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    Tbc1d9b TBC1 domain family member 9B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 360520, updated on 13-Apr-2024

    Summary

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    Official Symbol
    Tbc1d9bprovided by RGD
    Official Full Name
    TBC1 domain family member 9Bprovided by RGD
    Primary source
    RGD:1310147
    See related
    Ensembl:ENSRNOG00000003050 AllianceGenome:RGD:1310147
    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
    RGD1310147
    Summary
    Predicted to enable GTPase activator activity. Predicted to be involved in activation of GTPase activity and intracellular protein transport. Orthologous to human TBC1D9B (TBC1 domain family member 9B). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 139.8), Heart (RPKM 132.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Tbc1d9b in Genome Data Viewer
    Location:
    10q22
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (34961012..34998227)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (34459930..34497146)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (35637103..35677335)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene RasGEF domain family, member 1C Neighboring gene ring finger protein 130 Neighboring gene microRNA 340-1 Neighboring gene uncharacterized LOC120095090 Neighboring gene MRN complex interacting protein Neighboring gene sequestosome 1

    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
    • 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. Functional dissection of Rab GTPases involved in primary cilium formation. Yoshimura S, et al. J Cell Biol, 2007 Jul 30. PMID 17646400, Free PMC Article
    2. 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
    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 GTPase activator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in activation of GTPase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    NOT involved_in regulation of cilium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    TBC1 domain family member 9B
    Names
    BUB2-like protein 1
    TBC1 domain family, member 9B (with GRAM domain)
    vascular Rab-GAP/TBC-containing

    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_001394243.1 → NP_001381172.1  TBC1 domain family member 9B isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A8I5ZMR5, F1LRL4
      Related
      ENSRNOP00000047447.5, ENSRNOT00000043085.5
      Conserved Domains (4) summary
      smart00054
      Location:887 → 912
      EFh; EF-hand, calcium binding motif
      smart00164
      Location:506 → 716
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs
      cd13354
      Location:299 → 394
      PH-GRAM2_TCB1D9_TCB1D9B; TBC1 domain family members 9 and 9B (TBC1D9 and TBC1D9B) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain, repeat 2
      cd13351
      Location:153 → 251
      PH-GRAM1_TCB1D9_TCB1D9B; TBC1 domain family members 9 and 9B (TBC1D9 and TBC1D9B) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain, repeat 1

    2. NM_001394244.1 → NP_001381173.1  TBC1 domain family member 9B isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A8I5ZMR5
      Conserved Domains (4) summary
      smart00054
      Location:887 → 912
      EFh; EF-hand, calcium binding motif
      smart00164
      Location:506 → 716
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs
      cd13354
      Location:299 → 394
      PH-GRAM2_TCB1D9_TCB1D9B; TBC1 domain family members 9 and 9B (TBC1D9 and TBC1D9B) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain, repeat 2
      cd13351
      Location:153 → 251
      PH-GRAM1_TCB1D9_TCB1D9B; TBC1 domain family members 9 and 9B (TBC1D9 and TBC1D9B) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain, repeat 1

    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_086028.1 Reference GRCr8

      Range
      34961012..34998227
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008767690.4 → XP_008765912.1  TBC1 domain family member 9B isoform X3

      UniProtKB/TrEMBL
      A0A8I5ZMR5
      Conserved Domains (5) summary
      smart00054
      Location:852 → 877
      EFh; EF-hand, calcium binding motif
      smart00164
      Location:471 → 681
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs
      cd13354
      Location:299 → 394
      PH-GRAM2_TCB1D9_TCB1D9B; TBC1 domain family members 9 and 9B (TBC1D9 and TBC1D9B) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain, repeat 2
      cd13351
      Location:153 → 251
      PH-GRAM1_TCB1D9_TCB1D9B; TBC1 domain family members 9 and 9B (TBC1D9 and TBC1D9B) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain, repeat 1
      cl08302
      Location:821 → 872
      EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

    2. XM_063269329.1 → XP_063125399.1  TBC1 domain family member 9B isoform X4

    3. XM_063269328.1 → XP_063125398.1  TBC1 domain family member 9B isoform X1

      UniProtKB/TrEMBL
      A6HDZ6

    4. XM_006246295.5 → XP_006246357.1  TBC1 domain family member 9B isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZMR5, A0A8I6AWL8
      Related
      ENSRNOP00000097642.1
      Conserved Domains (5) summary
      smart00054
      Location:887 → 912
      EFh; EF-hand, calcium binding motif
      smart00164
      Location:506 → 716
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs
      cd13354
      Location:299 → 394
      PH-GRAM2_TCB1D9_TCB1D9B; TBC1 domain family members 9 and 9B (TBC1D9 and TBC1D9B) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain, repeat 2
      cd13351
      Location:153 → 251
      PH-GRAM1_TCB1D9_TCB1D9B; TBC1 domain family members 9 and 9B (TBC1D9 and TBC1D9B) Pleckstrin Homology-Glucosyltransferases, Rab-like GTPase activators and Myotubularins (PH-GRAM) domain, repeat 1
      cl08302
      Location:856 → 907
      EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

    5. XM_063269330.1 → XP_063125400.1  TBC1 domain family member 9B isoform X5

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001108274.1: Suppressed sequence

      Description
      NM_001108274.1: This RefSeq was removed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    Nucleotide Protein Strain
    Heading Accession and Version

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