Synpo synaptopodin [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Synpoprovided by RGD
Official Full Name: synaptopodinprovided by RGD
Primary source: RGD:620668
See related: Ensembl:ENSRNOG00000019181 AllianceGenome:RGD:620668
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 actin binding activity. Predicted to be involved in several processes, including modification of dendritic spine; modulation of chemical synaptic transmission; and regulation of actin filament bundle assembly. Is active in glutamatergic synapse and spine apparatus. Orthologous to human SYNPO (synaptopodin). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Heart (RPKM 151.3), Muscle (RPKM 128.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 18q12.1

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	18	NC_086036.1 (56326369..56347359, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	18	NC_051353.1 (54048299..54106388, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	18	NC_005117.4 (55863081..55921412, complement)

Chromosome 18 - NC_086036.1 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?

Myosin V regulates synaptopodin clustering and localization in the dendrites of hippocampal neurons.
Title: Myosin V regulates synaptopodin clustering and localization in the dendrites of hippocampal neurons.
The study provides evidence of a novel role for the co-chaperone BAG3 in synapses. In cooperation with SYNPO, it functions as part of a surveillance complex that facilitates the autophagic clearance of MAPT p-Ser262, and possibly other MAPT species at the post-synapse.
Title: BAG3 and SYNPO (synaptopodin) facilitate phospho-MAPT/Tau degradation via autophagy in neuronal processes.
Using single particle tracking we have identified a specific effect of synaptopodin on the diffusion of metabotropic mGluR5 receptors in the spine neck.
Title: The Role of Synaptopodin in Membrane Protein Diffusion in the Dendritic Spine Neck.
Together, these results indicate that alpha-actinin and the actin cytoskeleton are important components of the cisternal organelle that are probably required to stabilize the AIS.
Title: Colocalization of α-actinin and synaptopodin in the pyramidal cell axon initial segment.
A decrease in the slit diaphragm proteins, nephrin and synaptopodin, is a component of chronic allograft pathology.
Title: The contribution of podocytes to chronic allograft nephropathy.
SYNPO stabilized activity-dependent increases in spine volume implying that late-phase changes in spine morphology involve SYNPO
Title: Synaptopodin maintains the neural activity-dependent enlargement of dendritic spines in hippocampal neurons.
These data demonstrate layer-specific changes in the distribution of synaptopodin and the spine apparatus organelle following partial denervation of granule cells.
Title: Plasticity of synaptopodin and the spine apparatus organelle in the rat fascia dentata following entorhinal cortex lesion.
synaptopodin expression follows the well-known sequence of hippocampal principal neuron development. And also observed synaptopodin mRNA expression in a small population of interneurons as revealed by double labeling with interneuron markers.
Title: Postnatal development of synaptopodin expression in the rodent hippocampus.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables actin binding	IBA Inferred from Biological aspect of Ancestor more info
enables actin binding	ISO Inferred from Sequence Orthology more info
enables actin binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in modification of dendritic spine	IBA Inferred from Biological aspect of Ancestor more info
involved_in modification of dendritic spine	IEA Inferred from Electronic Annotation more info
involved_in modification of dendritic spine	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of actin filament bundle assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of actin filament bundle assembly	ISO Inferred from Sequence Orthology more info
involved_in postsynaptic modulation of chemical synaptic transmission	ISO Inferred from Sequence Orthology more info
involved_in regulation of long-term neuronal synaptic plasticity	ISO Inferred from Sequence Orthology more info
involved_in regulation of postsynaptic cytosolic calcium ion concentration	ISO Inferred from Sequence Orthology more info
involved_in regulation of stress fiber assembly	ISO Inferred from Sequence Orthology more info
involved_in spine apparatus assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in spine apparatus assembly	ISO Inferred from Sequence Orthology more info
involved_in visual learning	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in Schaffer collateral - CA1 synapse	ISO Inferred from Sequence Orthology more info
is_active_in Z disc	IBA Inferred from Biological aspect of Ancestor more info
is_active_in actin cytoskeleton	IBA Inferred from Biological aspect of Ancestor more info
located_in actin cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in actin cytoskeleton	ISS Inferred from Sequence or Structural Similarity more info
located_in bicellular tight junction	IEA Inferred from Electronic Annotation more info
located_in cell periphery	ISO Inferred from Sequence Orthology more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISS Inferred from Sequence or Structural Similarity more info
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in perikaryon	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density	IEA Inferred from Electronic Annotation more info
is_active_in spine apparatus	IBA Inferred from Biological aspect of Ancestor more info
is_active_in spine apparatus	IDA Inferred from Direct Assay more info	PubMed
located_in spine apparatus	ISO Inferred from Sequence Orthology more info
is_active_in stress fiber	IBA Inferred from Biological aspect of Ancestor more info
located_in stress fiber	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: synaptopodin

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_021695.2 → NP_067727.2 synaptopodin

See identical proteins and their annotated locations for NP_067727.2

Status: VALIDATED

Source sequence(s)

AB013130, CB769636, CB794090, DY313339, EV779156

UniProtKB/TrEMBL

A6IXC1

Related

ENSRNOP00000061109.1, ENSRNOT00000064686.2

Conserved Domains (3) summary

PHA03247
Location:50 → 361

PHA03247; large tegument protein UL36; Provisional

PRK12323
Location:496 → 689

PRK12323; DNA polymerase III subunits gamma and tau; Provisional

PRK13914
Location:15 → 125

PRK13914; invasion associated secreted endopeptidase; Provisional