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Gene: Pex6 (peroxisomal biogenesis factor 6) Rattus norvegicus

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Symbol:

Pex6

Name:

peroxisomal biogenesis factor 6

RGD ID:

621637

Description:

Predicted to enable several functions, including ATP binding activity; ATP hydrolysis activity; and ubiquitin-modified protein reader activity. Involved in peroxisome organization. Located in peroxisomal membrane. Used to study peroxisomal disease. Human ortholog(s) of this gene implicated in Heimler syndrome 2; Peroxisome biogenesis disorder 4B; and peroxisome biogenesis disorder 4A. Orthologous to human PEX6 (peroxisomal biogenesis factor 6); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 4,4'-sulfonyldiphenol; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

LOC100911599; Paf-2; Paf2; peroxin-6; peroxisomal ATPase PEX6; peroxisomal-type ATPase 1; peroxisome assembly factor 2; peroxisome assembly factor 2-like

RGD Orthologs

Alliance Orthologs

More Info

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More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	PEX6 (peroxisomal biogenesis factor 6)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Pex6 (peroxisomal biogenesis factor 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Pex6 (peroxisomal biogenesis factor 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	PEX6 (peroxisomal biogenesis factor 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	PEX6 (peroxisomal biogenesis factor 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Pex6 (peroxisomal biogenesis factor 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	PEX6 (peroxisomal biogenesis factor 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	PEX6 (peroxisomal biogenesis factor 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Pex6 (peroxisomal biogenesis factor 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Pex6 (peroxisomal biogenesis factor 6)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	MRPL49 (mitochondrial ribosomal protein L49)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	PEX6 (peroxisomal biogenesis factor 6)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Pex6 (peroxisomal biogenesis factor 6)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	pex6 (peroxisomal biogenesis factor 6)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	PEX6	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Pex6	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Pex6	Alliance	DIOPT (Ensembl Compara\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	prx-6	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|OrthoFinder\|PANTHER\|PhylomeDB)
Caenorhabditis elegans (roundworm):	prx-6	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|PANTHER\|PhylomeDB)
Xenopus tropicalis (tropical clawed frog):	pex6	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	9	21,755,747 - 21,767,939 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	9	21,755,751 - 21,767,908 (-)	Ensembl				GRCr8
mRatBN7.2	9	14,258,145 - 14,270,335 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	9	14,258,145 - 14,270,303 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	9	22,840,891 - 22,853,018 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	9	27,905,073 - 27,917,291 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	9	26,204,265 - 26,216,392 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd	9	25,606,496 - 25,618,714 (-)	NCBI		Dahl_SR_JrHsd
Lyon_Normotensive	9	21,384,468 - 21,396,686 (-)	NCBI		Lyon_Normotensive
Lyon_Hypertensive	9	21,474,223 - 21,486,441 (-)	NCBI		Lyon_Hypertensive
F344_StmMcwi	9	23,421,947 - 23,434,103 (-)	NCBI		F344_StmMcwi
Rnor_6.0	9	16,568,743 - 16,580,900 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	9	16,566,688 - 16,581,078 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	9	15,475,358 - 15,487,515 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	9	10,130,561 - 10,139,807 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	9	12,006,590 - 12,018,743 (-)	NCBI		Celera
RGSC_v3.1	9	10,127,882 - 10,137,129 (-)	NCBI
Cytogenetic Map	9	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Brown-Vialetto-Van Laere syndrome 2 (ISO)

cerebellar ataxia (ISO)

Cognitive Dysfunction (ISO)

Desbuquois dysplasia (ISO)

dystonia (ISO)

fundus dystrophy (ISO)

genetic disease (ISO)

Heimler syndrome 1 (ISO)

Heimler syndrome 2 (ISO)

infantile Refsum disease (ISO)

intellectual disability (ISO)

leukodystrophy (ISO)

neuropathy (ISO)

nuclear type mitochondrial complex I deficiency 20 (ISO)

peroxisomal biogenesis disorder (ISO)

peroxisomal disease (IMP)

peroxisome biogenesis disorder 1A (ISO)

peroxisome biogenesis disorder 4A (ISO)

Peroxisome biogenesis disorder 4B (ISO)

premature menopause (ISO)

primary ovarian insufficiency (ISO)

retinitis pigmentosa 1 (ISO)

sensorineural hearing loss (ISO)

Zellweger Leukodystrophy (ISO)

