Farp1 FERM, ARH/RhoGEF and pleckstrin domain protein 1 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Farp1provided by MGI
Official Full Name: FERM, ARH/RhoGEF and pleckstrin domain protein 1provided by MGI
Primary source: MGI:MGI:2446173
See related: Ensembl:ENSMUSG00000025555 AllianceGenome:MGI:2446173
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Cdep
Summary: Enables guanyl-nucleotide exchange factor activity. Involved in Rac protein signal transduction; enzyme-linked receptor protein signaling pathway; and positive regulation of skeletal muscle acetylcholine-gated channel clustering. Predicted to be located in cytoplasmic side of plasma membrane; cytosol; and dendrite. Predicted to be active in glutamatergic synapse. Predicted to be extrinsic component of postsynaptic membrane. Is expressed in lung epithelium; nephron; nervous system; and retina. Orthologous to human FARP1 (FERM, ARH/RhoGEF and pleckstrin domain protein 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Ubiquitous expression in limb E14.5 (RPKM 25.3), CNS E18 (RPKM 22.0) and 27 other tissues See more
Orthologs: human all
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Genomic context

Location:: 14 E5; 14 64.86 cM

Exon count:: 30

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	14	NC_000080.7 (121272563..121521156)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	14	NC_000080.6 (121035168..121283744)

Chromosome 14 - NC_000080.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

It was shown that Farp1 regulates dendritic filopodial dynamics in immature neurons. Later in development, Farp1 is postsynaptic and FARP1's 4.1 protein/ezrin/radixin/moesin domain binds SynCAM 1, assembling a synaptic complex.
Title: The novel synaptogenic protein Farp1 links postsynaptic cytoskeletal dynamics and transsynaptic organization.

Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)
Targeted (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

D14Mit136 (e-PCR), detects polymorphism
- UniSTS:127242

NoName (e-PCR)
- UniSTS:237252

NoName (e-PCR)
- UniSTS:237253

AW228844 (e-PCR)
- UniSTS:180722

Gene Ontology Provided by MGI

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	IGI Inferred from Genetic Interaction more info	PubMed
enables guanyl-nucleotide exchange factor activity	ISO Inferred from Sequence Orthology more info
enables guanyl-nucleotide exchange factor activity	ISS Inferred from Sequence or Structural Similarity more info
enables small GTPase binding	IEA Inferred from Electronic Annotation more info
enables small GTPase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in Rac protein signal transduction	IGI Inferred from Genetic Interaction more info	PubMed
involved_in dendrite morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in dendrite morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in enzyme-linked receptor protein signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of skeletal muscle acetylcholine-gated channel clustering	IGI Inferred from Genetic Interaction more info	PubMed
involved_in postsynaptic actin cytoskeleton organization	IEA Inferred from Electronic Annotation more info
involved_in postsynaptic actin cytoskeleton organization	ISO Inferred from Sequence Orthology more info
involved_in regulation of presynapse assembly	IEA Inferred from Electronic Annotation more info
involved_in regulation of presynapse assembly	ISO Inferred from Sequence Orthology more info
involved_in retrograde trans-synaptic signaling by trans-synaptic protein complex	IEA Inferred from Electronic Annotation more info
involved_in retrograde trans-synaptic signaling by trans-synaptic protein complex	ISO Inferred from Sequence Orthology more info
involved_in synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in synapse assembly	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cytoplasmic side of plasma membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic side of plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISS Inferred from Sequence or Structural Similarity more info
located_in dendrite	ISO Inferred from Sequence Orthology more info
located_in dendrite	ISS Inferred from Sequence or Structural Similarity more info
located_in dendritic spine	IEA Inferred from Electronic Annotation more info
located_in extrinsic component of postsynaptic membrane	IEA Inferred from Electronic Annotation more info
is_active_in extrinsic component of postsynaptic membrane	ISO Inferred from Sequence Orthology more info
located_in filopodium	IEA Inferred from Electronic Annotation more info
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology 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

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)

NM_001425775.1 → NP_001412704.1 FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform 2

Status: VALIDATED

Source sequence(s)

AC154618, AC165163, AC167566
NM_001425776.1 → NP_001412705.1 FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform 3

Status: VALIDATED

Source sequence(s)

AC154618, AC165163, AC167566
NM_001425777.1 → NP_001412706.1 FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform 4

Status: VALIDATED

Source sequence(s)

AC154618, AC165163, AC167566
NM_001425778.1 → NP_001412707.1 FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform 5

Status: VALIDATED

Source sequence(s)

AC154618, AC165163, AC167566
NM_134082.4 → NP_598843.3 FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform 1

See identical proteins and their annotated locations for NP_598843.3

Status: VALIDATED

Source sequence(s)

AC154618, AC165163, AC167566

Consensus CDS

CCDS37015.1

UniProtKB/Swiss-Prot

C4IXU2, F8VPU2

Related

ENSMUSP00000026635.7, ENSMUST00000026635.8

Conserved Domains (6) summary

smart00295
Location:41 → 230

B41; Band 4.1 homologues

cd00160
Location:544 → 731

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:756 → 864

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:934 → 1031

PH2_FARP1-like; FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins Pleckstrin Homology (PH) domain, repeat 2

pfam08736
Location:329 → 371

FA; FERM adjacent (FA)

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000080.7 Reference GRCm39 C57BL/6J

Range

121272563..121521156

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006518914.5 → XP_006518977.1 FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform X1

See identical proteins and their annotated locations for XP_006518977.1

UniProtKB/Swiss-Prot

C4IXU2, F8VPU2

Conserved Domains (6) summary

smart00295
Location:41 → 230

B41; Band 4.1 homologues

cd00160
Location:544 → 731

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:756 → 864

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:934 → 1031

PH2_FARP1-like; FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins Pleckstrin Homology (PH) domain, repeat 2

pfam08736
Location:329 → 371

FA; FERM adjacent (FA)
XM_030247776.2 → XP_030103636.1 FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform X1

UniProtKB/Swiss-Prot

C4IXU2, F8VPU2

Conserved Domains (6) summary

smart00295
Location:41 → 230

B41; Band 4.1 homologues

cd00160
Location:544 → 731

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:756 → 864

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:934 → 1031

PH2_FARP1-like; FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins Pleckstrin Homology (PH) domain, repeat 2

pfam08736
Location:329 → 371

FA; FERM adjacent (FA)
XM_030247778.2 → XP_030103638.1 FERM, ARHGEF and pleckstrin domain-containing protein 1 isoform X2

Conserved Domains (6) summary

smart00295
Location:41 → 230

B41; Band 4.1 homologues

cd00160
Location:534 → 721

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:746 → 854

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:924 → 1021

PH2_FARP1-like; FERM, RhoGEF and pleckstrin domain-containing protein 1 and related proteins Pleckstrin Homology (PH) domain, repeat 2

pfam08736
Location:329 → 371

FA; FERM adjacent (FA)