Synpo2 synaptopodin 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Synpo2provided by RGD
Official Full Name: synaptopodin 2provided by RGD
Primary source: RGD:1564779
See related: Ensembl:ENSRNOG00000014867 AllianceGenome:RGD:1564779
Gene type: protein coding
RefSeq status: INFERRED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1564779
Summary: Enables protein-macromolecule adaptor activity. Involved in autophagosome assembly and chaperone-mediated autophagy. Located in Z disc; nucleus; and stress fiber. Orthologous to human SYNPO2 (synaptopodin 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Muscle (RPKM 387.5), Heart (RPKM 155.0) and 3 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q42

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (213901685..214055844, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (211217099..211371267, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (227255243..227411924, complement)

Chromosome 2 - NC_086020.1 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?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH140440 (e-PCR)
- UniSTS:222515

ha3147 (e-PCR)
- UniSTS:515658

BI292098 (e-PCR)
- UniSTS:245146

RH130908 (e-PCR)
- UniSTS:214192

AU049432 (e-PCR)
- UniSTS:145879

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables 14-3-3 protein binding	ISO Inferred from Sequence Orthology more info
enables 14-3-3 protein binding	ISS Inferred from Sequence or Structural Similarity more info
enables actin binding	IBA Inferred from Biological aspect of Ancestor more info
enables alpha-actinin binding	IEA Inferred from Electronic Annotation more info
enables alpha-actinin binding	ISO Inferred from Sequence Orthology more info
enables filamin binding	IEA Inferred from Electronic Annotation more info
enables filamin binding	ISO Inferred from Sequence Orthology more info
enables muscle alpha-actinin binding	ISO Inferred from Sequence Orthology more info
enables muscle alpha-actinin binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein-macromolecule adaptor activity	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
involved_in autophagosome assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in chaperone-mediated autophagy	IMP Inferred from Mutant Phenotype more info	PubMed
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 positive regulation of cell migration	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in Z disc	IBA Inferred from Biological aspect of Ancestor more info
located_in Z disc	IDA Inferred from Direct Assay more info	PubMed
located_in Z disc	IEA Inferred from Electronic Annotation more info
located_in Z disc	ISO Inferred from Sequence Orthology 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 cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in focal adhesion	IEA Inferred from Electronic Annotation more info
located_in focal adhesion	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	IEA Inferred from Electronic Annotation more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	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	IDA Inferred from Direct Assay more info	PubMed
located_in stress fiber	IEA Inferred from Electronic Annotation more info
located_in stress fiber	ISO Inferred from Sequence Orthology more info
part_of vesicle tethering complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: synaptopodin-2

Names: myopodin

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_001191963.1 → NP_001178892.1 synaptopodin-2

Status: INFERRED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

D4A702

UniProtKB/TrEMBL

A0A8L2QB32

Related

ENSRNOP00000019931.7, ENSRNOT00000019931.8

Conserved Domains (2) summary

cd00992
Location:7 → 85

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

cl26464
Location:651 → 1101

Atrophin-1; Atrophin-1 family