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Syn1 synapsin I [ Rattus norvegicus (Norway rat) ]

Gene ID: 24949, updated on 3-Feb-2019

Summary

Official Symbol
Syn1provided by RGD
Official Full Name
synapsin Iprovided by RGD
Primary source
RGD:3797
See related
Ensembl:ENSRNOG00000010365
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
may act as an anchoring protein by linking the vesicle phospholipid layer and the cytoskeleton in neuronal presynaptic terminals; may play a role in neurotransmitter release [RGD, Feb 2006]
Expression
Biased expression in Brain (RPKM 151.4), Spleen (RPKM 21.6) and 5 other tissues See more
Orthologs

Genomic context

See Syn1 in Genome Data Viewer
Location:
Xq11
Exon count:
13
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (1321315..1379202)
104 previous assembly Rnor_5.0 (GCF_000001895.4) X NC_005120.3 (2136336..2194393)

Chromosome X - NC_005120.4Genomic Context describing neighboring genes Neighboring gene ETS transcription factor ELK1 Neighboring gene complement factor properdin Neighboring gene 60S ribosomal protein L12-like Neighboring gene TIMP metallopeptidase inhibitor 1 Neighboring gene A-Raf proto-oncogene, serine/threonine kinase Neighboring gene 40S ribosomal protein S24-like Neighboring gene 60S ribosomal protein L22-like 1 pseudogene

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
ATP binding IEA
Inferred from Electronic Annotation
more info
 
actin binding IEA
Inferred from Electronic Annotation
more info
 
calcium-dependent protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
protein kinase binding IEA
Inferred from Electronic Annotation
more info
 
protein kinase binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
neuron development IEP
Inferred from Expression Pattern
more info
PubMed 
neurotransmitter secretion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
neurotransmitter secretion ISO
Inferred from Sequence Orthology
more info
 
neurotransmitter secretion TAS
Traceable Author Statement
more info
PubMed 
regulation of synaptic vesicle cycle IEA
Inferred from Electronic Annotation
more info
 
regulation of synaptic vesicle cycle ISO
Inferred from Sequence Orthology
more info
 
synapse organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
synaptic vesicle clustering IEA
Inferred from Electronic Annotation
more info
 
synaptic vesicle clustering ISO
Inferred from Sequence Orthology
more info
 
synaptic vesicle cycle ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
Golgi apparatus IEA
Inferred from Electronic Annotation
more info
 
Schaffer collateral - CA1 synapse IEA
Inferred from Electronic Annotation
more info
 
Schaffer collateral - CA1 synapse ISO
Inferred from Sequence Orthology
more info
 
anchored component of synaptic vesicle membrane IDA
Inferred from Direct Assay
more info
PubMed 
axon ISO
Inferred from Sequence Orthology
more info
 
cell junction IEA
Inferred from Electronic Annotation
more info
 
cytoskeleton IEA
Inferred from Electronic Annotation
more info
 
cytoskeleton ISO
Inferred from Sequence Orthology
more info
 
cytosol IDA
Inferred from Direct Assay
more info
PubMed 
dendrite IDA
Inferred from Direct Assay
more info
PubMed 
extrinsic component of synaptic vesicle membrane EXP
Inferred from Experiment
more info
PubMed 
extrinsic component of synaptic vesicle membrane IDA
Inferred from Direct Assay
more info
PubMed 
intracellular organelle IDA
Inferred from Direct Assay
more info
PubMed 
postsynaptic density IEA
Inferred from Electronic Annotation
more info
 
postsynaptic density ISO
Inferred from Sequence Orthology
more info
 
presynapse ISO
Inferred from Sequence Orthology
more info
 
presynaptic active zone IDA
Inferred from Direct Assay
more info
PubMed 
presynaptic active zone ISO
Inferred from Sequence Orthology
more info
 
synapse IDA
Inferred from Direct Assay
more info
PubMed 
synapse ISO
Inferred from Sequence Orthology
more info
 
synaptic vesicle IDA
Inferred from Direct Assay
more info
PubMed 
synaptic vesicle membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
synaptic vesicle membrane ISO
Inferred from Sequence Orthology
more info
 
synaptonemal complex IEA
Inferred from Electronic Annotation
more info
 
synaptonemal complex ISO
Inferred from Sequence Orthology
more info
 
terminal bouton HDA PubMed 

NCBI Reference Sequences (RefSeq)

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)

  1. NM_001110782.2NP_001104252.1  synapsin-1 isoform b

    See identical proteins and their annotated locations for NP_001104252.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate acceptor splice site at the 3' terminal exon compared to variant 1, which results in a frame-shift, and a shorter isoform (b) with a distinct C-terminus compared to isoform a.
    Source sequence(s)
    AABR07036742, BG378858, CO401107, FQ084192, M27924
    UniProtKB/Swiss-Prot
    P09951
    Conserved Domains (3) summary
    pfam02078
    Location:115212
    Synapsin; Synapsin, N-terminal domain
    pfam10581
    Location:127
    Synapsin_N; Synapsin N-terminal
    cl17255
    Location:214416
    ATP-grasp_4; ATP-grasp domain
  2. NM_019133.2NP_062006.1  synapsin-1 isoform a

    See identical proteins and their annotated locations for NP_062006.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes the longer isoform (a).
    Source sequence(s)
    AABR07036742, BG378858, CO401107, FQ084192, M27812
    UniProtKB/Swiss-Prot
    P09951
    Related
    ENSRNOP00000014250.5, ENSRNOT00000014250.6
    Conserved Domains (3) summary
    pfam02078
    Location:115212
    Synapsin; Synapsin, N-terminal domain
    pfam10581
    Location:127
    Synapsin_N; Synapsin N-terminal
    cl17255
    Location:214416
    ATP-grasp_4; ATP-grasp domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005120.4 Reference Rnor_6.0 Primary Assembly

    Range
    1321315..1379202
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000089.1 Alternate Rn_Celera

    Range
    1741094..1795235
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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