Ppox (protoporphyrinogen oxidase)

	Submit Data \| Help \| Video Tutorials \| News \| Publications \| Download \| REST API \| Citing RGD \| Contact
	Search RGD Grant Resources Citing RGD About Us Contact Us Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper Genome Scanner VCMap Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease Find Models new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive Pathways Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
	Advanced Search (OLGA)

Gene: Ppox (protoporphyrinogen oxidase) Rattus norvegicus

Analyze

Symbol:

Ppox

Name:

protoporphyrinogen oxidase

RGD ID:

1310543

Description:

Enables oxygen-dependent protoporphyrinogen oxidase activity. Involved in heme biosynthetic process; protoporphyrinogen IX metabolic process; and response to drug. Located in mitochondrion. Is integral component of mitochondrial inner membrane. Human ortholog(s) of this gene implicated in variegate porphyria. Orthologous to human PPOX (protoporphyrinogen oxidase); PARTICIPATES IN heme biosynthetic pathway; acute intermittent porphyria pathway; erythropoietic porphyria pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 3,3',4,4',5-pentachlorobiphenyl; acetamide.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

LOC289219

RGD Orthologs

Human

Mouse

Chinchilla

Bonobo

Dog

Squirrel

Pig

Green Monkey

Naked Mole-Rat

Alliance Genes

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	PPOX (protoporphyrinogen oxidase)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Ppox (protoporphyrinogen oxidase)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Ppox (protoporphyrinogen oxidase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	PPOX (protoporphyrinogen oxidase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	PPOX (protoporphyrinogen oxidase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ppox (protoporphyrinogen oxidase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	PPOX (protoporphyrinogen oxidase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	PPOX (protoporphyrinogen oxidase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ppox (protoporphyrinogen oxidase)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	PPOX (protoporphyrinogen oxidase)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Ppox (protoporphyrinogen oxidase)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Saccharomyces cerevisiae (baker's yeast):	HEM14	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	Ppox	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)

Latest Assembly:

Rnor_6.0 - RGSC Genome Assembly v6.0

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	13	83,697,661 - 83,701,998 (-)	NCBI	mRatBN7.2
Rnor_6.0 Ensembl	13	89,650,094 - 89,654,244 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	13	89,650,094 - 89,654,998 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	13	94,276,960 - 94,281,296 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	87,170,602 - 87,174,740 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	13	87,359,527 - 87,363,605 (-)	NCBI
Celera	13	83,328,348 - 83,332,483 (-)	NCBI		Celera
Cytogenetic Map	13	q24	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

acute intermittent porphyria (ISO)

Blister (ISO)

Colorectal Neoplasms (ISO)

gastrointestinal stromal tumor (ISO)

Hepatic Porphyrias (ISO)

migraine (ISO)

parathyroid carcinoma (ISO)

variegate porphyria (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,2-dichloroethane (ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

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

2-butoxyethanol (ISO)

3,3',4,4',5-pentachlorobiphenyl (EXP)

acetamide (EXP)

acifluorfen (ISO)

acrylamide (ISO)

antirheumatic drug (ISO)

aristolochic acid (ISO)

atrazine (ISO)

bisphenol A (EXP)

Brodifacoum (EXP)

buspirone (EXP)

cyclosporin A (ISO)

dibutyl phthalate (EXP)

dorsomorphin (ISO)

doxorubicin (ISO)

entinostat (ISO)

flutamide (EXP)

folic acid (ISO)

hexachlorobenzene (EXP)

hypochlorous acid (ISO)

methyl methanesulfonate (ISO)

methylmercury chloride (ISO)

Monobutylphthalate (EXP)

Oxadiazon (ISO)

oxaliplatin (EXP)

Oxyfluorfen (ISO)

panobinostat (ISO)

paracetamol (ISO)

perfluorooctane-1-sulfonic acid (EXP)

phenylmercury acetate (ISO)

pirinixic acid (EXP)

SB 431542 (ISO)

sunitinib (ISO)

tetraphene (ISO)

topotecan (EXP)

triptonide (ISO)

trovafloxacin (EXP)

tunicamycin (ISO)

valproic acid (ISO)

vinclozolin (EXP)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

heme biosynthetic process (IBA,IDA,ISO)

porphyrin-containing compound biosynthetic process (IDA,ISO)

protoporphyrinogen IX biosynthetic process (IEA)

protoporphyrinogen IX metabolic process (IDA)

response to xenobiotic stimulus (IEP)