Zellweger syndrome (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(1->4)-beta-D-glucan (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

3,3',4,4'-tetrachlorobiphenyl (ISO)

4,4'-sulfonyldiphenol (EXP,ISO)

6-propyl-2-thiouracil (EXP)

allethrin (EXP)

ammonium chloride (EXP)

Ampullosporin (EXP)

aristolochic acid A (ISO)

arsenite(3-) (ISO)

benzo[a]pyrene (ISO)

benzo[a]pyrene diol epoxide I (ISO)

bisphenol A (EXP,ISO)

bisphenol F (EXP)

C60 fullerene (EXP)

carbon nanotube (ISO)

CGP 52608 (ISO)

chlorpyrifos (ISO)

clofibrate (ISO)

cyclosporin A (ISO)

cyhalothrin (EXP)

cypermethrin (EXP)

Dibutyl phosphate (ISO)

endosulfan (EXP)

ethanol (ISO)

fenthion (ISO)

fenvalerate (EXP)

flavonoids (EXP)

folic acid (ISO)

furan (EXP)

gentamycin (EXP)

hydrazine (EXP)

hypochlorous acid (ISO)

ketamine (EXP)

lead diacetate (ISO)

lead(0) (ISO)

methamphetamine (ISO)

methidathion (ISO)

nickel atom (ISO)

nitrates (ISO)

okadaic acid (ISO)

paracetamol (EXP,ISO)

perfluorooctane-1-sulfonic acid (ISO)

pirinixic acid (EXP,ISO)

propiconazole (ISO)

pyrethrins (EXP)

quercetin (ISO)

sodium arsenate (ISO)

sodium arsenite (ISO)

temozolomide (ISO)

tetrachloromethane (EXP)

thimerosal (ISO)

thioacetamide (EXP)

titanium dioxide (ISO)

troglitazone (ISO)

valproic acid (ISO)

vinclozolin (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

peroxisome organization (IEA,IMP,ISO)

protein import into peroxisome matrix (IBA)

protein import into peroxisome matrix, receptor recycling (IEA,ISO,ISS)

protein import into peroxisome matrix, translocation (IEA,ISO)

protein stabilization (IEA,ISO)

protein targeting to peroxisome (IEA,ISO)

protein unfolding (IBA,IEA,ISO,ISS)

Cellular Component

cytoplasm (IEA,ISO)

cytosol (IBA,IEA,ISO)

peroxisomal membrane (IBA,IDA,IEA,ISO)

peroxisome (IEA,ISO)

photoreceptor cell cilium (IEA,ISO,ISS)

photoreceptor outer segment (IEA)

Molecular Function

ATP binding (IEA,ISO)

ATP hydrolysis activity (IBA,IEA,ISO)

hydrolase activity (IEA)

nucleotide binding (IEA)

protein binding (ISO)

protein transporter activity (IEA,ISO,ISS)

protein-containing complex binding (IEA,ISO)

ubiquitin-modified protein reader activity (IEA,ISO,ISS)

References

References - curated

#	Reference Title	Reference Citation
1.	Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
3.	Proteomic analysis of rat liver peroxisome: presence of peroxisome-specific isozyme of Lon protease.	Kikuchi M, etal., J Biol Chem. 2004 Jan 2;279(1):421-8. Epub 2003 Oct 15.
4.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
5.	Electronic Transfer of LocusLink and RefSeq Data	NCBI rat LocusLink and RefSeq merged data July 26, 2002
6.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
7.	GOA pipeline	RGD automated data pipeline
8.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
10.	Peroxisome assembly factor-2, a putative ATPase cloned by functional complementation on a peroxisome-deficient mammalian cell mutant.	Tsukamoto T, etal., Nat Genet 1995 Dec;11(4):395-401.
11.	The peroxisome biogenesis disorder group 4 gene, PXAAA1, encodes a cytoplasmic ATPase required for stability of the PTS1 receptor.	Yahraus T, etal., EMBO J 1996 Jun 17;15(12):2914-23.

