Syn2 synapsin II [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Syn2provided by RGD
Official Full Name: synapsin IIprovided by RGD
Primary source: RGD:3798
See related: Ensembl:ENSRNOG00000008157 AllianceGenome:RGD:3798
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: Enables calcium-dependent protein binding activity. Predicted to be involved in calcium-ion regulated exocytosis; neurotransmitter secretion; and synaptic vesicle clustering. Located in synaptic vesicle. Is extrinsic component of synaptic vesicle membrane. Human ortholog(s) of this gene implicated in schizophrenia. Orthologous to human SYN2 (synapsin II). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 266.0) and Adrenal (RPKM 54.7) See more
Orthologs: human mouse all
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Genomic context

Location:: 4q42

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (149858919..150016845)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (148178846..148347010)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (147037179..147195096)

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?

study provided high sequence coverage information on synapsin 2a and 2b in mouse and rat, revealing highest identity between the species; phosphorylation sites were determined
Title: Mass spectrometrical characterisation of mouse and rat synapsin isoforms 2a and 2b.
Effects of haloperidol with those of the dopamine-D1 receptor antagonist, on the expression of synapsin ii.
Title: Dopamine-D1 and -D2 receptors differentially regulate synapsin II expression in the rat brain.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AF096867 (e-PCR)
- UniSTS:163397

RH132165 (e-PCR)
- UniSTS:215448

D4Got124 (e-PCR)
- UniSTS:115621

RH143121 (e-PCR)
- UniSTS:232368

BI295795 (e-PCR)
- UniSTS:246722

AI841723 (e-PCR)
- UniSTS:179441

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables calcium-dependent protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables cytoskeletal protein binding	TAS Traceable Author Statement more info	PubMed
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in calcium-ion regulated exocytosis	IEA Inferred from Electronic Annotation more info
involved_in calcium-ion regulated exocytosis	ISO Inferred from Sequence Orthology more info
involved_in neurotransmitter secretion	IBA Inferred from Biological aspect of Ancestor more info
involved_in neurotransmitter secretion	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within neurotransmitter secretion	ISO Inferred from Sequence Orthology more info
involved_in neurotransmitter secretion	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of neurotransmitter secretion	TAS Traceable Author Statement more info	PubMed
involved_in synaptic vesicle clustering	IEA Inferred from Electronic Annotation more info
involved_in synaptic vesicle clustering	ISO Inferred from Sequence Orthology more info
involved_in synaptic vesicle cycle	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of SNARE complex	IEA Inferred from Electronic Annotation more info
part_of SNARE complex	ISO Inferred from Sequence Orthology more info
located_in Schaffer collateral - CA1 synapse	IEA Inferred from Electronic Annotation more info
is_active_in Schaffer collateral - CA1 synapse	ISO Inferred from Sequence Orthology more info
is_active_in extrinsic component of synaptic vesicle membrane	EXP Inferred from Experiment more info	PubMed
is_active_in extrinsic component of synaptic vesicle membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in extrinsic component of synaptic vesicle membrane	IMP Inferred from Mutant Phenotype more info	PubMed
located_in glutamatergic synapse	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density	IEA Inferred from Electronic Annotation more info
located_in postsynaptic density	ISO Inferred from Sequence Orthology more info
located_in presynapse	ISO Inferred from Sequence Orthology more info
located_in synapse	ISO Inferred from Sequence Orthology more info
located_in synapse	ISS Inferred from Sequence or Structural Similarity more info
located_in synaptic vesicle	IDA Inferred from Direct Assay more info	PubMed
located_in synaptic vesicle	TAS Traceable Author Statement more info	PubMed
is_active_in synaptic vesicle membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in synaptic vesicle membrane	IEA Inferred from Electronic Annotation more info
located_in synaptic vesicle membrane	ISO Inferred from Sequence Orthology more info
located_in synaptic vesicle membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in terminal bouton	HDA more info	PubMed

General protein information

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Preferred Names: synapsin-2

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_001034020.2 → NP_001029192.2 synapsin-2 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000004

UniProtKB/Swiss-Prot

Q63537, Q9Z1H0

UniProtKB/TrEMBL

A6IKX9, G3V733

Related

ENSRNOP00000011292.4, ENSRNOT00000011292.3

Conserved Domains (3) summary

pfam02078
Location:113 → 213

Synapsin; N-terminal domain

pfam10581
Location:2 → 30

Synapsin_N; Synapsin N-terminal

cl17255
Location:215 → 417

CPSase_L_D2; Carbamoyl-phosphate synthase L chain, ATP binding domain
NM_019159.2 → NP_062032.2 synapsin-2 isoform 2

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000004

UniProtKB/TrEMBL

A6IKY0

Conserved Domains (3) summary

pfam02078
Location:113 → 213

Synapsin; N-terminal domain

pfam10581
Location:2 → 30

Synapsin_N; Synapsin N-terminal

cl17255
Location:215 → 417

CPSase_L_D2; Carbamoyl-phosphate synthase L chain, ATP binding domain