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    Tbc1d9b TBC1 domain family, member 9B [ Mus musculus (house mouse) ]

    Gene ID: 76795, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Tbc1d9bprovided by MGI
    Official Full Name
    TBC1 domain family, member 9Bprovided by MGI
    Primary source
    MGI:MGI:1924045
    See related
    Ensembl:ENSMUSG00000036644 AllianceGenome:MGI:1924045
    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
    Summary
    Predicted to enable GTPase activator activity. Predicted to be located in membrane. Orthologous to human TBC1D9B (TBC1 domain family member 9B). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Ubiquitous expression in adrenal adult (RPKM 62.4), cortex adult (RPKM 36.7) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Tbc1d9b in Genome Data Viewer
    Location:
    11 B1.3; 11 30.28 cM
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (50021891..50063612)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (50131059..50172785)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene ring finger protein 130 Neighboring gene microRNA 340 Neighboring gene heterogeneous nuclear ribonucleoprotein A3 pseudogene Neighboring gene predicted gene, 53700 Neighboring gene STARR-positive B cell enhancer ABC_E1823 Neighboring gene MRN complex interacting protein Neighboring gene STARR-positive B cell enhancer ABC_E6977 Neighboring gene STARR-seq mESC enhancer starr_29389 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: 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. The LMTK1-TBC1D9B-Rab11A Cascade Regulates Dendritic Spine Formation via Endosome Trafficking. Nishino H, et al. J Neurosci, 2019 Nov 27. PMID 31628178, Free PMC Article
    2. Prediction of the coding sequences of mouse homologues of KIAA gene: IV. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries. Okazaki N, et al. DNA Res, 2004 Jun 30. PMID 15368895
    3. Fancd2 in vivo interaction network reveals a non-canonical role in mitochondrial function. Zhang T, et al. Sci Rep, 2017 Apr 5. PMID 28378742, Free PMC Article
    4. BioID screening of biotinylation sites using the avidin-like protein Tamavidin 2-REV identifies global interactors of stimulator of interferon genes (STING). Motani K, et al. J Biol Chem, 2020 Aug 7. PMID 32554809, Free PMC Article
    5. The central role of EED in the orchestration of polycomb group complexes. Cao Q, et al. Nat Commun, 2014. PMID 24457600, Free PMC Article

    See all (23) 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 (1) 

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    Clone Names

    • 2700008N14Rik

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables GTPase activator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables GTPase activator activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    TBC1 domain family member 9B

    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_001290759.1 → NP_001277688.1  TBC1 domain family member 9B isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the central coding region, compared to variant 1. The encoded isoform (2) is shorter, compared to isoform 1.
      Source sequence(s)
      AK049999, BC065130, BY207144
      UniProtKB/Swiss-Prot
      Q5SVR0
      Conserved Domains (4) summary
      smart00054
      Location:886 → 911
      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_001290760.1 → NP_001277689.1  TBC1 domain family member 9B isoform 1

      See identical proteins and their annotated locations for NP_001277689.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AK049999, BC065130, BY207144
      Consensus CDS
      CCDS70175.1
      UniProtKB/Swiss-Prot
      Q3UGF5, Q5SVR0, Q6A019, Q6P1G9, Q6PDP2, Q80ZU6, Q8C7K9, Q8CBR7, Q8CCW2, Q9CSQ2
      Related
      ENSMUSP00000098828.5, ENSMUST00000101270.5
      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 ...

    3. NM_029745.2 → NP_084021.2  TBC1 domain family member 9B isoform 3

      See identical proteins and their annotated locations for NP_084021.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an exon in the central coding region but maintains reading frame, compared to variant 1. The encoded isoform (3) is shorter, compared to isoform 1.
      Source sequence(s)
      AK035457, BC058596, BY207144
      Consensus CDS
      CCDS36146.1
      UniProtKB/Swiss-Prot
      Q5SVR0
      Related
      ENSMUSP00000090825.7, ENSMUST00000093138.13
      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 ...

    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_000077.7 Reference GRCm39 C57BL/6J

      Range
      50021891..50063612
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036157082.1 → XP_036012975.1  TBC1 domain family member 9B isoform X2

      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. XM_006534458.5 → XP_006534521.1  TBC1 domain family member 9B isoform X1

      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

    3. XM_036157083.1 → XP_036012976.1  TBC1 domain family member 9B isoform X3

      Conserved Domains (3) summary
      smart00054
      Location:565 → 590
      EFh; EF-hand, calcium binding motif
      smart00164
      Location:184 → 394
      TBC; Domain in Tre-2, BUB2p, and Cdc16p. Probable Rab-GAPs
      cl17171
      Location:1 → 72
      PH-like; Pleckstrin homology-like domain

    RNA

    1. XR_388552.5 RNA Sequence

    2. XR_388553.5 RNA Sequence

    3. XR_001780074.3 RNA Sequence

    4. XR_001780075.3 RNA Sequence

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q5SVR0.1 GenPept UniProtKB/Swiss-Prot:Q5SVR0

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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