Slc22a21 solute carrier family 22 (organic cation transporter), member 21 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Slc22a21provided by MGI
Official Full Name: solute carrier family 22 (organic cation transporter), member 21provided by MGI
Primary source: MGI:MGI:1929481
See related: Ensembl:ENSMUSG00000063652 AllianceGenome:MGI:1929481
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Octn3; Slc22a9
Summary: Enables carnitine transmembrane transporter activity. Acts upstream of or within carnitine transport. Located in peroxisomal membrane. Is expressed in several structures, including genitourinary system; liver; lung; nasal cavity mucosa; and spleen. Human ortholog(s) of this gene implicated in Crohn's disease; cardiomyopathy; inherited metabolic disorder; and systemic primary carnitine deficiency disease. Orthologous to human SLC22A5 (solute carrier family 22 member 5). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Broad expression in testis adult (RPKM 14.7), kidney adult (RPKM 7.9) and 20 other tissues See more
NEW: Try the new Gene table
Try the new Transcript table

Genomic context

Location:: 11 B1.3; 11 32.05 cM

Exon count:: 12

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	11	NC_000077.7 (53840780..53871159, complement)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	11	NC_000077.6 (53949954..53980333, complement)

Chromosome 11 - NC_000077.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help

See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

Go to the top of the page Help

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

There was a significant upregulation of mOctn1 and mOctn2 mRNA by qRT-PCR in mdx quadriceps and of mOctn2 and mOctn3 mRNA in mdx heart
Title: Expression of the organic cation/carnitine transporter family (Octn1,-2 and-3) in mdx muscle and heart: Implications for early carnitine therapy in Duchenne muscular dystrophy to improve cellular carnitine homeostasis.
This is the first report showing a functional apical OCTN2 in the renal medulla and a functional apical OCTN3 in both renal cortex and medulla.
Title: Expression of OCTN2 and OCTN3 in the apical membrane of rat renal cortex and medulla.
Octn1, -2, and -3 are expressed in many regions of murine heart
Title: Organic cation/carnitine transporter family expression patterns in adult murine heart.
shows that transcriptional upregulation of OCTN2 and OCTN3 in tissues and of enzymes involved in hepatic carnitine biosynthesis are mediated by PPAR alpha
Title: PPAR alpha mediates transcriptional upregulation of novel organic cation transporters-2 and -3 and enzymes involved in hepatic carnitine synthesis.
PPARalpha up-regulates the expression of Slc22a21 in small intestine.
Title: PPARalpha agonists positively and negatively regulate the expression of several nutrient/drug transporters in mouse small intestine.
Results demonstrate that mammalian small intestine expresses OCTN3 mRNA along the villus and that OCTN3 protein is located in the basolateral membrane.
Title: OCTN3: A Na+-independent L-carnitine transporter in enterocytes basolateral membrane.
demonstration of expression and colocalization of Octn3 and catalase in liver peroxisomes
Title: OCTN3 is a mammalian peroxisomal membrane carnitine transporter.

Submit: New GeneRIF Correction

Variation

Go to the top of the page Help

Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Endonuclease-mediated (2)
Targeted (1)

