Lingo4 leucine rich repeat and Ig domain containing 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lingo4provided by RGD
Official Full Name: leucine rich repeat and Ig domain containing 4provided by RGD
Primary source: RGD:1562025
See related: EnsemblRapid:ENSRNOG00000022863 AllianceGenome:RGD:1562025
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1562025
Summary: Predicted to act upstream of or within positive regulation of synapse assembly. Predicted to be active in extracellular matrix and extracellular space. Orthologous to human LINGO4 (leucine rich repeat and Ig domain containing 4). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Thymus (RPKM 302.0), Liver (RPKM 88.1) and 5 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q34

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (184724554..184729819)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (182035522..182040787)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (195617044..195643502)

Chromosome 2 - NC_086020.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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?

Submit: New GeneRIF Correction

General gene information

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Markers

RH144654 (e-PCR)
- UniSTS:233899

AU029193 (e-PCR)
- UniSTS:111611

Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
acts_upstream_of_or_within positive regulation of synapse assembly	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in extracellular matrix	IBA Inferred from Biological aspect of Ancestor more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting 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_001109189.2 → NP_001102659.1 leucine-rich repeat and immunoglobulin-like domain-containing nogo receptor-interacting protein 4 precursor

See identical proteins and their annotated locations for NP_001102659.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/TrEMBL

A6K2Q5, D4A2G1

Related

ENSRNOP00000038501.3, ENSRNOT00000036656.6

Conserved Domains (6) summary

smart00410
Location:445 → 526

IG_like; Immunoglobulin like

cd00116
Location:110 → 345

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00033
Location:87 → 110

LRR_RI; leucine-rich repeat [structural motif]

pfam12799
Location:88 → 126

LRR_4; Leucine Rich repeats (2 copies)

pfam13855
Location:88 → 145

LRR_8; Leucine rich repeat

cl11960
Location:456 → 526

Ig; Immunoglobulin domain