Additional References at PubMed

PMID:8940266	PMID:11439091	PMID:16854980	PMID:21980954	PMID:26593283

Genomics

Comparative Map Data

Pex6
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	9	21,755,747 - 21,767,939 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	9	21,755,751 - 21,767,908 (-)	Ensembl				GRCr8
mRatBN7.2	9	14,258,145 - 14,270,335 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	9	14,258,145 - 14,270,303 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	9	22,840,891 - 22,853,018 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	9	27,905,073 - 27,917,291 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	9	26,204,265 - 26,216,392 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Dahl_SR_JrHsd	9	25,606,496 - 25,618,714 (-)	NCBI		Dahl_SR_JrHsd
Lyon_Normotensive	9	21,384,468 - 21,396,686 (-)	NCBI		Lyon_Normotensive
Lyon_Hypertensive	9	21,474,223 - 21,486,441 (-)	NCBI		Lyon_Hypertensive
F344_StmMcwi	9	23,421,947 - 23,434,103 (-)	NCBI		F344_StmMcwi
Rnor_6.0	9	16,568,743 - 16,580,900 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	9	16,566,688 - 16,581,078 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	9	15,475,358 - 15,487,515 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	9	10,130,561 - 10,139,807 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	9	12,006,590 - 12,018,743 (-)	NCBI		Celera
RGSC_v3.1	9	10,127,882 - 10,137,129 (-)	NCBI
Cytogenetic Map	9	q12	NCBI

PEX6
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	6	42,963,865 - 42,979,181 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	6	42,959,717 - 42,979,243 (-)	Ensembl			hg38	GRCh38
GRCh37	6	42,931,603 - 42,946,919 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	6	43,039,724 - 43,054,866 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	6	43,039,724 - 43,054,866	NCBI
Celera	6	44,483,862 - 44,499,224 (-)	NCBI		Celera
Cytogenetic Map	6	p21.1	NCBI
HuRef	6	42,648,904 - 42,664,268 (-)	NCBI		HuRef
CHM1_1	6	42,934,088 - 42,949,459 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	6	42,793,003 - 42,808,304 (-)	NCBI		T2T-CHM13v2.0

Pex6
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	17	47,022,402 - 47,036,469 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	17	47,022,389 - 47,036,467 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	17	46,711,476 - 46,725,543 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	17	46,711,463 - 46,725,541 (+)	Ensembl			mm10	GRCm38
MGSCv37	17	46,848,412 - 46,862,490 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	17	46,174,654 - 46,188,732 (+)	NCBI		MGSCv36	mm8
Celera	17	50,147,145 - 50,161,227 (+)	NCBI		Celera
Cytogenetic Map	17	C	NCBI
cM Map	17	22.9	NCBI

Pex6
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955437	8,947,002 - 8,960,371 (-)	Ensembl
ChiLan1.0	NW_004955437	8,945,842 - 8,964,870 (-)	NCBI	ChiLan1.0	ChiLan1.0

PEX6
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	5	57,462,366 - 57,479,149 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	6	53,332,570 - 53,354,666 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	6	42,554,509 - 42,570,701 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	6	43,849,802 - 43,865,618 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	6	43,850,129 - 43,865,355 (-)	Ensembl			panPan2	panpan1.1

PEX6
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	12	11,503,184 - 11,514,977 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	12	11,503,240 - 11,514,929 (-)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	12	11,530,201 - 11,541,972 (-)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	12	11,984,383 - 11,996,155 (-)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	12	11,984,400 - 11,996,144 (-)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	12	11,512,805 - 11,524,577 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	12	11,597,069 - 11,608,845 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	12	11,691,136 - 11,702,909 (-)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Pex6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404946	46,996,551 - 47,011,135 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936476	16,949,028 - 16,964,040 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936476	16,948,137 - 16,963,601 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PEX6
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	7	38,039,862 - 38,052,369 (-)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	7	38,039,852 - 38,052,384 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	7	43,488,218 - 43,500,754 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PEX6
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	17	29,180,427 - 29,198,747 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	17	29,180,460 - 29,200,398 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666044	43,010,475 - 43,039,028 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Pex6
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624754	16,510,795 - 16,527,859 (+)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624754	16,510,980 - 16,534,695 (+)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Pex6
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	4	83,141,804 - 83,153,684 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Pex6
169 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	56
Count of miRNA genes:	50
Interacting mature miRNAs:	54
Transcripts:	ENSRNOT00000022582
Prediction methods:	Miranda, Rnahybrid, Targetscan
Result types:	miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