Interactions

Go to the top of the page Help

Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

Go to the top of the page Help

Markers

Slc22a21 (e-PCR), detects polymorphism
- UniSTS:463376

NoName (e-PCR)
- UniSTS:236576

Slc22a9 (e-PCR), detects polymorphism
- UniSTS:209593

NoName (e-PCR)
- UniSTS:547023

Slc22a21 (e-PCR), detects polymorphism
- UniSTS:547023

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables (R)-carnitine transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables PDZ domain binding	ISO Inferred from Sequence Orthology more info
enables amino-acid betaine transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables carnitine transmembrane transporter activity	IDA Inferred from Direct Assay more info	PubMed
enables carnitine transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables quaternary ammonium group transmembrane transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables quaternary ammonium group transmembrane transporter activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in (R)-carnitine transmembrane transport	ISO Inferred from Sequence Orthology more info
involved_in (R)-carnitine transport	ISO Inferred from Sequence Orthology more info
involved_in carnitine transmembrane transport	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within carnitine transport	IDA Inferred from Direct Assay more info	PubMed
involved_in carnitine transport	ISO Inferred from Sequence Orthology more info
involved_in monoatomic ion transport	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of intestinal epithelial structure maintenance	ISO Inferred from Sequence Orthology more info
involved_in quaternary ammonium group transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in quaternary ammonium group transport	ISO Inferred from Sequence Orthology more info
involved_in response to symbiotic bacterium	ISO Inferred from Sequence Orthology more info
involved_in response to tumor necrosis factor	ISO Inferred from Sequence Orthology more info
involved_in response to type II interferon	ISO Inferred from Sequence Orthology more info
involved_in sodium-dependent organic cation transport	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in apical plasma membrane	ISO Inferred from Sequence Orthology more info
located_in basal plasma membrane	ISO Inferred from Sequence Orthology more info
located_in basolateral plasma membrane	ISO Inferred from Sequence Orthology more info
located_in brush border membrane	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in peroxisomal membrane	IDA Inferred from Direct Assay more info	PubMed
located_in peroxisome	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

Go to the top of the page Help

Preferred Names: solute carrier family 22 member 21

Names: organic cation/carnitine transporter 3; solute carrier family 22 (organic cation transporter), member 9

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_001362202.1 → NP_001349131.1 solute carrier family 22 member 21 isoform 2

Status: VALIDATED

Source sequence(s)

AK080177, AL596444

Conserved Domains (1) summary

TIGR00898
Location:1 → 347

2A0119; cation transport protein
NM_019723.3 → NP_062697.1 solute carrier family 22 member 21 isoform 1

See identical proteins and their annotated locations for NP_062697.1

Status: VALIDATED

Source sequence(s)

AL596444

Consensus CDS

CCDS24688.1

UniProtKB/Swiss-Prot

Q5SWV0, Q9WTN6

UniProtKB/TrEMBL

A2RSK7

Related

ENSMUSP00000075814.5, ENSMUST00000076493.11

Conserved Domains (2) summary

cd06174
Location:123 → 513

MFS; The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of ...

TIGR00898
Location:12 → 523

2A0119; cation transport protein

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

NC_000077.7 Reference GRCm39 C57BL/6J

Range

53840780..53871159 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011249156.4 → XP_011247458.1 solute carrier family 22 member 21 isoform X5

See identical proteins and their annotated locations for XP_011247458.1

Conserved Domains (1) summary

TIGR00898
Location:64 → 311

2A0119; cation transport protein
XM_011249155.3 → XP_011247457.1 solute carrier family 22 member 21 isoform X5

See identical proteins and their annotated locations for XP_011247457.1

Conserved Domains (1) summary

TIGR00898
Location:64 → 311

2A0119; cation transport protein
XM_006533808.5 → XP_006533871.1 solute carrier family 22 member 21 isoform X5

See identical proteins and their annotated locations for XP_006533871.1

Conserved Domains (1) summary

TIGR00898
Location:64 → 311

2A0119; cation transport protein
XM_006533809.4 → XP_006533872.1 solute carrier family 22 member 21 isoform X6

Conserved Domains (1) summary

TIGR00898
Location:2 → 303

2A0119; cation transport protein
XM_006533804.4 → XP_006533867.1 solute carrier family 22 member 21 isoform X1

See identical proteins and their annotated locations for XP_006533867.1

Conserved Domains (1) summary

TIGR00898
Location:12 → 487

2A0119; cation transport protein
XM_006533805.4 → XP_006533868.1 solute carrier family 22 member 21 isoform X2

Conserved Domains (1) summary

TIGR00898
Location:12 → 431

2A0119; cation transport protein
XM_030246191.2 → XP_030102051.1 solute carrier family 22 member 21 isoform X3

Conserved Domains (1) summary

TIGR00898
Location:38 → 395

2A0119; cation transport protein
XM_030246192.2 → XP_030102052.1 solute carrier family 22 member 21 isoform X4

Conserved Domains (1) summary

TIGR00898
Location:1 → 347

2A0119; cation transport protein