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    Tgfbrap1 transforming growth factor, beta receptor associated protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 301373, updated on 17-Aug-2024

    Summary

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    Official Symbol
    Tgfbrap1provided by RGD
    Official Full Name
    transforming growth factor, beta receptor associated protein 1provided by RGD
    Primary source
    RGD:1310772
    See related
    EnsemblRapid:ENSRNOG00000024562 AllianceGenome:RGD:1310772
    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
    Summary
    Predicted to enable SMAD binding activity and transforming growth factor beta receptor binding activity. Predicted to be involved in several processes, including autophagy; endosomal vesicle fusion; and endosome to lysosome transport. Predicted to be located in early endosome. Predicted to be part of CORVET complex. Predicted to be active in cytoplasm and membrane. Orthologous to human TGFBRAP1 (transforming growth factor beta receptor associated protein 1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Kidney (RPKM 62.1), Adrenal (RPKM 42.7) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tgfbrap1 in Genome Data Viewer
    Location:
    9q22
    Exon count:
    15
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 9 NC_086027.1 (52813087..52863441, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 9 NC_051344.1 (45320975..45371329, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 9 NC_005108.4 (49852560..49902943, complement)

    Chromosome 9 - NC_086027.1Genomic Context describing neighboring genes Neighboring gene G protein-coupled receptor 45 Neighboring gene heterogeneous nuclear ribonucleoprotein A1, pseudogene 34 Neighboring gene actin related protein 2/3 complex, subunit 5-like, pseudogene 1 Neighboring gene similar to human chromosome 2 open reading frame 49 Neighboring gene four and a half LIM domains 2

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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

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    Related articles in PubMed

    1. Transforming growth factor-beta receptor-associated protein 1 is a Smad4 chaperone. Wurthner JU, et al. J Biol Chem, 2001 Jun 1. PMID 11278302
    2. Mammalian CORVET is required for fusion and conversion of distinct early endosome subpopulations. Perini ED, et al. Traffic, 2014 Dec. PMID 25266290
    3. 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

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables SMAD binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transforming growth factor beta receptor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in autophagy IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endosomal vesicle fusion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in endosomal vesicle fusion ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in endosome to lysosome transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in intracellular protein transport IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    part_of CORVET complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in early endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in intracellular membrane-bounded organelle ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in membrane ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    transforming growth factor-beta receptor-associated protein 1

    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_001106907.2 → NP_001100377.2  transforming growth factor-beta receptor-associated protein 1 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A0G2JV19, D3ZXT8
      Related
      ENSRNOP00000056202.4, ENSRNOT00000037094.8
      Conserved Domains (4) summary
      pfam10366
      Location:490 → 592
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam00637
      Location:627 → 741
      Clathrin; Region in Clathrin and VPS
      pfam10367
      Location:780 → 888
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:76 → 325
      CNH; CNH domain

    2. NM_001393981.1 → NP_001380910.1  transforming growth factor-beta receptor-associated protein 1 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000009
      UniProtKB/TrEMBL
      A0A0G2JV19
      Conserved Domains (4) summary
      pfam10366
      Location:448 → 550
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam00637
      Location:585 → 699
      Clathrin; Region in Clathrin and VPS
      pfam10367
      Location:738 → 846
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:34 → 283
      CNH; CNH domain

    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_086027.1 Reference GRCr8

      Range
      52813087..52863441 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039083260.2 → XP_038939188.1  transforming growth factor-beta receptor-associated protein 1 isoform X1

      UniProtKB/TrEMBL
      A0A0G2JV19, D3ZXT8
      Conserved Domains (4) summary
      pfam10366
      Location:490 → 592
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam00637
      Location:627 → 741
      Clathrin; Region in Clathrin and VPS
      pfam10367
      Location:780 → 888
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:76 → 325
      CNH; CNH domain

    2. XM_039083262.2 → XP_038939190.1  transforming growth factor-beta receptor-associated protein 1 isoform X3

      UniProtKB/TrEMBL
      A0A0G2JV19
      Conserved Domains (4) summary
      pfam10366
      Location:448 → 550
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam00637
      Location:585 → 699
      Clathrin; Region in Clathrin and VPS
      pfam10367
      Location:738 → 846
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:34 → 283
      CNH; CNH domain

    3. XM_006244792.5 → XP_006244854.1  transforming growth factor-beta receptor-associated protein 1 isoform X3

      See identical proteins and their annotated locations for XP_006244854.1

      UniProtKB/TrEMBL
      A0A0G2JV19
      Conserved Domains (4) summary
      pfam10366
      Location:448 → 550
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam00637
      Location:585 → 699
      Clathrin; Region in Clathrin and VPS
      pfam10367
      Location:738 → 846
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:34 → 283
      CNH; CNH domain

    4. XM_006244789.5 → XP_006244851.1  transforming growth factor-beta receptor-associated protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A0G2JV19, A0A8I6APH2
      Related
      ENSRNOP00000096555.1, ENSRNOT00000100157.2
      Conserved Domains (4) summary
      pfam00637
      Location:594 → 709
      Clathrin; Region in Clathrin and VPS
      pfam10366
      Location:457 → 559
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam10367
      Location:747 → 855
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:43 → 292
      CNH; CNH domain

    5. XM_006244791.5 → XP_006244853.1  transforming growth factor-beta receptor-associated protein 1 isoform X3

      See identical proteins and their annotated locations for XP_006244853.1

      UniProtKB/TrEMBL
      A0A0G2JV19
      Conserved Domains (4) summary
      pfam10366
      Location:448 → 550
      Vps39_1; Vacuolar sorting protein 39 domain 1
      pfam00637
      Location:585 → 699
      Clathrin; Region in Clathrin and VPS
      pfam10367
      Location:738 → 846
      Vps39_2; Vacuolar sorting protein 39 domain 2
      cl02434
      Location:34 → 283
      CNH; CNH domain
    Nucleotide Protein Strain
    Heading Accession and Version

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