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    Farp1 FERM, ARH/RhoGEF and pleckstrin domain protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 306183, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Farp1provided by RGD
    Official Full Name
    FERM, ARH/RhoGEF and pleckstrin domain protein 1provided by RGD
    Primary source
    RGD:1305346
    See related
    EnsemblRapid:ENSRNOG00000011203 AllianceGenome:RGD:1305346
    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
    Summary
    Enables guanyl-nucleotide exchange factor activity and small GTPase binding activity. Involved in several processes, including dendrite morphogenesis; retrograde trans-synaptic signaling by trans-synaptic protein complex; and synapse organization. Located in cytoplasmic side of plasma membrane; cytosol; and dendrite. Is active in glutamatergic synapse. Is extrinsic component of postsynaptic membrane. Orthologous to human FARP1 (FERM, ARH/RhoGEF and pleckstrin domain protein 1). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in Adrenal (RPKM 219.1), Lung (RPKM 71.0) and 8 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Farp1 in Genome Data Viewer
    Location:
    15q24
    Exon count:
    29
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 15 NC_086033.1 (104531196..104770148)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 15 NC_051350.1 (98124304..98363299)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 15 NC_005114.4 (106375298..106625837)

    Chromosome 15 - NC_086033.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC134482234 Neighboring gene uncharacterized LOC100909886 Neighboring gene uncharacterized LOC134482025 Neighboring gene serine/threonine kinase 24 Neighboring gene uncharacterized LOC134482026

    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. Activity-dependent regulation of dendritic complexity by semaphorin 3A through Farp1. Cheadle L, et al. J Neurosci, 2014 Jun 4. PMID 24899721, Free PMC Article
    2. The novel synaptogenic protein Farp1 links postsynaptic cytoskeletal dynamics and transsynaptic organization. Cheadle L, et al. J Cell Biol, 2012 Dec 10. PMID 23209303, Free PMC Article
    3. Docking motif-guided mapping of the interactome of protein phosphatase-1. Hendrickx A, et al. Chem Biol, 2009 Apr 24. PMID 19389623
    4. 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

    What's a GeneRIF?
    1. This study support that Farp1 signaling is necessary for the high extent of arborization of maturing dendrites.
      Title: Activity-dependent regulation of dendritic complexity by semaphorin 3A through Farp1.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables cytoskeletal protein binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables guanyl-nucleotide exchange factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables guanyl-nucleotide exchange factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables guanyl-nucleotide exchange factor activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables guanyl-nucleotide exchange factor activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables small GTPase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in Rac protein signal transduction ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in dendrite morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in enzyme-linked receptor protein signaling pathway ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of skeletal muscle acetylcholine-gated channel clustering ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in postsynaptic actin cytoskeleton organization IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in postsynaptic actin cytoskeleton organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of presynapse assembly IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of presynapse assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in retrograde trans-synaptic signaling by trans-synaptic protein complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in retrograde trans-synaptic signaling by trans-synaptic protein complex IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in synapse assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasmic side of plasma membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in dendrite IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in dendritic spine IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in extrinsic component of postsynaptic membrane IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in extrinsic component of postsynaptic membrane IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in filopodium IEA
    Inferred from Electronic Annotation
    more info
    		  
    is_active_in glutamatergic synapse IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in glutamatergic synapse IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    located_in plasma membrane IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    FERM, ARHGEF and pleckstrin domain-containing protein 1
    Names
    FERM, RhoGEF (Arhgef) and pleckstrin domain protein 1 (chondrocyte-derived)
    FERM, RhoGEF and pleckstrin domain-containing protein 1
    FERMRhoGEF (Arhgef) and pleckstrin domain protein 1-like

    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_001107287.1 → NP_001100757.1  FERM, ARHGEF and pleckstrin domain-containing protein 1