QTLs in Region (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
2303170	Bp332	Blood pressure QTL 332	3.73	0.027	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	9	6714888	84474983	Rat
631211	Bw4	Body weight QTL4	5.31		retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	9	5346479	50346479	Rat
2303559	Gluco54	Glucose level QTL 54	2		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	9	8750492	53750492	Rat
7207814	Bmd91	Bone mineral density QTL 91	3.5		femur size trait (VT:1000369)	femoral neck cross-sectional area (CMO:0001697)	9	1	31250552	Rat
9589055	Scfw5	Subcutaneous fat weight QTL 5	5.55	0.001	subcutaneous adipose mass (VT:1000472)	abdominal subcutaneous fat pad weight (CMO:0002069)	9	496645	45496645	Rat
1641911	Alcrsp13	Alcohol response QTL 13			response to alcohol trait (VT:0010489)	brain neurotensin receptor 1 density (CMO:0002068)	9	6214995	51214995	Rat
1354650	Despr5	Despair related QTL 5	4.01	0.0017	locomotor behavior trait (VT:0001392)	amount of time spent in voluntary immobility (CMO:0001043)	9	8750492	53750492	Rat
1300124	Cm4	Cardiac mass QTL 4	3.55		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	9	1	41763315	Rat
61425	Cia15	Collagen induced arthritis QTL 15	4.6		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	9	5346479	50416711	Rat
631643	Bp120	Blood pressure QTL 120	3	0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	9	6714888	29567695	Rat
9589158	Gluco65	Glucose level QTL 65	6.82	0.001	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	9	496645	45496645	Rat
1600365	Mcs20	Mammary carcinoma susceptibility QTL 20	3		mammary gland integrity trait (VT:0010552)	mammary tumor growth rate (CMO:0000344)	9	21031430	49025574	Rat
7411592	Foco8	Food consumption QTL 8	7.4	0.001	eating behavior trait (VT:0001431)	feed conversion ratio (CMO:0001312)	9	496645	45496645	Rat
1298088	Edpm11	Estrogen-dependent pituitary mass QTL 11	2.5		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	9	6214995	51214995	Rat

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	161	91	90	59	92	59	6	356	192	11	140	81	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_057125	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063266580	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005488842	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH473987	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	D63673	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	D89660	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ210748	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000009	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000022582 ⟹ ENSRNOP00000022582

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	9	21,755,751 - 21,767,908 (-)	Ensembl
mRatBN7.2 Ensembl	9	14,258,145 - 14,270,303 (-)	Ensembl
Rnor_6.0 Ensembl	9	16,566,688 - 16,581,078 (-)	Ensembl

RefSeq Acc Id:

NM_057125 ⟹ NP_476466

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	21,755,751 - 21,767,908 (-)	NCBI
mRatBN7.2	9	14,258,145 - 14,270,303 (-)	NCBI
Dahl_SR_JrHsd	9	25,606,496 - 25,618,714 (-)	NCBI
Lyon_Normotensive	9	21,384,468 - 21,396,686 (-)	NCBI
Lyon_Hypertensive	9	21,474,223 - 21,486,441 (-)	NCBI
F344_StmMcwi	9	23,421,947 - 23,434,103 (-)	NCBI
Rnor_6.0	9	16,568,743 - 16,580,900 (-)	NCBI
Rnor_5.0	9	15,475,358 - 15,487,515 (-)	NCBI
RGSC_v3.4	9	10,130,561 - 10,139,807 (-)	RGD
Celera	9	12,006,590 - 12,018,743 (-)	RGD

Sequence:

show sequence

CGGCTCCAGTCTCCCTCGCCATGGCGCTTGCTGTATTGCATGTCCTAGAACCCTTCCCGACTGA
GACACCACCGTTGGCGGTGCTGTTGCCGCCCGGGGGCCCGTGGCCAGTGACCGGGGTAGGCCTG
GTGCTGGCGCTACGGCCGGCGAGCGAAAGTCCTGCGGGACCCGCGCTGCTCGTGGCGGCCGTGG
AAGGGTCCGGCGCCCAATGCGAGCAGCGAGGGCCCGGGCCTCCGCCGCTGCTGGTGAGCCGCAC
GCTGCTGCGGGTCCTAGCGCTGAGCCCCGGAGCGAGAGTGCGAGCGCGGCCTGTGCGGCGGCCT
CCAGCCTTGGGCTGGGCGCTGCTTGGCACGTCTCCGGGTCCTGGGCTTGGGCCTCGAGTCGGGC
CGCTGCTGGTGCGTCGCGGGGAGACACTACCGGTGCCCGGTTCTCGAGTGTTGGAGACGCGACC
GGCCTTGCAAGGGTTGCTGGGCCCGGGGACACGGCTAGCTGTAACTGAGCTCCAGGGGCGGACC
AAACTGGACCCGGAGAGTAGGGACCACAACCATCCCCCACCCCCGCCCGTAGTTTCCTCCTTTG
CAGTTTCCCACTCAATCCGGCAGCTCCGAGGAGTTCTGGGAGGGACTGGAGATGCACTAGGTGT
GAGCCGGAGCTGTCTCCGGAGTCTCGGGCTCTTCCAGGGCGAATGGGTATGGGTGGCCCGAGTC
GGAGAGTTACCAAACACCTCCCAGCCGCACTTGGCTCAAGTACAGGTTCTAGAGCCTCGCTGGG
ACCTGTCCGCGAGACTGGGACCCAACTCTGGGCAGCCGGGAGAGCCACTCGCGGACGGACTGGT
GTTTGTGCCTGCCACTCTAGCTTTTAATCTCGGCTGTGACCCCCTGGAAGTGGGAGAGCTCAGA
ATTCAGAGGTATCTGGAAGACTCTACTGCTGCTGAGGACAAAGGAAGCTGCTCACTACTGCCTG
GGCCTCCGTTTGCTCGAGAGTTACACATCGAAGTTCTGCCCTCGCCTCACTGTGGTGTCAATGG
GAAATATGACCATGTTCTCTACCAGCACTTCCACACGCCCAGGGTGGTCCAGGAAGGGGATGTT
CTGTGTGTGTCAACGGCTGGGCAAGTTGAGATCCTGGAAGGAAGCCTGGAGAGACTGCCCAGGT
GGCGGGAGGTGTTTTTCAAAGTGAAGAAAACGGTTGGAGAAGCCCCAGATGGGCCAGCCAGTGC
CTTCCTGGCCGATACCACACACACCTCTTTATACCTGGCTGGTACCACCCTGAGTCGTGTCCCC
CCGCTGCCTTCAGGAAGGTCCCCACCCTGGGACAGCTTGTCTCCTCCAGGCCTGGAGGCCTTGG
TAAATGAGCTGTGTGCTGTCCTGAAGCCTCATCTGCAGCCCGGAGGAACACTGCTCACAGGAAC
CAGCTGTGTGCTCCTGCAGGGTCCCCCAGGCAGCGGGAAGACCACCGCGGTCACAGCTGCATGC
AGTCGCCTCGGGCTCCATCTGCTGAAGGTGCCTTGCTCCAGCCTCTGTGCAGATAGCAGTAGGA
CTGTGGAGACAAAGCTGCAGACCACCTTCTCCCGGGCCCGCCGCTGCAGGCCTGTGGTCCTCCT
GCTGACAGCCCTGGACCTTCTGGGCCGGGACCGAGATGGGCTGGGTGAGGATGCCCGCGTTGTG
GCCACACTGCGTCACCTCCTCCTCGATGAGGACCCTCTGAGCAGGTGCCCTCCTCTCATGGTGG
TGGCCACTACAAGCCGTGTCCAGGACCTGCCCACCGATGTGCGGACGGCATTTCCTCATGAGCT
GGAGGTGCCAGTGTTGTCTGAGAGTCAGCGGCTCAGTGTCCTGCAGGCCCTCACTGCCCATCTT
CCCTTGGGCCAGGAGGTTAACCTGTCACAGCTGGCACGGCGCTGTGCGGGCTTTGTGGTAGGGG
ACCTCTATGCCCTTCTGACCCATGCCAGCCGGGCAGCCTGCACCAGGATCAAAGCTGCAGGCTT
GGCGATGAGTGAGGAGGATGAGGGGGAGCTGTGTGCCGCTGGCTTTCCCCTGTTGGCCGAGGAC
TTCGGGCAGGCGTTAGATCAACTACAAACGGCTCACTCCCAAGCAGTAGGAGCGCCCAAGATCC
CTTCAGTGTCCTGGCACGATGTGGGTGGGCTGCAGGATGTGAAGAAGGAGATCCTGGAGACCAT
CCAACTGCCTCTGGAACACCCTGAGCTGCTAAGCCTGGGCCTAAGACGATCAGGCCTTCTGCTC
CATGGGCCCCCAGGCACTGGCAAGACCCTGCTGGCCAAGGCGGTAGCCACTGAGTGCAGCCTCA
CCTTTCTCAGTGTAAAGGGGCCAGAACTCATCAACATGTATGTGGGCCAAAGTGAGGAGAATGT
TCGGGAAGTGTTTGCCAGGGCCAGGGCTGCTGCCCCGTGCATCATCTTCTTTGATGAACTGGAC
TCCTTAGCTCCGAGCCGTGGACGGAGTGGAGACTCTGGAGGTGTGATGGACAGAGTTGTGTCTC
AGCTCTTAGCTGAGCTGGACGGGCTTCACAGCACTCAGGATGTGTTTGTGATCGGAGCCACCAA
CAGACCAGACCTCCTGGATCCTGCCCTTCTGCGGCCTGGCAGATTTGACAAGCTGGTGTTTGTA
GGAGCAAGTGAGGACCGGGCCTCCCAGCTGCGCGTTCTGAGCGCCATCACACGAAAGTTCAAGC
TGGAGGCCTCTGTGAGCCTGATGAATGTGCTGGATTGCTGCCCGCCTCAGCTGACCGGCGCAGA
CCTCTATTCTCTCTGCTCTGACGCCATGATGACCGCCCTCAAACGCAGGGTCCGAGACCTAGAG
GAAGGGCTGGAGCCTCGGAGCTCAGCACTGTTGCTCACCATGGAGGACCTGTTGCAGGCCGCAG
CCCGGCTGCAGCCCTCAGTCAGCGAGCAGGAGCTGCTGCGATACAAGCGTATCCAACGCAAGTT
TGCTGCCTGCTAGGAGCTTCCTGCCGCCTGCAAAAGCCCACCTGGCTGGAGGTAGCTGCCACCT
GCCACCTGAAGGCTGCCTCCCTCCAGGAGATACCCTGAGATCCCTAGTGGGAGGCCCTTGTGCC
CAGGAGAAGAGGCAGGGCTGGCAGCTTGGGGGCGTGGCAGCCTGGAATGGGCATTGAGGCCCCA
GTTCTCAGACAGAAAATAAAGTCTATACTGCCC

