Ubxn2a UBX domain protein 2A [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Ubxn2aprovided by RGD
Official Full Name: UBX domain protein 2Aprovided by RGD
Primary source: RGD:1589027
See related: EnsemblRapid:ENSRNOG00000068687 AllianceGenome:RGD:1589027
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: Ubxd4
Summary: Predicted to enable acetylcholine receptor binding activity and ubiquitin binding activity. Acts upstream of or within regulation of gene expression. Predicted to be located in cis-Golgi network and endoplasmic reticulum. Predicted to be active in cytosol and nucleus. Orthologous to human UBXN2A (UBX domain protein 2A). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Muscle (RPKM 362.0), Heart (RPKM 211.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 6q14

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	6	NC_086024.1 (33603804..33645958, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	6	NC_051341.1 (27884364..27912767, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	6	NC_005105.4 (28969471..28997987, complement)

Chromosome 6 - NC_086024.1 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?

The data of this study suggested that UBXD4 modulates the distribution of alpha3* nAChRs between specialized intracellular compartments and the plasma membrane.
Title: UBXD4, a UBX-containing protein, regulates the cell surface number and stability of alpha3-containing nicotinic acetylcholine receptors.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH131262 (e-PCR)
- UniSTS:214545

RH141013 (e-PCR)
- UniSTS:223013

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables acetylcholine receptor binding	ISO Inferred from Sequence Orthology more info
enables ubiquitin binding	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in Golgi organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in autophagosome assembly	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within cellular response to leukemia inhibitory factor	ISO Inferred from Sequence Orthology more info
involved_in membrane fusion	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of ERAD pathway	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of ERAD pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of proteolysis	ISO Inferred from Sequence Orthology more info
involved_in nuclear membrane reassembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in positive regulation of protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in proteasome-mediated ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of protein catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of protein ubiquitination	ISO Inferred from Sequence Orthology more info

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

General protein information

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Preferred Names: UBX domain-containing protein 2A

Names: UBX domain containing 4

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_001109482.2 → NP_001102952.1 UBX domain-containing protein 2A

See identical proteins and their annotated locations for NP_001102952.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000006

UniProtKB/Swiss-Prot

A6HAJ7, D3ZID8

Related

ENSRNOP00000076999.1, ENSRNOT00000098597.2

Conserved Domains (2) summary

cd17160
Location:168 → 251

UBX_UBXN2A; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 2A (UBXN2A) and similar proteins

pfam08059
Location:66 → 139

SEP; SEP domain

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_086024.1 Reference GRCr8

Range

33603804..33645958 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063262479.1 → XP_063118549.1 UBX domain-containing protein 2A isoform X1

UniProtKB/Swiss-Prot

A6HAJ7, D3ZID8
XM_039112932.2 → XP_038968860.1 UBX domain-containing protein 2A isoform X2

Conserved Domains (2) summary

pfam08059
Location:66 → 139

SEP; SEP domain

cl28922
Location:143 → 198

Ubiquitin_like_fold; Beta-grasp ubiquitin-like fold
XM_039112930.2 → XP_038968858.1 UBX domain-containing protein 2A isoform X1

UniProtKB/Swiss-Prot

A6HAJ7, D3ZID8

Conserved Domains (2) summary

cd17160
Location:168 → 251

UBX_UBXN2A; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 2A (UBXN2A) and similar proteins

pfam08059
Location:66 → 139

SEP; SEP domain
XM_063262480.1 → XP_063118550.1 UBX domain-containing protein 2A isoform X3

UniProtKB/TrEMBL

A6HAJ9
XM_039112931.2 → XP_038968859.1 UBX domain-containing protein 2A isoform X1

UniProtKB/Swiss-Prot

A6HAJ7, D3ZID8

Related

ENSRNOP00000107835.1, ENSRNOT00000170494.1

Conserved Domains (2) summary

cd17160
Location:168 → 251

UBX_UBXN2A; Ubiquitin regulatory domain X (UBX) found in UBX domain protein 2A (UBXN2A) and similar proteins

pfam08059
Location:66 → 139

SEP; SEP domain
XM_063262477.1 → XP_063118547.1 UBX domain-containing protein 2A isoform X1

UniProtKB/Swiss-Prot

A6HAJ7, D3ZID8