Clstn3 calsyntenin 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Clstn3provided by RGD
Official Full Name: calsyntenin 3provided by RGD
Primary source: RGD:621153
See related: EnsemblRapid:ENSRNOG00000011156 AllianceGenome:RGD:621153
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: Cs3; Cstn3
Summary: Predicted to enable cell-cell adhesion mediator activity; enzyme inhibitor activity; and neurexin family protein binding activity. Predicted to be involved in several processes, including cold-induced thermogenesis; regulation of synapse assembly; and synapse assembly. Predicted to act upstream of or within several processes, including chemical synaptic transmission; positive regulation of protein localization to synapse; and synapse assembly. Located in postsynaptic membrane. Orthologous to human CLSTN3 (calsyntenin 3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Brain (RPKM 498.7), Adrenal (RPKM 58.7) and 1 other tissue See more
Orthologs: human mouse all
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Genomic context

Location:: 4q42

Exon count:: 18

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (159017795..159051069, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (157331494..157364769, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (157044736..157078013, complement)

Chromosome 4 - NC_086022.1 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?

The transmembrane form of calsyntenin-3 can trigger excitatory and inhibitory presynapse differentiation in contacting axons.
Title: The specific α-neurexin interactor calsyntenin-3 promotes excitatory and inhibitory synapse development.
Results indicate that calsyntenins function outside the nervous system and potentially are modulators of endocrine function.
Title: Calsyntenins are secretory granule proteins in anterior pituitary gland and pancreatic islet alpha cells.

Submit: New GeneRIF Correction

General gene information

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Markers

BE101768 (e-PCR)
- UniSTS:243712

D4Cebr1 (e-PCR)
- UniSTS:518627

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables cell-cell adhesion mediator activity	IEA Inferred from Electronic Annotation more info
enables cell-cell adhesion mediator activity	ISO Inferred from Sequence Orthology more info
enables cell-cell adhesion mediator activity	ISS Inferred from Sequence or Structural Similarity more info
enables enzyme inhibitor activity	ISO Inferred from Sequence Orthology more info
enables enzyme inhibitor activity	ISS Inferred from Sequence or Structural Similarity more info
enables neurexin family protein binding	IEA Inferred from Electronic Annotation more info
enables neurexin family protein binding	ISO Inferred from Sequence Orthology more info
enables neurexin family protein binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in L-ascorbic acid metabolic process	ISO Inferred from Sequence Orthology more info
involved_in adaptive thermogenesis	ISO Inferred from Sequence Orthology more info
involved_in adaptive thermogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in chemical synaptic transmission	NAS Non-traceable Author Statement more info	PubMed
involved_in cold-induced thermogenesis	ISO Inferred from Sequence Orthology more info
involved_in cold-induced thermogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in excitatory synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in excitatory synapse assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in homophilic cell adhesion via plasma membrane adhesion molecules	IEA Inferred from Electronic Annotation more info
involved_in inhibitory synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in inhibitory synapse assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in motor learning	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of excitatory synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of excitatory synapse assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of lipid droplet fusion	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of lipid droplet fusion	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of lipid storage	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of lipid storage	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of inhibitory synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of inhibitory synapse assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of lipid catabolic process	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of lipid catabolic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of protein localization to synapse	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of protein localization to synapse	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of synapse assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of synapse assembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of synaptic transmission	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of synaptic transmission	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within positive regulation of synaptic transmission	ISO Inferred from Sequence Orthology more info
involved_in protein secretion	ISO Inferred from Sequence Orthology more info
involved_in protein secretion	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of cell growth	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within regulation of cell growth	ISO Inferred from Sequence Orthology more info
involved_in regulation of excitatory synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of excitatory synapse assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of presynapse assembly	IEA Inferred from Electronic Annotation more info
involved_in regulation of presynapse assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in sympathetic neuron projection extension	ISO Inferred from Sequence Orthology more info
involved_in sympathetic neuron projection extension	ISS Inferred from Sequence or Structural Similarity more info
involved_in synapse assembly	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within synapse assembly	ISO Inferred from Sequence Orthology more info
involved_in synaptic transmission, GABAergic	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within synaptic transmission, GABAergic	ISO Inferred from Sequence Orthology more info
involved_in synaptic transmission, glutamatergic	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within synaptic transmission, glutamatergic	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in GABA-ergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in GABA-ergic synapse	ISO Inferred from Sequence Orthology more info
located_in Golgi membrane	IEA Inferred from Electronic Annotation more info
is_active_in cell surface	IBA Inferred from Biological aspect of Ancestor more info
located_in cell surface	IEA Inferred from Electronic Annotation more info
located_in cell surface	ISO Inferred from Sequence Orthology more info
located_in dendrite	IEA Inferred from Electronic Annotation more info
is_active_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
is_active_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
is_active_in endoplasmic reticulum membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in lipid droplet	ISO Inferred from Sequence Orthology more info
is_active_in lipid droplet	ISS Inferred from Sequence or Structural Similarity more info
located_in neuron projection	IEA Inferred from Electronic Annotation more info
is_active_in organelle membrane contact site	ISO Inferred from Sequence Orthology more info
is_active_in organelle membrane contact site	ISS Inferred from Sequence or Structural Similarity more info
located_in postsynaptic density	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density membrane	IEA Inferred from Electronic Annotation more info
is_active_in postsynaptic density membrane	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in postsynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
located_in postsynaptic membrane	IEA Inferred from Electronic Annotation more info
located_in postsynaptic membrane	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	IEA Inferred from Electronic Annotation more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: calsyntenin-3

Names: alc-beta; alcadein-beta

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.