Pex5l peroxisomal biogenesis factor 5-like [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pex5lprovided by RGD
Official Full Name: peroxisomal biogenesis factor 5-likeprovided by RGD
Primary source: RGD:708407
See related: Ensembl:ENSRNOG00000011211 AllianceGenome:RGD:708407
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
Also known as: Pex2; TRIP8b; Trjip8b
Summary: Enables intracellular cyclic nucleotide activated cation channel activity and small GTPase binding activity. Involved in positive regulation of corticotropin secretion; regulated exocytosis; and regulation of cAMP-mediated signaling. Located in cell tip and perinuclear region of cytoplasm. Part of intracellular cyclic nucleotide activated cation channel complex. Orthologous to human PEX5L (peroxisomal biogenesis factor 5 like). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 374.3) and Testes (RPKM 120.9) See more
Orthologs: human mouse all
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Genomic context

Location:: 2q24

Exon count:: 23

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (117623199..117836772, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (115694868..115908365, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (119330330..119405809, complement)

Chromosome 2 - NC_086020.1 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?

loss of TRIP8b phosphorylation may affect HCN channel properties during epileptogenesis.
Title: Phosphorylation of the HCN channel auxiliary subunit TRIP8b is altered in an animal model of temporal lobe epilepsy and modulates channel function.
Nedd4-2 plays an important role in the regulation of HCN1 trafficking and may compete with TRIP8b(1a-4) in this process
Title: Nedd4-2 regulates surface expression and may affect N-glycosylation of hyperpolarization-activated cyclic nucleotide-gated (HCN)-1 channels.
TRIP8b isoforms are important regulators of HCN1 trafficking in entorhinal neurons.
Title: Regulation of axonal HCN1 trafficking in perforant path involves expression of specific TRIP8b isoforms.
Hyperpolarization current expression was high in corticospinal neurons and low in corticostriatal and corticocortical neurons, a pattern mirrored by mRNA levels for HCN1 and Trip8b subunits.
Title: Corticospinal-specific HCN expression in mouse motor cortex: I(h)-dependent synaptic integration as a candidate microcircuit mechanism involved in motor control.
Our data suggest complex regulatory functions of TRIP8b in neuronal endocytosis through independent interaction with membrane proteins and components of the clathrin coat
Title: Association of adaptor protein TRIP8b with clathrin.
increasing cAMP levels in cells antagonized the up-regulation of HCN1 channels mediated by a TRIP8b construct binding the CNBD exclusively.
Title: Trafficking and gating of hyperpolarization-activated cyclic nucleotide-gated channels are regulated by interaction with tetratricopeptide repeat-containing Rab8b-interacting protein (TRIP8b) and cyclic AMP at distinct sites.
although TRIP8b exists in multiple splice isoforms, our data suggest that the predominant role of this protein in brain is to promote h channel surface expression and enhance its current
Title: Alternatively spliced isoforms of TRIP8b differentially control h channel trafficking and function.
A role of TRIP8b in receptor-mediated endocytosis.
Title: Analysis of proteins interacting with TRIP8b adapter.

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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

AU046348 (e-PCR)
- UniSTS:111527

BE121134 (e-PCR)
- UniSTS:248025

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables intracellularly cyclic nucleotide-activated monoatomic cation channel activity	IDA Inferred from Direct Assay more info	PubMed
enables peroxisome matrix targeting signal-1 binding	IBA Inferred from Biological aspect of Ancestor more info
enables peroxisome matrix targeting signal-1 binding	ISO Inferred from Sequence Orthology more info
enables peroxisome targeting sequence binding	IEA Inferred from Electronic Annotation more info
enables peroxisome targeting sequence binding	ISO Inferred from Sequence Orthology more info
enables small GTPase binding	IEA Inferred from Electronic Annotation more info
enables small GTPase binding	IPI Inferred from Physical Interaction more info	PubMed
enables small GTPase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within maintenance of protein location	ISO Inferred from Sequence Orthology more info
involved_in monoatomic cation transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of corticotropin secretion	IDA Inferred from Direct Assay more info	PubMed
involved_in protein import into peroxisome matrix, docking	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulated exocytosis	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of cAMP-mediated signaling	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within regulation of membrane potential	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell tip	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in cytosol	IBA Inferred from Biological aspect of Ancestor more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in dendrite	ISO Inferred from Sequence Orthology more info
part_of intracellular cyclic nucleotide activated cation channel complex	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in peroxisomal membrane	IBA Inferred from Biological aspect of Ancestor more info
part_of receptor complex	IEA Inferred from Electronic Annotation more info
part_of receptor complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: PEX5-related protein

