Lypd3 Ly6/Plaur domain containing 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Lypd3provided by RGD
Official Full Name: Ly6/Plaur domain containing 3provided by RGD
Primary source: RGD:69053
See related: Ensembl:ENSRNOG00000019999 AllianceGenome:RGD:69053
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: C4.4a
Summary: Enables laminin binding activity. Acts upstream of or within cell-matrix adhesion. Located in membrane. Is integral component of membrane. Orthologous to human LYPD3 (LY6/PLAUR domain containing 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 31.4), Thymus (RPKM 19.5) and 6 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 1q21

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	1	NC_086019.1 (89354354..89358806)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	1	NC_051336.1 (80226449..80230901)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	1	NC_005100.4 (81499856..81504306)

Chromosome 1 - NC_086019.1 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?

the first explanation for the C4.4A contribution to wound healing and metastasis.
Title: Membrane-bound and exosomal metastasis-associated C4.4A promotes migration by associating with the α(6)β(4) integrin and MT1-MMP.
a possible functional role of C4.4A in early differentiation of stratified squamous epithelia
Title: Expression of C4.4A, a structural uPAR homolog, reflects squamous epithelial differentiation in the adult mouse and during embryogenesis.

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables laminin binding	IDA Inferred from Direct Assay more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell-matrix adhesion	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of smooth muscle cell apoptotic process	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in side of membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: ly6/PLAUR domain-containing protein 3

Names: GPI-anchored metastasis-associated protein C4.4A; GPI-anchored metastasis-associated protein homolog; metastasis-associated GPI-anchored protein; metastasis-associated molecule

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_021759.1 → NP_068527.1 ly6/PLAUR domain-containing protein 3 precursor

See identical proteins and their annotated locations for NP_068527.1

Status: PROVISIONAL

Source sequence(s)

AJ001043

UniProtKB/Swiss-Prot

O55162

UniProtKB/TrEMBL

A6J905

Related

ENSRNOP00000027100.1, ENSRNOT00000027100.4

Conserved Domains (2) summary

cd00117
Location:33 → 118

LU; Ly-6 antigen / uPA receptor -like domain; occurs singly in GPI-linked cell-surface glycoproteins (Ly-6 family,CD59, thymocyte B cell antigen, Sgp-2) or as three-fold repeated domain in urokinase-type plasminogen activator receptor. Topology of these ...

pfam00021
Location:142 → 224

UPAR_LY6; u-PAR/Ly-6 domain