Cellular Component

integral component of mitochondrial inner membrane (IDA)

intrinsic component of mitochondrial inner membrane (IBA,ISO)

mitochondrial membrane (ISO)

mitochondrion (IDA)

Molecular Function

oxidoreductase activity (IBA)

oxygen-dependent protoporphyrinogen oxidase activity (IBA,IDA,ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

acute intermittent porphyria pathway (ISO)

erythropoietic porphyria pathway (ISO)

heme biosynthetic pathway (IDA,IEA,ISO)

hereditary coproporphyria pathway (ISO)

porphyrin and chlorophyll metabolic pathway (IEA)

porphyrin metabolic pathway (ISO)

variegate porphyria pathway (ISO)

References

References - curated


1.	Abraham NG, etal., Biochim Biophys Acta. 1986 Mar 28;870(2):339-49.
2.	Ajioka RS, etal., Biochim Biophys Acta. 2006 Jul;1763(7):723-36. Epub 2006 Jun 3.
3.	Barupala DP, etal., Arch Biochem Biophys. 2016 Feb 15;592:60-75. doi: 10.1016/j.abb.2016.01.010. Epub 2016 Jan 16.
4.	Deybach JC, etal., Eur J Biochem. 1985 Jun 3;149(2):431-5.
5.	Deybach JC, etal., Hum Mol Genet. 1996 Mar;5(3):407-10.
6.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
7.	GenMAPP
8.	GOA data from the GO Consortium
9.	Hift RJ, etal., S Afr Med J. 1997 Jun;87(6):722-31.
10.	Kolarov J, etal., Biochem Biophys Res Commun. 1983 Oct 31;116(2):383-7.
11.	Krijt J, etal., Can J Physiol Pharmacol. 1997 Oct-Nov;75(10-11):1181-7.
12.	Li F, etal., Biochem J. 1987 May 1;243(3):863-6.
13.	Lindberg RL, etal., Nat Genet. 1996 Feb;12(2):195-9.
14.	Medlock AE, etal., Cell Mol Biol (Noisy-le-grand). 2002 Feb;48(1):71-8.
15.	MGD data from the GO Consortium
16.	OMIM Disease Annotation Pipeline
17.	Pipeline to import KEGG annotations from KEGG into RGD
18.	Pipeline to import SMPDB annotations from SMPDB into RGD
19.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
20.	RGD automated import pipeline for gene-chemical interactions
21.	Whatley SD, etal., Am J Hum Genet. 1999 Oct;65(4):984-94.

Additional References at PubMed

PMID:3346226	PMID:7713909	PMID:14651853	PMID:18614015	PMID:30361391

Genomics

Comparative Map Data

Ppox
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	13	83,697,661 - 83,701,998 (-)	NCBI	mRatBN7.2
Rnor_6.0 Ensembl	13	89,650,094 - 89,654,244 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_6.0	13	89,650,094 - 89,654,998 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_5.0	13	94,276,960 - 94,281,296 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	13	87,170,602 - 87,174,740 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	13	87,359,527 - 87,363,605 (-)	NCBI
Celera	13	83,328,348 - 83,332,483 (-)	NCBI		Celera
Cytogenetic Map	13	q24	NCBI

PPOX
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	1	161,166,056 - 161,178,013 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	1	161,165,824 - 161,178,277 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	1	161,136,216 - 161,141,010 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	1	159,402,818 - 159,407,634 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	1	157,949,266 - 157,954,085	NCBI
Celera	1	134,203,334 - 134,208,163 (+)	NCBI
Cytogenetic Map	1	q23.3	NCBI
HuRef	1	132,493,123 - 132,497,952 (+)	NCBI		HuRef
CHM1_1	1	162,532,431 - 162,537,260 (+)	NCBI		CHM1_1

