternate 3' terminal exon and it thus differs in the 3' coding region and 3' UTR, compared to variant 1. The encoded isoform (b) has a distinct C-terminus and is shorter than isoform a.
      Source sequence(s)
      AK089384, AK160435
      Consensus CDS
      CCDS79777.1
      UniProtKB/TrEMBL
      Q3TV33
      Related
      ENSMUSP00000088585.6, ENSMUST00000091059.12
      Conserved Domains (4) summary
      sd00006
      Location:75 → 103
      TPR; TPR repeat [structural motif]
      pfam00515
      Location:382 → 410
      TPR_1; Tetratricopeptide repeat
      pfam12895
      Location:121 → 207
      ANAPC3; Anaphase-promoting complex, cyclosome, subunit 3
      pfam13414
      Location:76 → 140
      TPR_11; TPR repeat

    2. NM_001290564.1 → NP_001277493.1  tetratricopeptide repeat protein 16 isoform c

      See identical proteins and their annotated locations for NP_001277493.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) contains alternate 5' exon structure, and it thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (c) is shorter at the N-terminus, compared to isoform a. Variants 3, 4 and 5 all encode isoform c.
      Source sequence(s)
      AI661256, AK028040, AK133273, AL772271
      Consensus CDS
      CCDS71030.1
      UniProtKB/TrEMBL
      B2RU68, Q3V0B6
      Related
      ENSMUSP00000068977.3, ENSMUST00000066478.9
      Conserved Domains (4) summary
      COG0457
      Location:30 → 324
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:18 → 46
      TPR; TPR repeat [structural motif]
      pfam00515
      Location:325 → 353
      TPR_1; Tetratricopeptide repeat
      pfam13414
      Location:324 → 394
      TPR_11; TPR repeat

    3. NM_001290566.1 → NP_001277495.1  tetratricopeptide repeat protein 16 isoform c

      See identical proteins and their annotated locations for NP_001277495.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) contains alternate 5' exon structure, and it thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (c) is shorter at the N-terminus, compared to isoform a. Variants 3, 4 and 5 all encode isoform c.
      Source sequence(s)
      AI661256, AK028040, AK133273, AL772271
      Consensus CDS
      CCDS71030.1
      UniProtKB/TrEMBL
      B2RU68, Q3V0B6
      Related
      ENSMUSP00000124915.2, ENSMUST00000161089.8
      Conserved Domains (4) summary
      COG0457
      Location:30 → 324
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:18 → 46
      TPR; TPR repeat [structural motif]
      pfam00515
      Location:325 → 353
      TPR_1; Tetratricopeptide repeat
      pfam13414
      Location:324 → 394
      TPR_11; TPR repeat

    4. NM_001290567.1 → NP_001277496.1  tetratricopeptide repeat protein 16 isoform c

      See identical proteins and their annotated locations for NP_001277496.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (5) contains alternate 5' exon structure, and it thus differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream in-frame start codon, compared to variant 1. The encoded isoform (c) is shorter at the N-terminus, compared to isoform a. Variants 3, 4 and 5 all encode isoform c.
      Source sequence(s)
      AI661256, AK028040, AK133273, AL772271
      Consensus CDS
      CCDS71030.1
      UniProtKB/TrEMBL
      B2RU68, Q3V0B6
      Related
      ENSMUSP00000123927.2, ENSMUST00000161950.8
      Conserved Domains (4) summary
      COG0457
      Location:30 → 324
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:18 → 46
      TPR; TPR repeat [structural motif]
      pfam00515
      Location:325 → 353
      TPR_1; Tetratricopeptide repeat
      pfam13414
      Location:324 → 394
      TPR_11; TPR repeat

    5. NM_177384.3 → NP_796358.2  tetratricopeptide repeat protein 16 isoform a

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longest isoform (a).
      Source sequence(s)
      AI661256, AK089384, AK133273
      Consensus CDS
      CCDS15930.2
      UniProtKB/TrEMBL
      B2RU68, E9PZ84
      Related
      ENSMUSP00000124031.2, ENSMUST00000161430.8
      Conserved Domains (4) summary
      COG0457
      Location:87 → 381
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:75 → 103
      TPR; TPR repeat [structural motif]
      pfam00515
      Location:382 → 410
      TPR_1; Tetratricopeptide repeat
      pfam13414
      Location:381 → 451
      TPR_11; TPR 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_000068.8 Reference GRCm39 C57BL/6J

      Range
      32647038..32665688 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006498139.5 → XP_006498202.1  tetratricopeptide repeat protein 16 isoform X1

      UniProtKB/TrEMBL
      B2RU68
      Conserved Domains (3) summary
      TIGR00990
      Location:57 → 441
      3a0801s09; mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)
      sd00006
      Location:59 → 87
      TPR; TPR repeat [structural motif]
      pfam17823
      Location:501 → 768
      DUF5585; Family of unknown function (DUF5585)

    2. XM_036162338.1 → XP_036018231.1  tetratricopeptide repeat protein 16 isoform X2

      UniProtKB/TrEMBL
      B2RU68
      Conserved Domains (3) summary
      COG0457
      Location:2 → 191
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      TIGR00990
      Location:115 → 267
      3a0801s09; mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70)
      sd00006
      Location:157 → 183
      TPR; TPR repeat [structural motif]
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8C1F5.1 GenPept UniProtKB/Swiss-Prot:Q8C1F5

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