Nphs2 NPHS2 stomatin family member, podocin [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nphs2provided by RGD
Official Full Name: NPHS2 stomatin family member, podocinprovided by RGD
Primary source: RGD:620461
See related: EnsemblRapid:ENSRNOG00000004030 AllianceGenome:RGD:620461
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: podocin
Summary: Predicted to be involved in actin cytoskeleton organization and metanephric podocyte development. Predicted to act upstream of or within gene expression. Predicted to be located in cytoplasmic side of plasma membrane; membrane raft; and slit diaphragm. Predicted to be part of protein-containing complex. Predicted to be active in plasma membrane. Used to study membranous glomerulonephritis and proteinuria. Biomarker of nephrotic syndrome. Human ortholog(s) of this gene implicated in nephrotic syndrome type 2. Orthologous to human NPHS2 (NPHS2 stomatin family member, podocin). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Restricted expression toward (RPKM 231.4) See more
Orthologs: human mouse all
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Genomic context

Location:: 13q22

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	13	NC_086031.1 (70993622..71011585)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	13	NC_051348.1 (68448720..68461312)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	13	NC_005112.4 (73929136..73941522)

Chromosome 13 - NC_086031.1 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?

The effects of sildenafil citrate on urinary podocin and nephrin mRNA expression in an L-NAME model of pre-eclampsia.
Title: The effects of sildenafil citrate on urinary podocin and nephrin mRNA expression in an L-NAME model of pre-eclampsia.
These findings suggest that candesartan can prevent cisplatin-induced testicular damage by regulating expression patterns of the nephrin-podocin complex in the testes.
Title: Candesartan Mediated Amelioration of Cisplatin-Induced Testicular Damage Is Associated with Alterations in Expression Patterns of Nephrin and Podocin.
translocation of podocin by endocytosis could be a key traffic event of critical podocyte injury and that the podocin gap could indicate the prognosis of IgA nephropathy.
Title: Podocin is translocated to cytoplasm in puromycin aminonucleoside nephrosis rats and in poor-prognosis patients with IgA nephropathy.
Resveratrol alleviated dyslipidemia and renal damage induced by high-fat diet also reduced TNF-alpha and MCP-1 levels, and reduced expressions of nephrin and podocin.
Title: Resveratrol increases nephrin and podocin expression and alleviates renal damage in rats fed a high-fat diet.
ATP evokes activation of TRPC6 channels in podocytes through P2Y receptors, podocin, and generation of reactive oxygen species.
Title: ATP acting through P2Y receptors causes activation of podocyte TRPC6 channels: role of podocin and reactive oxygen species.
Huaiqihuang Granule can up-regulate the expressions of nephrin and podocin in renal tissues of rats with adriamycin-induced nephrosis.
Title: [Effects of Chinese herbal medicine Huaiqihuang Granule on nephrin and podocin expressions in renal tissues of rats with adriamycin-induced nephrosis].
Podocin may serve as scaffold that links tight junction proteins to actin cytoskeleton in nephrotic foot processes.
Title: Podocin participates in the assembly of tight junctions between foot processes in nephrotic podocytes.
variants in NPHS2 promoter is associated with nephrotic syndrome
Title: Rare functional variants of podocin (NPHS2) promoter in patients with nephrotic syndrome.
podocin is one of critical components of slit diaphragm for maintaining barrier function of glomerular capillary wall
Title: Cloning of rat homologue of podocin: expression in proteinuric states and in developing glomeruli.
Fyn phosphorylates the cytoplasmic domain of nephrin on tyrosine, leading to enhanced association with podocin and downstream signaling of nephrin.
Title: SRC-family kinase Fyn phosphorylates the cytoplasmic domain of nephrin and modulates its interaction with podocin.

Submit: New GeneRIF Correction See all GeneRIFs (11)

General gene information

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Gene Ontology Provided by RGD

Process	Evidence Code	Pubs
involved_in actin cytoskeleton organization	ISO Inferred from Sequence Orthology more info
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within gene expression	ISO Inferred from Sequence Orthology more info
involved_in metanephric podocyte development	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in cell periphery	ISO Inferred from Sequence Orthology more info
located_in cell-cell junction	ISO Inferred from Sequence Orthology more info
located_in cytoplasmic side of plasma membrane	ISO Inferred from Sequence Orthology more info
located_in membrane raft	ISO Inferred from Sequence Orthology more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
part_of protein-containing complex	ISO Inferred from Sequence Orthology more info
located_in slit diaphragm	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: podocin

Names: NPHS2, podocin; nephrosis 2 homolog, podocin; nephrosis 2, idiopathic, steroid-resistant

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_130828.3 → NP_570841.3 podocin

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000013

UniProtKB/Swiss-Prot

Q4G090, Q80WP2, Q8CJE4, Q8K4G9, Q920E2

UniProtKB/TrEMBL

A6ID08

Related

ENSRNOP00000005425.3, ENSRNOT00000005425.8

Conserved Domains (1) summary

cd08827
Location:122 → 344

SPFH_podocin; Podocin, a subgroup of the stomatin-like proteins (slipins) family; belonging to the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086031.1 Reference GRCr8

Range

70993622..71011585

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039090291.2 → XP_038946219.1 podocin isoform X1

UniProtKB/TrEMBL

A6ID09

Conserved Domains (1) summary

cl19107
Location:122 → 299

SPFH_like; core domain of the SPFH (stomatin, prohibitin, flotillin, and HflK/C) superfamily