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

Gene ID: 338348, updated on 2-Nov-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, Nov 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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