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

Gene ID: 306183, updated on 10-Jul-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 cytosol and dendrite. Is extrinsic component of cytoplasmic side of plasma membrane. 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, Apr 2022]
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 

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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