Lrp4 LDL receptor related protein 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lrp4provided by RGD
Official Full Name: LDL receptor related protein 4provided by RGD
Primary source: RGD:619731
See related: Ensembl:ENSRNOG00000015285 AllianceGenome:RGD:619731
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
Also known as: Megf7
Summary: Enables apolipoprotein binding activity; receptor tyrosine kinase binding activity; and scaffold protein binding activity. Involved in dendrite morphogenesis and synapse organization. Located in several cellular components, including neuronal cell body; plasma membrane raft; and postsynaptic density. Human ortholog(s) of this gene implicated in Cenani-Lenz syndactyly syndrome; congenital myasthenic syndrome 17; and sclerosteosis 2. Orthologous to human LRP4 (LDL receptor related protein 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 262.0), Kidney (RPKM 63.5) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3q24

Exon count:: 38

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (97885373..97939366)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (77429600..77483593)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (80362643..80416684)

Chromosome 3 - NC_086021.1 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?

beta-GP induced VSMC calcification by activating the Wnt/beta-catenin signaling pathway. Sclerostin and Lrp4 were involved in beta-GP-induced VSMC calcification and play an important role. GBE could alleviate VSMC calcification induced by beta-GP through inhibiting the Wnt/beta-catenin signaling pathway.
Title: Sclerostin/Receptor Related Protein 4 and Ginkgo Biloba Extract Alleviates β-Glycerophosphate-Induced Vascular Smooth Muscle Cell Calcification By Inhibiting Wnt/β-Catenin Pathway.
present the first crystal structure of an agrin-LRP4 complex which is essential for neuronal agrin-induced acetylcholine receptor (AChR) clustering
Title: Structural basis of agrin-LRP4-MuSK signaling.
apolipoprotein E is an endogenous ligand for LRP4 and may play a role as a receptor for extracellular signals
Title: A role for LRP4 in neuronal cell viability is related to apoE-binding.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables apolipoprotein binding	IPI Inferred from Physical Interaction more info	PubMed
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables coreceptor activity	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	ISO Inferred from Sequence Orthology more info
enables receptor tyrosine kinase binding	IPI Inferred from Physical Interaction more info	PubMed
enables receptor tyrosine kinase binding	ISO Inferred from Sequence Orthology more info
enables receptor tyrosine kinase binding	ISS Inferred from Sequence or Structural Similarity more info
enables scaffold protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in amyloid-beta clearance by cellular catabolic process	ISO Inferred from Sequence Orthology more info
involved_in dendrite morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within dorsal/ventral pattern formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic digit morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within embryonic limb morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in endocytosis	IEA Inferred from Electronic Annotation more info
involved_in enzyme-linked receptor protein signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in generation of neurons	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within hair follicle development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within kidney development	ISO Inferred from Sequence Orthology more info
involved_in kidney development	ISO Inferred from Sequence Orthology more info
involved_in limb development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of axonogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of axonogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of canonical Wnt signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of ossification	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within odontogenesis of dentin-containing tooth	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of Rac protein signal transduction	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of presynaptic membrane organization	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of presynaptic membrane organization	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of skeletal muscle acetylcholine-gated channel clustering	ISO Inferred from Sequence Orthology more info
involved_in postsynaptic membrane assembly	ISO Inferred from Sequence Orthology more info
involved_in postsynaptic membrane assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in presynaptic membrane assembly	ISO Inferred from Sequence Orthology more info
involved_in presynaptic membrane assembly	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within protein localization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within proximal/distal pattern formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within receptor clustering	ISO Inferred from Sequence Orthology more info
involved_in regulation of postsynapse assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of protein phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in skeletal muscle acetylcholine-gated channel clustering	ISO Inferred from Sequence Orthology more info
involved_in skeletal muscle acetylcholine-gated channel clustering	ISS Inferred from Sequence or Structural Similarity more info
involved_in synapse organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in synapse organization	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within synaptic assembly at neuromuscular junction	ISO Inferred from Sequence Orthology more info
involved_in synaptic assembly at neuromuscular junction	ISO Inferred from Sequence Orthology more info
involved_in synaptic assembly at neuromuscular junction	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in neuromuscular junction	ISO Inferred from Sequence Orthology more info
located_in neuromuscular junction	ISS Inferred from Sequence or Structural Similarity more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	TAS Traceable Author Statement more info
located_in plasma membrane raft	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed
is_active_in synapse	ISO Inferred from Sequence Orthology more info
located_in synaptic membrane	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: low-density lipoprotein receptor-related protein 4

Names: LRP-4; multiple epidermal growth factor-like domains 7

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_031322.3 → NP_112612.2 low-density lipoprotein receptor-related protein 4 precursor

See identical proteins and their annotated locations for NP_112612.2

Status: PROVISIONAL

Source sequence(s)

AB073317

UniProtKB/Swiss-Prot

Q9QYP1

UniProtKB/TrEMBL

Q76LU2

Related

ENSRNOP00000021353.3, ENSRNOT00000021353.5

Conserved Domains (9) summary

smart00192
Location:311 → 343

LDLa; Low-density lipoprotein receptor domain class A

smart00135
Location:505 → 545

LY; Low-density lipoprotein-receptor YWTD domain

smart00179
Location:395 → 434

EGF_CA; Calcium-binding EGF-like domain

cd00112
Location:270 → 304

LDLa; Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about ...

cd05819
Location:1085 → 1123

NHL; NHL repeat [structural motif]

pfam00057
Location:70 → 105

Ldl_recept_a; Low-density lipoprotein receptor domain class A

pfam00058
Location:1483 → 1523

Ldl_recept_b; Low-density lipoprotein receptor repeat class B

pfam14670
Location:1313 → 1348

FXa_inhibition; Coagulation Factor Xa inhibitory site

cl18310
Location:1085 → 1277

NHL; NHL repeat unit of beta-propeller proteins