U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Sorbs3 sorbin and SH3 domain containing 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 282843, updated on 11-Apr-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    Sorbs3provided by RGD
    Official Full Name
    sorbin and SH3 domain containing 3provided by RGD
    Primary source
    RGD:628900
    See related
    Ensembl:ENSRNOG00000008829 AllianceGenome:RGD:628900
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Sh3d4
    Summary
    Predicted to enable vinculin binding activity. Predicted to be involved in cell-substrate adhesion and positive regulation of stress fiber assembly. Predicted to act upstream of or within negative regulation of transcription by RNA polymerase II and positive regulation of MAPK cascade. Predicted to be active in cell-substrate junction; cytoplasm; and nucleus. Predicted to colocalize with focal adhesion. Orthologous to human SORBS3 (sorbin and SH3 domain containing 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Lung (RPKM 39.9), Heart (RPKM 37.5) 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 Sorbs3 in Genome Data Viewer
    Location:
    15p11
    Exon count:
    23
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (51662639..51699161, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (45252921..45284758, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (51859004..51895707, complement)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene similar to human chromosome 8 open reading frame 58 Neighboring gene uncharacterized LOC134482142 Neighboring gene PDZ and LIM domain 2 Neighboring gene protein phosphatase 3 catalytic subunit gamma Neighboring gene mitochondrial pyruvate carrier 1-like Neighboring gene solute carrier family 39 member 14

    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. The focal adhesion protein vinexin alpha regulates the phosphorylation and activity of estrogen receptor alpha. Tujague M, et al. J Biol Chem, 2004 Mar 5. PMID 14625289
    2. Localization of multidomain adaptor proteins, p140Cap and vinexin, in the pancreatic islet of a spontaneous diabetes mellitus model, Otsuka Long-Evans Tokushima Fatty rats. Yamauchi M, et al. Med Mol Morphol, 2013 Mar. PMID 23325552
    3. Vinexin-β deficiency protects against cerebral ischaemia/reperfusion injury by inhibiting neuronal apoptosis. Li M, et al. J Neurochem, 2015 Jul. PMID 25824575
    4. Vinexin: a novel vinculin-binding protein with multiple SH3 domains enhances actin cytoskeletal organization. Kioka N, et al. J Cell Biol, 1999 Jan 11. PMID 9885244, Free PMC Article
    5. Abl kinase interacts with and phosphorylates vinexin. Mitsushima M, et al. FEBS Lett, 2006 Jul 24. PMID 16831423

    See all (12) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Our findings revealed that Vinexin-beta acts as a novel modulator of ischaemic injury
      Title: Vinexin-β deficiency protects against cerebral ischaemia/reperfusion injury by inhibiting neuronal apoptosis.
    2. Vvinexin was highly enriched in pancreatic alpha cells but not in beta cells.
      Title: Localization of multidomain adaptor proteins, p140Cap and vinexin, in the pancreatic islet of a spontaneous diabetes mellitus model, Otsuka Long-Evans Tokushima Fatty rats.
    3. vinexin alpha is a novel substrate for Abl.
      Title: Abl kinase interacts with and phosphorylates vinexin.
    Submit: New GeneRIF Correction

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    Markers

    Homology

    Clone Names

    • MGC94509

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables vinculin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of MAPK cascade ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cell-substrate adhesion IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within cell-substrate adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within positive regulation of MAPK cascade ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of stress fiber assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cell-substrate junction IBA
    Inferred from Biological aspect of Ancestor
    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 focal adhesion ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    vinexin
    Names
    SH3 domain protein 4

    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_001005762.1 → NP_001005762.1  vinexin