Ppox
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	1	171,104,564 - 171,108,955 (-)	NCBI	GRCm39		mm39
GRCm39 Ensembl	1	171,103,563 - 171,108,760 (-)	Ensembl
GRCm38	1	171,276,991 - 171,281,193 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	1	171,275,990 - 171,281,186 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	1	173,207,123 - 173,211,317 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	1	173,113,667 - 173,117,835 (-)	NCBI			mm8
Celera	1	173,733,013 - 173,737,208 (-)	NCBI		Celera
Cytogenetic Map	1	H3	NCBI

Ppox
(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_004955468	12,930,495 - 12,934,437 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955468	12,930,387 - 12,934,437 (+)	NCBI	ChiLan1.0	ChiLan1.0

PPOX
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
PanPan1.1	1	140,491,667 - 140,496,506 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	1	140,491,667 - 140,502,328 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	1	136,578,846 - 136,590,466 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

PPOX
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	38	21,306,973 - 21,310,892 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	38	21,306,974 - 21,311,012 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	38	21,381,833 - 21,385,563 (-)	NCBI
ROS_Cfam_1.0	38	21,424,824 - 21,428,556 (-)	NCBI
UMICH_Zoey_3.1	38	21,312,659 - 21,316,388 (-)	NCBI
UNSW_CanFamBas_1.0	38	21,727,092 - 21,730,828 (-)	NCBI
UU_Cfam_GSD_1.0	38	22,136,240 - 22,139,973 (-)	NCBI

Ppox
(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_024405058	7,261,120 - 7,266,047 (+)	NCBI
SpeTri2.0	NW_004936903	470,317 - 474,705 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

PPOX
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	4	89,277,117 - 89,288,902 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	4	89,277,984 - 89,288,946 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	4	97,134,711 - 97,145,648 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

PPOX
(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	20	2,814,571 - 2,819,384 (-)	NCBI
ChlSab1.1 Ensembl	20	2,814,571 - 2,818,936 (-)	Ensembl
Vero_WHO_p1.0	NW_023666038	1,861,663 - 1,867,108 (-)	NCBI

Ppox
(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 1.0	NW_004624794	212,220 - 215,891 (-)	NCBI

Position Markers

W53272

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	83,703,257 - 83,703,366 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	89,655,691 - 89,655,799	NCBI	Rnor6.0
Rnor_5.0	13	94,282,557 - 94,282,665	UniSTS	Rnor5.0
RGSC_v3.4	13	87,176,203 - 87,176,311	UniSTS	RGSC3.4
Celera	13	83,333,945 - 83,334,053	UniSTS
Cytogenetic Map	13	q24	UniSTS

RH129176

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	83,701,048 - 83,701,242 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	89,653,481 - 89,653,674	NCBI	Rnor6.0
Rnor_5.0	13	94,280,347 - 94,280,540	UniSTS	Rnor5.0
RGSC_v3.4	13	87,173,992 - 87,174,185	UniSTS	RGSC3.4
Celera	13	83,331,735 - 83,331,928	UniSTS
RH 3.4 Map	13	561.3	UniSTS
Cytogenetic Map	13	q24	UniSTS

AA859700

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	83,697,746 - 83,698,136 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	89,650,179 - 89,650,568	NCBI	Rnor6.0
Rnor_5.0	13	94,277,045 - 94,277,434	UniSTS	Rnor5.0
RGSC_v3.4	13	87,170,687 - 87,171,076	UniSTS	RGSC3.4
Celera	13	83,328,433 - 83,328,822	UniSTS
RH 3.4 Map	13	552.3	UniSTS
Cytogenetic Map	13	q24	UniSTS

BF405831

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	83,702,405 - 83,702,559 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	89,654,838 - 89,654,991	NCBI	Rnor6.0
Rnor_5.0	13	94,281,704 - 94,281,857	UniSTS	Rnor5.0
RGSC_v3.4	13	87,175,349 - 87,175,502	UniSTS	RGSC3.4
Celera	13	83,333,092 - 83,333,245	UniSTS
RH 3.4 Map	13	568.4	UniSTS
Cytogenetic Map	13	q24	UniSTS

Ppox

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	83,697,781 - 83,698,111 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	89,650,214 - 89,650,543	NCBI	Rnor6.0
Rnor_5.0	13	94,277,080 - 94,277,409	UniSTS	Rnor5.0
RGSC_v3.4	13	87,170,722 - 87,171,051	UniSTS	RGSC3.4
Celera	13	83,328,468 - 83,328,797	UniSTS
Cytogenetic Map	13	q24	UniSTS