Names: PEX5-like protein; TPR-containing Rab8b-interacting protein; peroxin 2; peroxin-5-related protein; pex5Rp; tetratricopeptide repeat-containing Rab8b-interacting protein

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_001393823.2 → NP_001380752.1 PEX5-related protein isoform 2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q925N3

UniProtKB/TrEMBL

A0A8I6AHG5

Related

ENSRNOP00000092235.1, ENSRNOT00000105858.1

Conserved Domains (2) summary

TIGR02917
Location:353 → 583

PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein

sd00006
Location:496 → 524

TPR; TPR repeat [structural motif]
NM_001393824.2 → NP_001380753.1 PEX5-related protein isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q925N3

Conserved Domains (2) summary

TIGR02917
Location:296 → 526

PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein

sd00006
Location:439 → 467

TPR; TPR repeat [structural motif]
NM_001393825.2 → NP_001380754.1 PEX5-related protein isoform 4

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q925N3

UniProtKB/TrEMBL

A0A8I6AGZ2, A6IHR5

Related

ENSRNOP00000087652.1, ENSRNOT00000120122.1

Conserved Domains (2) summary

TIGR02917
Location:272 → 502

PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein

sd00006
Location:415 → 443

TPR; TPR repeat [structural motif]
NM_001393826.2 → NP_001380755.1 PEX5-related protein isoform 5

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q925N3

Conserved Domains (2) summary

TIGR02917
Location:331 → 561

PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein

sd00006
Location:474 → 502

TPR; TPR repeat [structural motif]
NM_001393827.2 → NP_001380756.1 PEX5-related protein isoform 6

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q925N3

UniProtKB/TrEMBL

A0A8I6G884

Conserved Domains (2) summary

TIGR02917
Location:355 → 585

PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein

sd00006
Location:498 → 526

TPR; TPR repeat [structural motif]
NM_001393828.2 → NP_001380757.1 PEX5-related protein isoform 7

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q925N3

Conserved Domains (2) summary

TIGR02917
Location:330 → 560

PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein

sd00006
Location:473 → 501

TPR; TPR repeat [structural motif]
NM_001393829.2 → NP_001380758.1 PEX5-related protein isoform 8

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q925N3

UniProtKB/TrEMBL

A0A8I6A617, A6IHR7

Related

ENSRNOP00000086465.1, ENSRNOT00000107964.1

Conserved Domains (2) summary

TIGR02917
Location:320 → 550

PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein

sd00006
Location:463 → 491

TPR; TPR repeat [structural motif]
NM_001393830.2 → NP_001380759.1 PEX5-related protein isoform 9

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q925N3

Related

ENSRNOP00000095922.1, ENSRNOT00000098944.1

Conserved Domains (2) summary

TIGR02917
Location:295 → 525

PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein

sd00006
Location:438 → 466

TPR; TPR repeat [structural motif]
NM_001393831.2 → NP_001380760.1 PEX5-related protein isoform 6

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q925N3

UniProtKB/TrEMBL

A0A8I6G884

Related

ENSRNOP00000082985.1, ENSRNOT00000097356.1

Conserved Domains (2) summary

TIGR02917
Location:355 → 585

PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein

sd00006
Location:498 → 526

TPR; TPR repeat [structural motif]
NM_173152.4 → NP_775175.2 PEX5-related protein isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

Q925N3

UniProtKB/TrEMBL

A0A8I6AHT0, A6IHR6

Related

ENSRNOP00000094453.1, ENSRNOT00000120297.1

Conserved Domains (2) summary

TIGR02917
Location:307 → 537

PEP_TPR_lipo; putative PEP-CTERM system TPR-repeat lipoprotein

sd00006
Location:450 → 478

TPR; TPR repeat [structural motif]