      See identical proteins and their annotated locations for NP_001005762.1

      Status: PROVISIONAL

      Source sequence(s)
      BC083666
      UniProtKB/TrEMBL
      A0A8I5Y5L8, A6HTJ5, F7EV37, Q5XIL4
      Related
      ENSRNOP00000012056.4, ENSRNOT00000012056.5
      Conserved Domains (5) summary
      smart00459
      Location:165 → 214
      Sorb; Sorbin homologous domain
      PTZ00449
      Location:305 → 444
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd11918
      Location:676 → 733
      SH3_Vinexin_3; Third (or C-terminal) Src Homology 3 domain of Vinexin, also called Sorbin and SH3 domain containing 3 (Sorbs3)
      cd11921
      Location:446 → 500
      SH3_Vinexin_1; First Src Homology 3 domain of Vinexin, also called Sorbin and SH3 domain containing 3 (Sorbs3)
      cd11924
      Location:520 → 575
      SH3_Vinexin_2; Second Src Homology 3 domain of Vinexin, also called Sorbin and SH3 domain containing 3 (Sorbs3)

    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
      51662639..51699161 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063274058.1 → XP_063130128.1  vinexin isoform X1

      UniProtKB/TrEMBL
      A6HTJ5, F7EV37, Q5XIL4

    2. XM_063274057.1 → XP_063130127.1  vinexin isoform X1

      UniProtKB/TrEMBL
      A6HTJ5, F7EV37, Q5XIL4

    3. XM_039093073.2 → XP_038949001.1  vinexin isoform X2

      UniProtKB/TrEMBL
      A0A8I5Y5L8
      Conserved Domains (5) summary
      smart00459
      Location:150 → 199
      Sorb; Sorbin homologous domain
      PTZ00449
      Location:290 → 429
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd11918
      Location:661 → 718
      SH3_Vinexin_3; Third (or C-terminal) Src Homology 3 domain of Vinexin, also called Sorbin and SH3 domain containing 3 (Sorbs3)
      cd11921
      Location:431 → 485
      SH3_Vinexin_1; First Src Homology 3 domain of Vinexin, also called Sorbin and SH3 domain containing 3 (Sorbs3)
      cd11924
      Location:505 → 560
      SH3_Vinexin_2; Second Src Homology 3 domain of Vinexin, also called Sorbin and SH3 domain containing 3 (Sorbs3)

    4. XM_006252242.2 → XP_006252304.1  vinexin isoform X1

      See identical proteins and their annotated locations for XP_006252304.1

      UniProtKB/TrEMBL
      A0A8I5Y5L8, A6HTJ5, F7EV37, Q5XIL4
      Conserved Domains (5) summary
      smart00459
      Location:165 → 214
      Sorb; Sorbin homologous domain
      PTZ00449
      Location:305 → 444
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd11918
      Location:676 → 733
      SH3_Vinexin_3; Third (or C-terminal) Src Homology 3 domain of Vinexin, also called Sorbin and SH3 domain containing 3 (Sorbs3)
      cd11921
      Location:446 → 500
      SH3_Vinexin_1; First Src Homology 3 domain of Vinexin, also called Sorbin and SH3 domain containing 3 (Sorbs3)
      cd11924
      Location:520 → 575
      SH3_Vinexin_2; Second Src Homology 3 domain of Vinexin, also called Sorbin and SH3 domain containing 3 (Sorbs3)

    5. XM_039093074.2 → XP_038949002.1  vinexin isoform X3

      UniProtKB/TrEMBL
      A6HTJ6
      Conserved Domains (5) summary
      PTZ00449
      Location:132 → 271
      PTZ00449; 104 kDa microneme/rhoptry antigen; Provisional
      cd11918
      Location:503 → 560
      SH3_Vinexin_3; Third (or C-terminal) Src Homology 3 domain of Vinexin, also called Sorbin and SH3 domain containing 3 (Sorbs3)
      cd11921
      Location:273 → 327
      SH3_Vinexin_1; First Src Homology 3 domain of Vinexin, also called Sorbin and SH3 domain containing 3 (Sorbs3)
      cd11924
      Location:347 → 402
      SH3_Vinexin_2; Second Src Homology 3 domain of Vinexin, also called Sorbin and SH3 domain containing 3 (Sorbs3)
      cl02617
      Location:10 → 41
      Sorb; Sorbin homologous domain

    6. XM_063274060.1 → XP_063130130.1  vinexin isoform X4

    7. XM_063274061.1 → XP_063130131.1  vinexin isoform X5

    RNA

    1. XR_005493698.2 RNA Sequence

    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
    Miscellaneous