G43283

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	13	83,702,692 - 83,702,832 (+)	MAPPER	mRatBN7.2
Rnor_6.0	13	89,655,126 - 89,655,265	NCBI	Rnor6.0
Rnor_5.0	13	94,281,992 - 94,282,131	UniSTS	Rnor5.0
RGSC_v3.4	13	87,175,637 - 87,175,776	UniSTS	RGSC3.4
Celera	13	83,333,380 - 83,333,519	UniSTS
Cytogenetic Map	13	q24	UniSTS

QTLs in Region (Rnor_6.0)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	1	107975663	Rat
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	1	107975663	Rat
1354666	Bp244	Blood pressure QTL 244	4.9		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	1	107975663	Rat
1581570	Eae17	Experimental allergic encephalomyelitis QTL 17	4.1		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis incidence/prevalence measurement (CMO:0001046)	13	12193394	108478121	Rat
7207885	Glom27	Glomerulus QTL 27	3.9		kidney glomerulus integrity trait (VT:0010546)	kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)	13	24502279	108770533	Rat
1354621	Rf47	Renal function QTL 47	3.7		kidney renin amount (VT:0010559)	kidney renin level (CMO:0002166)	13	35301263	107975663	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	absolute change in mean arterial blood pressure (CMO:0000533)	13	36147533	99968921	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	36147533	99968921	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	36147533	99968921	Rat
70181	BpQTLcluster11	Blood pressure QTL cluster 11	6.922		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	13	36147533	99968921	Rat
10755495	Bp387	Blood pressure QTL 387	3.78		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	39501300	93652524	Rat
619615	Bp80	Blood pressure QTL 80		0.0354	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	45676629	90676629	Rat
12879441	Bp396	Blood pressure QTL 396			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	51080989	96080989	Rat
1298066	Bp159	Blood pressure QTL 159		0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	51569248	96569248	Rat
71119	Thym2	Thymus enlargement QTL 2	3.8		thymus mass (VT:0004954)	thymus weight to body weight ratio (CMO:0000612)	13	51577824	90675199	Rat
1641901	Alcrsp6	Alcohol response QTL 6			response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	13	57903612	102903612	Rat
1354655	Bp241	Blood pressure QTL 241	3.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	13	62975663	107975663	Rat
738026	Lnnr5	Liver neoplastic nodule remodeling QTL 5	3.29		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	65008245	91629354	Rat
12879475	Bp400	Blood pressure QTL 400			arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	66971778	111971778	Rat
2293687	Bss26	Bone structure and strength QTL 26	4.6	0.0001	femur morphology trait (VT:0000559)	femur cross-sectional area (CMO:0001661)	13	71230858	114033958	Rat
2293702	Bss34	Bone structure and strength QTL 34	4.61	0.0001	femur strength trait (VT:0010010)	femur midshaft polar moment of inertia (CMO:0001669)	13	71230858	114033958	Rat
7387280	Uae43	Urinary albumin excretion QTL 43	5.69	0.4174	urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	13	72583716	114033958	Rat
1300166	Kidm6	Kidney mass QTL 6	3.93		kidney mass (VT:0002707)	single kidney wet weight to body weight ratio (CMO:0000622)	13	74568378	92916783	Rat
1331783	Bp221	Blood pressure QTL 221	3.72886		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	13	74568378	92916783	Rat
8655945	Rf61	Renal function QTL 61	3.6		blood creatinine amount (VT:0005328)	creatinine clearance (CMO:0000765)	13	74568378	92916783	Rat
10755455	Coatc13	Coat color QTL 13		0	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	7	77694986	114033958	Rat
8655959	Pur32	Proteinuria QTL 32	8.4		total urine protein amount (VT:0000032)	urine total protein excretion rate (CMO:0000756)	13	79567081	103613733	Rat
738027	Lnnr6	Liver neoplastic nodule remodeling QTL 6	3.3		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	13	80403559	91629354	Rat
2293341	Glom15	Glomerulus QTL 15	9.1		kidney glomerulus integrity trait (VT:0010546)	kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)	13	80403559	108770687	Rat
4889606	Gluco63	Glucose level QTL 63	2.86	0.003	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	13	86833393	114033958	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	72
Count of miRNA genes:	68
Interacting mature miRNAs:	70
Transcripts:	ENSRNOT00000004896
Prediction methods:	Microtar, 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.

