Lrrc4 leucine rich repeat containing 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lrrc4provided by RGD
Official Full Name: leucine rich repeat containing 4provided by RGD
Primary source: RGD:1560026
See related: AllianceGenome:RGD:1560026
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: Involved in synaptic membrane adhesion. Is active in glutamatergic synapse and postsynaptic density membrane. Orthologous to human LRRC4 (leucine rich repeat containing 4). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: human mouse all
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Genomic context

Location:: 4q22

Exon count:: 1

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (58398942..58402538, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (57433518..57437114, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (56110658..56114254, complement)

Chromosome 4 - NC_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Study shows that locomotor training increases synaptic structure with high NGL-2 expression after spinal cord hemisection. Study identified Lrrc4 (coding NGL-2) as the most highly expressed synapse-related gene in trained compared with nontrained rats after hemisection injury.
Title: Locomotor Training Increases Synaptic Structure With High NGL-2 Expression After Spinal Cord Hemisection.
NGL-2 plays a critical role in regulating axon differentiation in hippocampal neurons.
Title: NGL-2 Is a New Partner of PAR Complex in Axon Differentiation.
axotomized motoneurons decrease their NGL-2 expression and that the restoration of NGL-2 expression mirrors the restoration of synaptic inputs.
Title: Netrin G-2 ligand mRNA is downregulated in spinal motoneurons after sciatic nerve lesion.

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

GDB:4585141 (e-PCR)
- UniSTS:4885

STS-H23117 (e-PCR)
- UniSTS:9556

Lrrc4 (e-PCR), detects polymorphism
- UniSTS:525557

Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
involved_in excitatory synapse assembly	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within excitatory synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in modulation of chemical synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
involved_in modulation of chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
involved_in postsynaptic density protein 95 clustering	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within postsynaptic density protein 95 clustering	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within synapse organization	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	IDA Inferred from Direct Assay more info	PubMed
involved_in synaptic membrane adhesion	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in Schaffer collateral - CA1 synapse	ISO Inferred from Sequence Orthology more info
located_in dendritic spine	ISO Inferred from Sequence Orthology more info
located_in excitatory synapse	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	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in neuron spine	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor 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
is_active_in postsynaptic density membrane	ISO Inferred from Sequence Orthology more info
located_in postsynaptic membrane	ISO Inferred from Sequence Orthology more info
located_in synapse	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: leucine-rich repeat-containing protein 4

Names: NGL-2; leucine rich repeat containing 4 protein; netrin-G2 ligand; protein NGL-2

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_001037336.1 → NP_001032413.1 leucine-rich repeat-containing protein 4 precursor

See identical proteins and their annotated locations for NP_001032413.1

Status: PROVISIONAL

Source sequence(s)

DQ119102

UniProtKB/Swiss-Prot

Q45R42

UniProtKB/TrEMBL

A6IEB4

Conserved Domains (7) summary

smart00013
Location:45 → 78

LRRNT; Leucine rich repeat N-terminal domain

smart00082
Location:299 → 350

LRRCT; Leucine rich repeat C-terminal domain

smart00410
Location:358 → 440

IG_like; Immunoglobulin like

sd00033
Location:76 → 99

LRR_RI; leucine-rich repeat [structural motif]

pfam13855
Location:74 → 132

LRR_8; Leucine rich repeat

cd00096
Location:369 → 373

Ig; Ig strand B [structural motif]

cd21340
Location:96 → 300

PPP1R42; protein phosphatase 1 regulatory subunit 42