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

Gene ID: 282843, updated on 27-Nov-2024

Summary

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Official Symbol
Sorbs3provided by RGD
Official Full Name
sorbin and SH3 domain containing 3provided by RGD
Primary source
RGD:628900
See related
EnsemblRapid: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 located in focal adhesion. Predicted to be active in cell-substrate junction; cytoplasm; and nucleus. Orthologous to human SORBS3 (sorbin and SH3 domain containing 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Lung (RPKM 39.9), Heart (RPKM 37.5) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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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

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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 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

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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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
  
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
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in focal adhesion ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
vinexin
Names
SH3 domain protein 4

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_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
    ENSRNOP00000076812.1, ENSRNOT00000114102.2
    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
    Related
    ENSRNOP00000012056.5, ENSRNOT00000012056.6
    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

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