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	alimentary part of gastrointestinal system	circulatory system	endocrine system	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	appendage
High
Medium	3	28	54	41	17	41			66	35	38	11
Low		15	3		2		8	11	8		3		8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001105968	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006250240	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006250241	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006250243	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090506	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090507	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090508	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_039090509	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC099236	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473985	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ226237	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000245	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000004896 ⟹ ENSRNOP00000004896

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	13	89,650,094 - 89,654,244 (-)	Ensembl

RefSeq Acc Id:

NM_001105968 ⟹ NP_001099438

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	83,697,662 - 83,701,797 (-)	NCBI
Rnor_6.0	13	89,650,094 - 89,654,229 (-)	NCBI
Rnor_5.0	13	94,276,960 - 94,281,296 (-)	NCBI
RGSC_v3.4	13	87,170,602 - 87,174,740 (-)	RGD
Celera	13	83,328,348 - 83,332,483 (-)	RGD

Sequence:

show sequence

GTCGACGGAGAGCCGGAGGGACCGTAAAAGTTAGGGGCGGGGATACCAGAGTTGAACCTAGTCA
CCAGCTGAGGCTGGAAAAACCGAGTGCTGCAGTTCTGGCCTGTGGAGGGCTTGACCTGGCGAGA
TAGCGTGGGCGTGGGCCTTATCTGCACACGGACAGGATGGACTGGTCCTAGGGCCTCTATATCA
CTCACTCGCTTTCTCGGGTTCCCCCTATCTCGTGGGTAGGTCCTGGCCTCTGAACAAAGACTTC
ACTCTTCCACCAGCACGTACACGCGCGTTTTGCATTAGTTGCTCATTAATCAGCCTTACGATGG
CCCGGACTGTGATAGTGCTTGGCGGAGGTATCAGCGGATTGGCCGCAAGTTATCATCTGACCCG
AAGCCCCAGTCCTCCTAAGGTGATCTTAGTGGAGGGCAGCAAACGTTTGGGAGGCTGGATCCGT
TCAGTCCGAGGATCAGATGGTGCGATCTTTGAACTTGGACCTCGAGGAATTAGGCCGGCTGGAG
CCCTGGGAGCCCGGACCCTGCTCCTGGTTTCTGAACTTGGCTTGGAATCCGAAGTCTTGCCTGT
CCGAGGGGATCATCCAGCTGCCCAGAACCGGTTCCTGTATGTAGGCGGTGCCCTGCACCCCCTA
CCCTCTGGCCTCAGGGGGCTACTTCGTCCTTCACCCCCCTTCTCAAAACCTCTATTTTGGGCTG
GACTGAGGGAGTTGACGAAGCCCAGGGGCAAAGAGCCTGATGAGACTGTGCACAGTTTTGCCCA
GCGCCGCCTTGGACCTGAGGTGGCGTCTCTGGCTATGGACAGCCTTTGCAGAGGAGTGTTTGCT
GGCAACAGCCAAGAGCTCAGCATCCGGTCCTGCTTTCCCAGTCTCTTCCAAGCTGAACAAACCC
ACGGGTCCATGTTACTGGGGCTGCTGCTGGGGGCAGGGCAGACTCCACAGCCCAATTCCTCATT
AATTCGTCAGGCCCGCGCTGAGCGATGGAGTCAGTGGTCACTCCGTGGAGGGCTGGAGATGTTG
CCCCAGGCCCTTCATAACTACCTAACAAGTAAAGGGGTCACTATCCTCAGTGGTCAGCCAGCCT
GCGGGCTCAGCCTTCAGCCAGAAGGGCACTGGAAGGTGTCTCTAGGGGACAGCAGTCTGGAGGC
TGACCACATTATAAGCACCATTCCAGCTTCAGTGCTCAGCAAGCTGCTCCCTGCCGAGGCTGCA
CCTCTGGCTCACATCCTGAGTACCATCCAAGCTGTGTCTGTGGCCGTGGTGAATCTGCAGTACA
AAGGAGCTTGTCTGCCTGTGCAGGGATTTGGACATCTGGTGCCATCCTCAGAAGACCCGACCGT
CCTGGGAATCGTGTATGACTCGGTTGCTTTTCCTGAGCAGGATGGGAACCCCCCAGGCCTCAGA
CTGACTGTGATGTTGGGAGGTTACTGGTTACAGAAGCTGAAAGCCAATGGCCATGAATTGTCTC
CAGAGCTATTCCAACGAGCAGCACAGGAAGCGGCTGCCACACAGTTAGGACTGAAAGAGCAACC
AAGCCATTGCTTGGTCCATCTACACAAAAACTGTATCCCTCAGTATACACTAGGCCACTGGCAA
AAACTAGACTCAGCTCTGCAATTCCTGACGGCCCAGAGGTTGCCCCTGACTTTGGCTGGGGCCT
CCTATGAGGGGGTAGCTGTCAATGACTGTATAGAGAGTGGGCGCCAGGCAGCAATTGCTGTCCT
GGGCACAGAATCGAACAGCTGACCCCCACTCTCCTACTCATGAAAGTAAAAGTTGATGGAGCTT
G