hide sequence

RefSeq Acc Id:

XM_063266580 ⟹ XP_063122650

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	21,755,747 - 21,767,939 (-)	NCBI

RefSeq Acc Id:

XR_005488842

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	9	21,756,543 - 21,767,939 (-)	NCBI
mRatBN7.2	9	14,258,937 - 14,270,335 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_476466	(Get FASTA)	NCBI Sequence Viewer
	XP_063122650	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	BAA09824	(Get FASTA)	NCBI Sequence Viewer
	BAA24931	(Get FASTA)	NCBI Sequence Viewer
	EDM18853	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000022582
	ENSRNOP00000022582.5
GenBank Protein	P54777	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

NP_476466 ⟸ NM_057125

- UniProtKB:

O55097 (UniProtKB/Swiss-Prot), P54777 (UniProtKB/Swiss-Prot), A6JIM9 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MALAVLHVLEPFPTETPPLAVLLPPGGPWPVTGVGLVLALRPASESPAGPALLVAAVEGSGAQC
EQRGPGPPPLLVSRTLLRVLALSPGARVRARPVRRPPALGWALLGTSPGPGLGPRVGPLLVRRG
ETLPVPGSRVLETRPALQGLLGPGTRLAVTELQGRTKLDPESRDHNHPPPPPVVSSFAVSHSIR
QLRGVLGGTGDALGVSRSCLRSLGLFQGEWVWVARVGELPNTSQPHLAQVQVLEPRWDLSARLG
PNSGQPGEPLADGLVFVPATLAFNLGCDPLEVGELRIQRYLEDSTAAEDKGSCSLLPGPPFARE
LHIEVLPSPHCGVNGKYDHVLYQHFHTPRVVQEGDVLCVSTAGQVEILEGSLERLPRWREVFFK
VKKTVGEAPDGPASAFLADTTHTSLYLAGTTLSRVPPLPSGRSPPWDSLSPPGLEALVNELCAV
LKPHLQPGGTLLTGTSCVLLQGPPGSGKTTAVTAACSRLGLHLLKVPCSSLCADSSRTVETKLQ
TTFSRARRCRPVVLLLTALDLLGRDRDGLGEDARVVATLRHLLLDEDPLSRCPPLMVVATTSRV
QDLPTDVRTAFPHELEVPVLSESQRLSVLQALTAHLPLGQEVNLSQLARRCAGFVVGDLYALLT
HASRAACTRIKAAGLAMSEEDEGELCAAGFPLLAEDFGQALDQLQTAHSQAVGAPKIPSVSWHD
VGGLQDVKKEILETIQLPLEHPELLSLGLRRSGLLLHGPPGTGKTLLAKAVATECSLTFLSVKG
PELINMYVGQSEENVREVFARARAAAPCIIFFDELDSLAPSRGRSGDSGGVMDRVVSQLLAELD
GLHSTQDVFVIGATNRPDLLDPALLRPGRFDKLVFVGASEDRASQLRVLSAITRKFKLEASVSL
MNVLDCCPPQLTGADLYSLCSDAMMTALKRRVRDLEEGLEPRSSALLLTMEDLLQAAARLQPSV
SEQELLRYKRIQRKFAAC