      See identical proteins and their annotated locations for NP_001100757.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473951
      UniProtKB/Swiss-Prot
      F1LYQ8
      UniProtKB/TrEMBL
      A0A8I5ZQU0
      Conserved Domains (9) summary
      smart00295
      Location:41 → 230
      B41; Band 4.1 homologues
      cd00160
      Location:545 → 732
      RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.
      cd01220
      Location:757 → 865
      PH1_FARP1-like; FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins Pleckstrin Homology (PH) domain, repeat 1
      cd13193
      Location:217 → 337
      FERM_C_FARP1-like; FERM domain C-lobe of FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins
      cd13235
      Location:935 → 1032
      PH2_FARP1-like; FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins Pleckstrin Homology (PH) domain, repeat 2
      pfam00169
      Location:940 → 1033
      PH; PH domain
      pfam00373
      Location:127 → 230
      FERM_M; FERM central domain
      pfam08736
      Location:329 → 371
      FA; FERM adjacent (FA)
      pfam09379
      Location:44 → 107
      FERM_N; FERM N-terminal domain

    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
      104531196..104770148
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017599720.3 → XP_017455209.1  FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform X1

      UniProtKB/Swiss-Prot
      F1LYQ8
      UniProtKB/TrEMBL
      A0A8I5ZQU0
      Conserved Domains (9) summary
      smart00295
      Location:41 → 230
      B41; Band 4.1 homologues
      cd00160
      Location:545 → 732
      RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.
      cd01220
      Location:757 → 865
      PH1_FARP1-like; FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins Pleckstrin Homology (PH) domain, repeat 1
      cd13193
      Location:217 → 337
      FERM_C_FARP1-like; FERM domain C-lobe of FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins
      cd13235
      Location:935 → 1032
      PH2_FARP1-like; FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins Pleckstrin Homology (PH) domain, repeat 2
      pfam00169
      Location:940 → 1033
      PH; PH domain
      pfam00373
      Location:127 → 230
      FERM_M; FERM central domain
      pfam08736
      Location:329 → 371
      FA; FERM adjacent (FA)
      pfam09379
      Location:44 → 107
      FERM_N; FERM N-terminal domain

    2. XM_006252472.5 → XP_006252534.1  FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform X1

      See identical proteins and their annotated locations for XP_006252534.1

      UniProtKB/Swiss-Prot
      F1LYQ8
      UniProtKB/TrEMBL
      A0A8I5ZQU0
      Related
      ENSRNOP00000015271.5, ENSRNOT00000015271.8
      Conserved Domains (9) summary
      smart00295
      Location:41 → 230
      B41; Band 4.1 homologues
      cd00160
      Location:545 → 732
      RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.
      cd01220
      Location:757 → 865
      PH1_FARP1-like; FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins Pleckstrin Homology (PH) domain, repeat 1
      cd13193
      Location:217 → 337
      FERM_C_FARP1-like; FERM domain C-lobe of FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins
      cd13235
      Location:935 → 1032
      PH2_FARP1-like; FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins Pleckstrin Homology (PH) domain, repeat 2
      pfam00169
      Location:940 → 1033
      PH; PH domain
      pfam00373
      Location:127 → 230
      FERM_M; FERM central domain
      pfam08736
      Location:329 → 371
      FA; FERM adjacent (FA)
      pfam09379
      Location:44 → 107
      FERM_N; FERM N-terminal domain

    3. XM_006252475.5 → XP_006252537.1  FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform X2

      UniProtKB/TrEMBL
      A0A8I5ZQU0
      Conserved Domains (9) summary
      smart00295
      Location:41 → 230
      B41; Band 4.1 homologues
      cd00160
      Location:535 → 722
      RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.
      cd01220
      Location:747 → 855
      PH1_FARP1-like; FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins Pleckstrin Homology (PH) domain, repeat 1
      cd13193
      Location:217 → 337
      FERM_C_FARP1-like; FERM domain C-lobe of FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins
      cd13235
      Location:925 → 1022
      PH2_FARP1-like; FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins Pleckstrin Homology (PH) domain, repeat 2
      pfam00169
      Location:930 → 1023
      PH; PH domain
      pfam00373
      Location:127 → 230
      FERM_M; FERM central domain
      pfam08736
      Location:329 → 371
      FA; FERM adjacent (FA)
      pfam09379
      Location:44 → 107
      FERM_N; FERM N-terminal domain

    4. XM_063274357.1 → XP_063130427.1  FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform X3

    5. XM_063274358.1 → XP_063130428.1  FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform X4

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    F1LYQ8.2 GenPept UniProtKB/Swiss-Prot:F1LYQ8

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