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    Sh3pxd2b SH3 and PX domains 2B [ Rattus norvegicus (Norway rat) ]

    Gene ID: 303021, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Sh3pxd2bprovided by RGD
    Official Full Name
    SH3 and PX domains 2Bprovided by RGD
    Primary source
    RGD:1309926
    See related
    EnsemblRapid:ENSRNOG00000004063 AllianceGenome:RGD:1309926
    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
    RGD1309926
    Summary
    Predicted to enable SH2 domain binding activity and phosphatidylinositol phosphate binding activity. Predicted to be involved in several processes, including osteoblast fate commitment; podosome assembly; and skeletal system development. Predicted to be located in cytoplasm and podosome. Human ortholog(s) of this gene implicated in Frank-Ter Haar syndrome. Orthologous to human SH3PXD2B (SH3 and PX domains 2B). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Adrenal (RPKM 65.7), Uterus (RPKM 48.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Sh3pxd2b in Genome Data Viewer
    Location:
    10q12
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (17422906..17538977)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (16918611..17027499)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (17209152..17296449)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102555877 Neighboring gene transmembrane protein 134, pseudogene 1 Neighboring gene uncharacterized LOC120095060 Neighboring gene ubiquitin domain containing 2 Neighboring gene EF-hand calcium binding domain 9

    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. The scaffold protein Tks4 is required for the differentiation of mesenchymal stromal cells (MSCs) into adipogenic and osteogenic lineages. Dülk M, et al. Sci Rep, 2016 Oct 6. PMID 27711054, Free PMC Article
    2. Disruption of the podosome adaptor protein TKS4 (SH3PXD2B) causes the skeletal dysplasia, eye, and cardiac abnormalities of Frank-Ter Haar Syndrome. Iqbal Z, et al. Am J Hum Genet, 2010 Feb 12. PMID 20137777, Free PMC Article
    3. The novel adaptor protein Tks4 (SH3PXD2B) is required for functional podosome formation. Buschman MD, et al. Mol Biol Cell, 2009 Mar. PMID 19144821, Free PMC Article
    4. A novel gene, fad49, plays a crucial role in the immediate early stage of adipocyte differentiation via involvement in mitotic clonal expansion. Hishida T, et al. FEBS J, 2008 Nov. PMID 18959745
    5. The podosomal-adaptor protein SH3PXD2B is essential for normal postnatal development. Mao M, et al. Mamm Genome, 2009 Aug. PMID 19669234, Free PMC Article

    See all (7) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables SH2 domain binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol-3,5-bisphosphate binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol-3-phosphate binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol-4-phosphate binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables phosphatidylinositol-5-phosphate binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables superoxide-generating NADPH oxidase activator activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    Process Evidence Code Pubs
    involved_in adipose tissue development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in bone development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cranial skeletal system development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in extracellular matrix disassembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in eye development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in heart development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in osteoblast fate commitment ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in podosome assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of adipose tissue development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of fat cell differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of multicellular organism growth ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of stress fiber assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in protein localization to membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in regulation of brood size ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in skeletal system development ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in skeletal system morphogenesis ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in superoxide anion generation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in superoxide metabolic process ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in anchoring junction IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cell projection IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in podosome ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    SH3 and PX domain-containing protein 2B

    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_001398763.1 → NP_001385692.1  SH3 and PX domain-containing protein 2B

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000010
      UniProtKB/TrEMBL
      A0A8I6GKH6
      Related
      ENSRNOP00000005478.7, ENSRNOT00000005478.7
      Conserved Domains (6) summary
      cd06888
      Location:7 → 125
      PX_FISH; The phosphoinositide binding Phox Homology domain of Five SH protein
      cd12018
      Location:850 → 905
      SH3_Tks4_4; Fourth (C-terminal) Src homology 3 domain of Tyrosine kinase substrate with four SH3 domains
      cd12075
      Location:155 → 209
      SH3_Tks4_1; First Src homology 3 domain of Tyrosine kinase substrate with four SH3 domains
      cd12076
      Location:224 → 277
      SH3_Tks4_2; Second Src homology 3 domain of Tyrosine kinase substrate with four SH3 domains
      cd12078
      Location:372 → 424
      SH3_Tks4_3; Third Src homology 3 domain of Tyrosine kinase substrate with four SH3 domains
      PHA03307
      Location:433 → 802
      PHA03307; transcriptional regulator ICP4; Provisional

    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
      17422906..17538977
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039087129.2 → XP_038943057.1  SH3 and PX domain-containing protein 2B isoform X2

      Conserved Domains (3) summary
      cd06888
      Location:7 → 125
      PX_FISH; The phosphoinositide binding Phox Homology domain of Five SH protein
      cd12075
      Location:155 → 209
      SH3_Tks4_1; First Src homology 3 domain of Tyrosine kinase substrate with four SH3 domains
      cl17036
      Location:252 → 305
      SH3; Src Homology 3 domain superfamily

    2. XM_039087130.2 → XP_038943058.1  SH3 and PX domain-containing protein 2B isoform X4

      Conserved Domains (4) summary
      cd06888
      Location:7 → 125
      PX_FISH; The phosphoinositide binding Phox Homology domain of Five SH protein
      cd12075
      Location:155 → 209
      SH3_Tks4_1; First Src homology 3 domain of Tyrosine kinase substrate with four SH3 domains
      cd12076
      Location:252 → 305
      SH3_Tks4_2; Second Src homology 3 domain of Tyrosine kinase substrate with four SH3 domains
      cl17036
      Location:400 → 425
      SH3; Src Homology 3 domain superfamily

    3. XM_063268956.1 → XP_063125026.1  SH3 and PX domain-containing protein 2B isoform X3

    4. XM_017597616.3 → XP_017453105.1  SH3 and PX domain-containing protein 2B isoform X1

      UniProtKB/TrEMBL
      A0A8I6GKH6, M0RCP2
      Related
      ENSRNOP00000067367.2, ENSRNOT00000073675.5

    5. XM_063268957.1 → XP_063125027.1  SH3 and PX domain-containing protein 2B isoform X5

    Nucleotide Protein Strain
    Heading Accession and Version

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