Retreg1 reticulophagy regulator 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Symbol: Retreg1provided by RGD
Full Name: reticulophagy regulator 1provided by RGD
Primary source: RGD:1565003
See related: Ensembl:ENSRNOG00000010589 AllianceGenome:RGD:1565003
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: Fam134b
Summary: Predicted to enable nucleic acid binding activity and zinc ion binding activity. Predicted to be involved in negative regulation of neuron apoptotic process; reticulophagy; and sensory perception of pain. Predicted to act upstream of or within mitophagy and white fat cell differentiation. Predicted to be located in cis-Golgi network; endoplasmic reticulum; and nuclear lumen. Predicted to be integral component of endoplasmic reticulum membrane. Human ortholog(s) of this gene implicated in hereditary sensory and autonomic neuropathy type 2B. Orthologous to human RETREG1 (reticulophagy regulator 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Muscle (RPKM 597.9), Heart (RPKM 509.4) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q22

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (78045435..78205316)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (76335609..76474817)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (78391921..78401569)

Chromosome 2 - NC_086020.1 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
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?

O-GlcNAc transferase regulates intervertebral disc degeneration by targeting FAM134B-mediated ER-phagy.
Title: O-GlcNAc transferase regulates intervertebral disc degeneration by targeting FAM134B-mediated ER-phagy.
FAM134B-Mediated ER-Phagy in Mg(2+)-Free Solution-Induced Mitochondrial Calcium Homeostasis and Cell Death in Epileptic Hippocampal Neurons.
Title: FAM134B-Mediated ER-Phagy in Mg(2+)-Free Solution-Induced Mitochondrial Calcium Homeostasis and Cell Death in Epileptic Hippocampal Neurons.
FAM134B Attenuates Seizure-Induced Apoptosis and Endoplasmic Reticulum Stress in Hippocampal Neurons by Promoting Autophagy.
Title: FAM134B Attenuates Seizure-Induced Apoptosis and Endoplasmic Reticulum Stress in Hippocampal Neurons by Promoting Autophagy.
MiT/TFE factors control ER-phagy via transcriptional regulation of FAM134B.
Title: MiT/TFE factors control ER-phagy via transcriptional regulation of FAM134B.

Submit: New GeneRIF Correction

General gene information

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Markers

RH132335 (e-PCR)
- UniSTS:215618

RH143838 (e-PCR)
- UniSTS:233084

BE120148 (e-PCR)
- UniSTS:247253

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables endoplasmic reticulum-autophagosome adaptor activity	ISO Inferred from Sequence Orthology more info
enables nucleic acid binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within autophagy	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within collagen catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within endoplasmic reticulum organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within mitophagy	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron apoptotic process	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron apoptotic process	ISS Inferred from Sequence or Structural Similarity more info
involved_in reticulophagy	IBA Inferred from Biological aspect of Ancestor more info
involved_in reticulophagy	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within reticulophagy	ISO Inferred from Sequence Orthology more info
involved_in reticulophagy	ISO Inferred from Sequence Orthology more info
involved_in reticulophagy	ISS Inferred from Sequence or Structural Similarity more info
involved_in sensory perception of pain	ISO Inferred from Sequence Orthology more info
involved_in sensory perception of pain	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within white fat cell differentiation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cis-Golgi network	ISO Inferred from Sequence Orthology more info
located_in cis-Golgi network	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
is_active_in endoplasmic reticulum membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum membrane	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in nuclear body	ISO Inferred from Sequence Orthology more info
located_in nucleolus	ISO Inferred from Sequence Orthology more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: reticulophagy regulator 1

Names: family with sequence similarity 134, member B; protein FAM134B; reticulophagy receptor 1; reticulophagy receptor FAM134B

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_001034912.1 → NP_001030084.1 reticulophagy regulator 1

See identical proteins and their annotated locations for NP_001030084.1

Status: PROVISIONAL

Source sequence(s)

BC089887

UniProtKB/Swiss-Prot

Q5FVM3

Related

ENSRNOP00000062258.2, ENSRNOT00000063951.4

Conserved Domains (1) summary

pfam02453
Location:68 → 216

Reticulon; Reticulon

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_086020.1 Reference GRCr8

Range

78045435..78205316

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063282446.1 → XP_063138516.1 reticulophagy regulator 1 isoform X1

UniProtKB/Swiss-Prot

Q5FVM3
XM_039103026.2 → XP_038958954.1 reticulophagy regulator 1 isoform X3

UniProtKB/TrEMBL

A0A0G2KAI5

Conserved Domains (2) summary

TIGR00600
Location:126 → 235

rad2; DNA excision repair protein (rad2)

cl41772
Location:9 → 115

Arl6IP1_RETR3-like; ADP-ribosylation factor-like protein 6-interacting protein 1, Reticulophagy regulator 3, and similar proteins
XM_039103027.2 → XP_038958955.1 reticulophagy regulator 1 isoform X4

UniProtKB/TrEMBL

A0A0G2KAI5, A6JMW7

Related

ENSRNOP00000075409.2

Conserved Domains (2) summary

TIGR00600
Location:95 → 204

rad2; DNA excision repair protein (rad2)

cl41772
Location:1 → 84

Arl6IP1_RETR3-like; ADP-ribosylation factor-like protein 6-interacting protein 1, Reticulophagy regulator 3, and similar proteins
XM_006232084.5 → XP_006232146.1 reticulophagy regulator 1 isoform X2

UniProtKB/TrEMBL

A0A0G2JUQ3, A0A0G2KAI5

Related

ENSRNOP00000069183.2

Conserved Domains (2) summary

TIGR00600
Location:129 → 238

rad2; DNA excision repair protein (rad2)

pfam09849
Location:319 → 356

DUF2076; Uncharacterized protein conserved in bacteria (DUF2076)