hide sequence

Ensembl Acc Id:

ENSRNOP00000022582 ⟸ ENSRNOT00000022582

RefSeq Acc Id:	XP_063122650 ⟸ XM_063266580
- Peptide Label:	isoform X1

Protein Domains

AAA+ ATPase

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-P54777-F1-model_v2	AlphaFold	P54777	1-978	view protein structure

Transcriptome

eQTL		View at Phenogen
WGCNA		View at Phenogen
Tissue/Strain Expression		View at Phenogen

Promoters

RGD ID:

13696507

Promoter ID:

EPDNEW_R7031

Type:

initiation region

Name:

Pex6_1

Description:

peroxisomal biogenesis factor 6

SO ACC ID:

SO:0000170

Source:

EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)

Experiment Methods:

Single-end sequencing.

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	9	16,580,893 - 16,580,953	EPDNEW

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:621637	AgrOrtholog
BioCyc Gene	G2FUF-28241	BioCyc
Ensembl Genes	ENSRNOG00000016655	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000022582	ENTREZGENE
	ENSRNOT00000022582.7	UniProtKB/Swiss-Prot
Gene3D-CATH	1.10.8.60	UniProtKB/Swiss-Prot
	3.40.50.300	UniProtKB/Swiss-Prot
InterPro	AAA+_ATPase	UniProtKB/Swiss-Prot
	AAA_ATPase_domain	UniProtKB/Swiss-Prot
	ATPase_AAA_core	UniProtKB/Swiss-Prot
	ATPase_AAA_CS	UniProtKB/Swiss-Prot
	P-loop_NTPase	UniProtKB/Swiss-Prot
	RecA-like_PEX6_r2	UniProtKB/Swiss-Prot
KEGG Report	rno:117265	UniProtKB/Swiss-Prot
NCBI Gene	117265	ENTREZGENE
PANTHER	AAA-FAMILY ATPASE	UniProtKB/Swiss-Prot
	PEROXISOME ASSEMBLY FACTOR 2	UniProtKB/Swiss-Prot
Pfam	AAA	UniProtKB/Swiss-Prot
	DPBB_PEX6	UniProtKB/Swiss-Prot
	PEX6_vert_N	UniProtKB/Swiss-Prot
PhenoGen	Pex6	PhenoGen
PROSITE	AAA	UniProtKB/Swiss-Prot
RatGTEx	ENSRNOG00000016655	RatGTEx
SMART	AAA	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF52540	UniProtKB/Swiss-Prot
UniProt	A6JIM9	ENTREZGENE, UniProtKB/TrEMBL
	O55097	ENTREZGENE
	P54777	ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary	O55097	UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-03-09	Pex6	peroxisomal biogenesis factor 6	LOC100911599	peroxisome assembly factor 2-like	Data merged from RGD:6492067	737654	PROVISIONAL
2012-07-05	LOC100911599	peroxisome assembly factor 2-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2004-02-26	Pex6	peroxisomal biogenesis factor 6			Symbol and Name status set to approved	625702	APPROVED
2002-08-07	Pex6	peroxisomal biogenesis factor 6			Symbol and Name status set to provisional	70820	PROVISIONAL

RGD Curation Notes

Note Type	Note	Reference
gene_disease	functionally complements fibroblasts from patients with a peroxisomal deficiency (complementation group C)	729462

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

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