Ly49s4 Ly49 stimulatory receptor 4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Ly49s4provided by RGD
Full Name: Ly49 stimulatory receptor 4provided by RGD
Primary source: RGD:1549723
See related: EnsemblRapid:ENSRNOG00000051447 AllianceGenome:RGD:1549723
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
Summary: Predicted to enable signaling receptor activity. Predicted to be involved in regulation of signal transduction. Predicted to be located in plasma membrane. Predicted to be active in cell surface. [provided by Alliance of Genome Resources, Dec 2024]
Annotation information: Note: Genetic polymorphisms result in both protein coding and non-coding alleles of this gene.
Expression: Biased expression in Spleen (RPKM 7.0), Lung (RPKM 2.3) and 3 other tissues See more
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Genomic context

Location:: 4q42

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (165807295..165830157, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (164122071..164144931, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (164470396..164493252, 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

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?

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General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables carbohydrate binding	IEA Inferred from Electronic Annotation more info
enables signaling receptor activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in cell adhesion	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in cell surface	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Ly49 stimulatory receptor 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_001009487.1 → NP_001009487.1 Ly49 stimulatory receptor 4

See identical proteins and their annotated locations for NP_001009487.1

Status: PROVISIONAL

Description

Transcript Variant: This variant (1, coding) represents the functional allele that is not present in some strains, including the strain of the reference genome.

Source sequence(s)

AY649831

UniProtKB/TrEMBL

A0A0G2K3K6, Q5MPX1

Conserved Domains (2) summary

cd03593
Location:142 → 257

CLECT_NK_receptors_like; C-type lectin-like domain (CTLD) of the type found in natural killer cell receptors (NKRs)

pfam08391
Location:38 → 155

Ly49; Ly49-like protein, N-terminal region

RNA

NR_172009.1 RNA Sequence

Status: VALIDATED

Description

Transcript Variant: This variant (1, non-coding) contains a premature stop codon, and represents the non-functional allele present in some strains, including the strain of the reference genome. This variant is represented as non-coding because the use of the 5'-most expected translational start codon, as used in variant 1, coding, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).

Source sequence(s)

JAXUCZ010000004

Related

ENSRNOT00000090979.3