Pef1 penta-EF hand domain containing 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Pef1provided by RGD
Official Full Name: penta-EF hand domain containing 1provided by RGD
Primary source: RGD:1359536
See related: EnsemblRapid:ENSRNOG00000013972 AllianceGenome:RGD:1359536
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: Peflin
Summary: Predicted to enable several functions, including calcium-dependent protein binding activity; protein heterodimerization activity; and ubiquitin-like ligase-substrate adaptor activity. Predicted to be involved in several processes, including COPII vesicle coating; mesenchymal cell differentiation; and positive regulation of protein monoubiquitination. Predicted to be located in cytoplasm. Predicted to be part of COPII vesicle coat and Cul3-RING ubiquitin ligase complex. Orthologous to human PEF1 (penta-EF-hand domain containing 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Adrenal (RPKM 252.8), Kidney (RPKM 237.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 5

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (147735973..147759239)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (142451791..142475061)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (148320610..148343876)

Chromosome 5 - NC_086023.1 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 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?

ALG-2 and peflin regulate COPII targeting and secretion in response to calcium signaling.
Title: ALG-2 and peflin regulate COPII targeting and secretion in response to calcium signaling.
This work identifies for the first time a clear steady state role for a PEF protein in ER-to-Golgi transport-peflin is a negative regulator of transport.
Title: Penta-EF-Hand Protein Peflin Is a Negative Regulator of ER-To-Golgi Transport.

Submit: New GeneRIF Correction

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 calcium ion binding	IEA Inferred from Electronic Annotation more info
enables calcium-dependent protein binding	IEA Inferred from Electronic Annotation more info
enables calcium-dependent protein binding	ISO Inferred from Sequence Orthology more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables protein dimerization activity	ISO Inferred from Sequence Orthology more info
enables protein heterodimerization activity	IEA Inferred from Electronic Annotation more info
enables protein heterodimerization activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin-like ligase-substrate adaptor activity	IEA Inferred from Electronic Annotation more info
enables ubiquitin-like ligase-substrate adaptor activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin-like ligase-substrate adaptor activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in COPII vesicle coating	IBA Inferred from Biological aspect of Ancestor more info
involved_in COPII vesicle coating	IEA Inferred from Electronic Annotation more info
involved_in COPII vesicle coating	ISO Inferred from Sequence Orthology more info
involved_in COPII vesicle coating	ISS Inferred from Sequence or Structural Similarity more info
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport	ISO Inferred from Sequence Orthology more info
involved_in endoplasmic reticulum to Golgi vesicle-mediated transport	ISS Inferred from Sequence or Structural Similarity more info
involved_in neural crest cell development	IEA Inferred from Electronic Annotation more info
involved_in neural crest cell development	ISO Inferred from Sequence Orthology more info
involved_in neural crest cell development	ISS Inferred from Sequence or Structural Similarity more info
involved_in neural crest formation	IEA Inferred from Electronic Annotation more info
involved_in neural crest formation	ISO Inferred from Sequence Orthology more info
involved_in neural crest formation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of protein monoubiquitination	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein monoubiquitination	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein monoubiquitination	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to calcium ion	IEA Inferred from Electronic Annotation more info
involved_in response to calcium ion	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
part_of COPII vesicle coat	IEA Inferred from Electronic Annotation more info
part_of COPII vesicle coat	ISO Inferred from Sequence Orthology more info
part_of COPII vesicle coat	ISS Inferred from Sequence or Structural Similarity more info
part_of Cul3-RING ubiquitin ligase complex	IEA Inferred from Electronic Annotation more info
part_of Cul3-RING ubiquitin ligase complex	ISO Inferred from Sequence Orthology more info
part_of Cul3-RING ubiquitin ligase complex	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: peflin

Names: PEF protein with a long N-terminal hydrophobic domain; penta-EF hand domain-containing protein 1

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_001007651.1 → NP_001007652.1 peflin

See identical proteins and their annotated locations for NP_001007652.1

Status: PROVISIONAL

Source sequence(s)

BC082028

UniProtKB/Swiss-Prot

Q641Z8

UniProtKB/TrEMBL

A0A8I6AA23, A6ISN1

Related

ENSRNOP00000018742.2, ENSRNOT00000018742.7

Conserved Domains (4) summary

cd00051
Location:122 → 171

EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

pfam13405
Location:184 → 213

EF-hand_6; EF-hand domain

pfam13499
Location:186 → 277

EF-hand_7; EF-hand domain pair

cl08302
Location:186 → 277

EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...