Vps29 VPS29 retromer complex component [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Vps29provided by RGD
Official Full Name: VPS29 retromer complex componentprovided by RGD
Primary source: RGD:1308332
See related: EnsemblRapid:ENSRNOG00000001274 AllianceGenome:RGD:1308332
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
Summary: Predicted to enable metal ion binding activity. Predicted to be involved in endocytic recycling; intracellular protein transport; and retrograde transport, endosome to Golgi. Predicted to be located in cytosol and intracellular membrane-bounded organelle. Predicted to be part of retromer, cargo-selective complex. Predicted to be active in endosome. Orthologous to human VPS29 (VPS29 retromer complex component). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Kidney (RPKM 434.4), Brain (RPKM 255.9) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 12q16

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	12	NC_086030.1 (39869688..39878732, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	12	NC_051347.1 (34208911..34217977, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	12	NC_005111.4 (39690069..39699114, complement)

Chromosome 12 - NC_086030.1 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

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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 metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in endocytic recycling	IEA Inferred from Electronic Annotation more info
involved_in endocytic recycling	ISO Inferred from Sequence Orthology more info
involved_in endocytic recycling	ISS Inferred from Sequence or Structural Similarity more info
involved_in intracellular protein transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein transport	IEA Inferred from Electronic Annotation more info
NOT involved_in regulation of autophagy	ISO Inferred from Sequence Orthology more info
involved_in retrograde transport, endosome to Golgi	IBA Inferred from Biological aspect of Ancestor more info
involved_in retrograde transport, endosome to Golgi	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in early endosome	IEA Inferred from Electronic Annotation more info
is_active_in endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in endosome	ISO Inferred from Sequence Orthology more info
located_in endosome membrane	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in late endosome	IEA Inferred from Electronic Annotation more info
part_of retromer complex	IBA Inferred from Biological aspect of Ancestor more info
part_of retromer complex	IEA Inferred from Electronic Annotation more info
part_of retromer complex	ISO Inferred from Sequence Orthology more info
part_of retromer complex	ISS Inferred from Sequence or Structural Similarity more info
part_of retromer, cargo-selective complex	IEA Inferred from Electronic Annotation more info
part_of retromer, cargo-selective complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: vacuolar protein sorting-associated protein 29

Names: vacuolar protein sorting 29 homolog

NP_001099402.1

EC 3.1.3.3

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_001105932.1 → NP_001099402.1 vacuolar protein sorting-associated protein 29

See identical proteins and their annotated locations for NP_001099402.1

Status: PROVISIONAL

Source sequence(s)

CH473973

UniProtKB/Swiss-Prot

A6J1A4, B2RZ78

UniProtKB/TrEMBL

A0A8I6AUQ8

Related

ENSRNOP00000097672.1, ENSRNOT00000099825.2

Conserved Domains (1) summary

cd07394
Location:2 → 179

MPP_Vps29; Homo sapiens Vps29 and related proteins, metallophosphatase domain