Lrfn4 leucine rich repeat and fibronectin type III domain containing 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lrfn4provided by RGD
Official Full Name: leucine rich repeat and fibronectin type III domain containing 4provided by RGD
Primary source: RGD:1585286
See related: EnsemblRapid:ENSRNOG00000019356 AllianceGenome:RGD:1585286
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: Predicted to be involved in regulation of postsynaptic density assembly; regulation of presynapse assembly; and synaptic membrane adhesion. Is active in postsynaptic density membrane. Orthologous to human LRFN4 (leucine rich repeat and fibronectin type III domain containing 4). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Brain (RPKM 57.0), Kidney (RPKM 43.8) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q43

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (211317980..211321272, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (201888569..201891861, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (219850037..219855771, complement)

Chromosome 1 - NC_086019.1 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: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

POU2F1/DNMT3a Pathway Participates in Neuropathic Pain by Hypermethylation-Mediated LRFN4 Downregulation Following Oxaliplatin Treatment.
Title: POU2F1/DNMT3a Pathway Participates in Neuropathic Pain by Hypermethylation-Mediated LRFN4 Downregulation Following Oxaliplatin Treatment.
SALM3 was expressed at significantly higher levels in the brains of epileptic rats compared to controls.
Title: Effect of synaptic adhesion-like molecule 3 on epileptic seizures: Evidence from animal models.

Submit: New GeneRIF Correction

General gene information

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Markers

Lrfn4 (e-PCR), detects polymorphism
- UniSTS:525548

Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
involved_in regulation of postsynaptic density assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of postsynaptic density assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of presynapse assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of presynapse assembly	ISO Inferred from Sequence Orthology more info
involved_in synaptic membrane adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in synaptic membrane adhesion	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in GABA-ergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in cell surface	IBA Inferred from Biological aspect of Ancestor more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
is_active_in glutamatergic synapse	IBA Inferred from Biological aspect of Ancestor more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic density membrane	IBA Inferred from Biological aspect of Ancestor more info
is_active_in postsynaptic density membrane	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: leucine-rich repeat and fibronectin type-III domain-containing 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)

NM_001109508.1 → NP_001102978.1 leucine-rich repeat and fibronectin type-III domain-containing protein 4 precursor

See identical proteins and their annotated locations for NP_001102978.1

Status: PROVISIONAL

Source sequence(s)

CH473953

UniProtKB/Swiss-Prot

D4ABX8

Related

ENSRNOP00000026169.2, ENSRNOT00000026169.5

Conserved Domains (5) summary

smart00082
Location:234 → 278

LRRCT; Leucine rich repeat C-terminal domain

sd00033
Location:50 → 73

LRR_RI; leucine-rich repeat [structural motif]

cd00096
Location:281 → 284

Ig; Ig strand A [structural motif]

cd21340
Location:53 → 203

PPP1R42; protein phosphatase 1 regulatory subunit 42

cl11960
Location:281 → 368

Ig; Immunoglobulin domain