Pex13 peroxisomal biogenesis factor 13 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pex13provided by RGD
Official Full Name: peroxisomal biogenesis factor 13provided by RGD
Primary source: RGD:1310682
See related: EnsemblRapid:ENSRNOG00000054896 AllianceGenome:RGD:1310682
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 protein transmembrane transporter activity. Predicted to be involved in cellular response to reactive oxygen species; protein import into peroxisome matrix, docking; and protein import into peroxisome matrix, translocation. Predicted to act upstream of or within several processes, including fatty acid alpha-oxidation; microtubule-based peroxisome localization; and nervous system development. Located in peroxisomal membrane. Human ortholog(s) of this gene implicated in Peroxisome biogenesis disorder 11B and peroxisome biogenesis disorder 11A. Orthologous to human PEX13 (peroxisomal biogenesis factor 13). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Liver (RPKM 258.4), Kidney (RPKM 235.0) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 14q22

Exon count:: 6

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	14	NC_086032.1 (101804673..101822367, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	14	NC_051349.1 (97602829..97621233, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	14	NC_005113.4 (108394299..108411994, complement)

Chromosome 14 - NC_086032.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages 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?

results indicate that PEX14 is a bona fide intrinsic membrane protein with a Nin -Cout topology, and that PEX13 adopts a Nout -Cin topology, thus exposing its carboxy-terminal Src homology 3 [SH3] domain into the organelle matrix
Title: Membrane topologies of PEX13 and PEX14 provide new insights on the mechanism of protein import into peroxisomes.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables protein transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables protein transmembrane transporter activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
involved_in cellular response to reactive oxygen species	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cerebral cortex cell migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within fatty acid alpha-oxidation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within locomotory behavior	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within microtubule-based peroxisome localization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron migration	ISO Inferred from Sequence Orthology more info
involved_in protein import into peroxisome matrix, docking	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein import into peroxisome matrix, docking	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within protein import into peroxisome matrix, docking	ISO Inferred from Sequence Orthology more info
involved_in protein import into peroxisome matrix, docking	ISO Inferred from Sequence Orthology more info
involved_in protein import into peroxisome matrix, docking	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein import into peroxisome matrix, translocation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within suckling behavior	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of peroxisomal importomer complex	IBA Inferred from Biological aspect of Ancestor more info
is_active_in peroxisomal membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in peroxisomal membrane	IDA Inferred from Direct Assay more info	PubMed
located_in peroxisomal membrane	IEA Inferred from Electronic Annotation more info
is_active_in peroxisomal membrane	ISO Inferred from Sequence Orthology more info
located_in peroxisomal membrane	ISO Inferred from Sequence Orthology more info
located_in peroxisome	IDA Inferred from Direct Assay more info	PubMed
located_in peroxisome	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: peroxisomal membrane protein PEX13

Names: peroxin-13; peroxisome biogenesis factor 13

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_001107242.2 → NP_001100712.1 peroxisomal membrane protein PEX13

See identical proteins and their annotated locations for NP_001100712.1

Status: VALIDATED

Source sequence(s)

FM088835, JAXUCZ010000014

UniProtKB/Swiss-Prot

A0A8I6AVL0, D4A2Y9

UniProtKB/TrEMBL

A0A996RY22

Related

ENSRNOP00000097867.1, ENSRNOT00000104301.2

Conserved Domains (2) summary

cd11864
Location:276 → 333

SH3_PEX13_eumet; Src Homology 3 domain of eumetazoan Peroxisomal biogenesis factor 13

pfam04088
Location:111 → 254

Peroxin-13_N; Peroxin 13, N-terminal region

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_086032.1 Reference GRCr8

Range

101804673..101822367 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039092099.2 → XP_038948027.1 peroxisomal membrane protein PEX13 isoform X1

Conserved Domains (2) summary

cd11864
Location:132 → 189

SH3_PEX13_eumet; Src Homology 3 domain of eumetazoan Peroxisomal biogenesis factor 13

pfam04088
Location:1 → 110

Peroxin-13_N; Peroxin 13, N-terminal region
XM_039092101.2 → XP_038948029.1 peroxisomal membrane protein PEX13 isoform X1

Conserved Domains (2) summary

cd11864
Location:132 → 189

SH3_PEX13_eumet; Src Homology 3 domain of eumetazoan Peroxisomal biogenesis factor 13

pfam04088
Location:1 → 110

Peroxin-13_N; Peroxin 13, N-terminal region