hide sequence

RefSeq Acc Id:

XM_006250240 ⟹ XP_006250302

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	83,697,661 - 83,701,998 (-)	NCBI
Rnor_6.0	13	89,650,094 - 89,654,998 (-)	NCBI
Rnor_5.0	13	94,276,960 - 94,281,296 (-)	NCBI

Sequence:

show sequence

TGTTTGTATTTGTGGGTAGAGGGAATGGATATCTAGAACTTTGGTTCTGTTGGAGCCTTTCTGG
GACCCAATTCTGTCTCTGAACAGGTGGGGGCGCTCTCACAACAGAAGGAAAAGAACAGGGATTG
AGCTGGCTCCAGACTTGGACCCAAACACTGACAGTTTAGTGGTACTAGGAAGACAAACCTTGAG
ACCTGTGAAGTTGCGGGAAAGCCTGGAACTAGAGTGCAGGCATTGGCATACCAGGTTTTGCCTG
TGAAGGGGACTGCCCCTAGGGGGCAAAGCACCCAAGAACCCCTGTTGACAAACATGATTTCGTT
GCTGGGCGGCCCTTGCTCCCGTAGGCCCTGTCTGTTGCTAACATCAAGGAGCTGTTTATGGAGC
CTTCTCCCCACGGACTGGCCTCCAAGTGTCTCTCTCTTTCTCCCTAACTAAAGCTCGTGGGGCC
CTCCCAACCTCCAGGGTTCTCACCACAGATCTGGGAAGCTTGAGCAGGGGAATGCTAACTCCCG
GATTCAGCATTTCGCTGTCCTGTCCCTGGGGAAGGCAGTACTGGTTACTGCAACTAAATCCGAC
TAGGGAACGAACAGGTTAACCTGCACAGAACTGACTCTGAAAGCCGCTGTAGTTCCGCTGGTAG
CGTCACTGCCAACATGGTGTTTTCATTGGTGGATGTATCCAGAGCCCACCAATCCAGAACCCGC
TTCCTAGGACCCACCAATCCAGAAGCAGGAAAGTGAAACGGAGCCTTGAGGGCCGCCAGAATGG
AGTCGACGGAGAGCCGGAGGGACCGTAAAAGTTAGGGGCGGGGATACCAGAGTTGAACCTAGTC
ACCAGCTGAGGCTGGAAAAACCGAGTGCTGCAGTTCTGGCCTGTGGAGGGCTTGACCTGGCGAG
ATAGCGTGGGCGTGGGCCTTATCTGCACACGGACAGGATGGACTGGTCCTAGGGCCTCTATATC
ACTCACTCGCTTTCTCGGGTTCCCCCTATCTCGTGGGTAGGTCCTGGCCTCTGAACAAAGACTT
CACTCTTCCACCAGCACGTACACGCGCGTTTTGCATTAGTTGCTCATTAATCAGTAAGTGCCCA
GAGGTGGGGTACGGGACCCGTGGGGTTTCTGCAGTTGTAAAGCAGGGTGCCTCCCGTTCTCCTG
GGGTATCTCGACTTTCCCCCAGGCCTTACGATGGCCCGGACTGTGATAGTGCTTGGCGGAGGTA
TCAGCGGATTGGCCGCAAGTTATCATCTGACCCGAAGCCCCAGTCCTCCTAAGGTGATCTTAGT
GGAGGGCAGCAAACGTTTGGGAGGCTGGATCCGTTCAGTCCGAGGATCAGATGGTGCGATCTTT
