U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Tmtc4 transmembrane O-mannosyltransferase targeting cadherins 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 290501, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Tmtc4provided by RGD
    Official Full Name
    transmembrane O-mannosyltransferase targeting cadherins 4provided by RGD
    Primary source
    RGD:1560183
    See related
    EnsemblRapid:ENSRNOG00000014310 AllianceGenome:RGD:1560183
    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
    RGD1560183
    Summary
    Predicted to enable ATPase binding activity and dolichyl-phosphate-mannose-protein mannosyltransferase activity. Predicted to be involved in endoplasmic reticulum unfolded protein response and protein O-linked mannosylation. Predicted to act upstream of or within outer hair cell apoptotic process; positive regulation of endoplasmic reticulum calcium ion concentration; and sensory perception of sound. Predicted to be located in membrane. Predicted to be active in endoplasmic reticulum. Human ortholog(s) of this gene implicated in autosomal recessive nonsyndromic deafness. Orthologous to human TMTC4 (transmembrane O-mannosyltransferase targeting cadherins 4). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 597.7), Brain (RPKM 117.6) 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 Tmtc4 in Genome Data Viewer
    Location:
    15q25
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (106406795..106463226, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (100000157..100056573, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (109338762..109394905, complement)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene propionyl-CoA carboxylase subunit alpha Neighboring gene gamma-glutamylamine cyclotransferase Neighboring gene small nucleolar RNA SNORA44 Neighboring gene sodium leak channel, non-selective

    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. Discovery of an O-mannosylation pathway selectively serving cadherins and protocadherins. Larsen ISB, et al. Proc Natl Acad Sci U S A, 2017 Oct 17. PMID 28973932, Free PMC Article
    2. Deletion of Tmtc4 activates the unfolded protein response and causes postnatal hearing loss. Li J, et al. J Clin Invest, 2018 Nov 1. PMID 30188326, Free PMC Article
    3. 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
    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

    Go to the top of the page Help

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATPase binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables dolichyl-phosphate-mannose-protein mannosyltransferase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables mannosyltransferase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in endoplasmic reticulum unfolded protein response IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within endoplasmic reticulum unfolded protein response ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within outer hair cell apoptotic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of endoplasmic reticulum calcium ion concentration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein O-linked mannosylation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in protein O-linked mannosylation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within sensory perception of sound ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in endoplasmic reticulum IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    protein O-mannosyl-transferase TMTC4
    Names
    transmembrane and TPR repeat-containing protein 4
    transmembrane and tetratricopeptide repeat containing 4
    NP_001127886.1
    XP_006252585.1
    XP_006252586.1
    XP_038949134.1
    XP_038949135.1
    XP_038949136.1
    XP_063130249.1

    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_001134414.2 → NP_001127886.1  protein O-mannosyl-transferase TMTC4

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000015
      UniProtKB/TrEMBL
      A0A8I6AB18
      Related
      ENSRNOP00000019602.6, ENSRNOT00000019602.9
      Conserved Domains (3) summary
      COG0457
      Location:481 → 739
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:482 → 510
      TPR; TPR repeat [structural motif]
      pfam08409
      Location:294 → 366
      DUF1736; Domain of unknown function (DUF1736)

    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_086033.1 Reference GRCr8

      Range
      106406795..106463226 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039093207.2 → XP_038949135.1  protein O-mannosyl-transferase TMTC4 isoform X4

      UniProtKB/TrEMBL
      A0A8I6AB18
      Conserved Domains (3) summary
      COG0457
      Location:480 → 738
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:481 → 509
      TPR; TPR repeat [structural motif]
      pfam08409
      Location:293 → 365
      DUF1736; Domain of unknown function (DUF1736)

    2. XM_006252523.5 → XP_006252585.1  protein O-mannosyl-transferase TMTC4 isoform X1

      UniProtKB/TrEMBL
      A0A8I6AB18, A0A8I6ADK7
      Related
      ENSRNOP00000092219.1, ENSRNOT00000097482.2
      Conserved Domains (5) summary
      COG0457
      Location:513 → 771
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:514 → 542
      TPR; TPR repeat [structural motif]
      pfam00515
      Location:514 → 547
      TPR_1; Tetratricopeptide repeat
      pfam08409
      Location:324 → 398
      DUF1736; Domain of unknown function (DUF1736)
      pfam13431
      Location:536 → 569
      TPR_17; Tetratricopeptide repeat

    3. XM_006252524.5 → XP_006252586.1  protein O-mannosyl-transferase TMTC4 isoform X2

      UniProtKB/TrEMBL
      A0A8I6AB18
      Conserved Domains (5) summary
      COG0457
      Location:512 → 770
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:513 → 541
      TPR; TPR repeat [structural motif]
      pfam00515
      Location:513 → 546
      TPR_1; Tetratricopeptide repeat
      pfam08409
      Location:323 → 397
      DUF1736; Domain of unknown function (DUF1736)
      pfam13431
      Location:535 → 568
      TPR_17; Tetratricopeptide repeat

    4. XM_063274179.1 → XP_063130249.1  protein O-mannosyl-transferase TMTC4 isoform X4

      UniProtKB/TrEMBL
      A0A8I6AB18

    5. XM_039093206.2 → XP_038949134.1  protein O-mannosyl-transferase TMTC4 isoform X3

      UniProtKB/TrEMBL
      A0A8I6AB18
      Conserved Domains (3) summary
      COG0457
      Location:481 → 739
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:482 → 510
      TPR; TPR repeat [structural motif]
      pfam08409
      Location:294 → 366
      DUF1736; Domain of unknown function (DUF1736)

    6. XM_039093208.2 → XP_038949136.1  protein O-mannosyl-transferase TMTC4 isoform X5

      UniProtKB/TrEMBL
      A0A8I6AB18
      Conserved Domains (3) summary
      COG0457
      Location:361 → 619
      TPR; Tetratricopeptide (TPR) repeat [General function prediction only]
      sd00006
      Location:362 → 390
      TPR; TPR repeat [structural motif]
      pfam08409
      Location:174 → 246
      DUF1736; Domain of unknown function (DUF1736)
    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