GAACTTGGACCTCGAGGAATTAGGCCGGCTGGAGCCCTGGGAGCCCGGACCCTGCTCCTGTTTC
TCCTCTTCCTGAGGGCTTGTGGAGAGCAGGTTTCTGAACTTGGCTTGGAATCCGAAGTCTTGCC
TGTCCGAGGGGATCATCCAGCTGCCCAGAACCGGTTCCTGTATGTAGGCGGTGCCCTGCACCCC
CTACCCTCTGGCCTCAGGGGGCTACTTCGTCCTTCACCCCCCTTCTCAAAACCTCTATTTTGGG
CTGGACTGAGGGAGTTGACGAAGCCCAGGGGCAAAGAGCCTGATGAGACTGTGCACAGTTTTGC
CCAGCGCCGCCTTGGACCTGAGGTGGCGTCTCTGGCTATGGACAGCCTTTGCAGAGGAGTGTTT
GCTGGCAACAGCCAAGAGCTCAGCATCCGGTCCTGCTTTCCCAGTCTCTTCCAAGCTGAACAAA
CCCACGGGTCCATGTTACTGGGGCTGCTGCTGGGGGCAGGGCAGACTCCACAGCCCAATTCCTC
ATTAATTCGTCAGGCCCGCGCTGAGCGATGGAGTCAGTGGTCACTCCGTGGAGGGCTGGAGATG
TTGCCCCAGGCCCTTCATAACTACCTAACAAGTAAAGGGGTCACTATCCTCAGTGGTCAGCCAG
CCTGCGGGCTCAGCCTTCAGCCAGAAGGGCACTGGAAGGTGTCTCTAGGGGACAGCAGTCTGGA
GGCTGACCACATTATAAGCACCATTCCAGCTTCAGTGCTCAGCAAGCTGCTCCCTGCCGAGGCT
GCACCTCTGGCTCACATCCTGAGTACCATCCAAGCTGTGTCTGTGGCCGTGGTGAATCTGCAGT
ACAAAGGAGCTTGTCTGCCTGTGCAGGGATTTGGACATCTGGTGCCATCCTCAGAAGACCCGAC
CGTCCTGGGAATCGTGTATGACTCGGTTGCTTTTCCTGAGCAGGATGGGAACCCCCCAGGCCTC
AGACTGACTGTGATGTTGGGAGGTTACTGGTTACAGAAGCTGAAAGCCAATGGCCATGAATTGT
CTCCAGAGCTATTCCAACGAGCAGCACAGGAAGCGGCTGCCACACAGTTAGGACTGAAAGAGCA
ACCAAGCCATTGCTTGGTCCATCTACACAAAAACTGTATCCCTCAGTATACACTAGGCCACTGG
CAAAAACTAGACTCAGCTCTGCAATTCCTGACGGCCCAGAGGTTGCCCCTGACTTTGGCTGGGG
CCTCCTATGAGGGGGTAGCTGTCAATGACTGTATAGAGAGTGGGCGCCAGGCAGCAATTGCTGT
CCTGGGCACAGAATCGAACAGCTGACCCCCACTCTCCTACTCATGAAAGTAAAAGTTGATGGAG
CTTG

hide sequence

RefSeq Acc Id:

XM_006250241 ⟹ XP_006250303

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	83,697,661 - 83,701,822 (-)	NCBI
Rnor_6.0	13	89,650,094 - 89,654,262 (-)	NCBI
Rnor_5.0	13	94,276,960 - 94,281,296 (-)	NCBI

Sequence:

show sequence

GTGAAACGGAGCCTTGAGGGCCGCCAGAATGGAGTCGACGGAGAGCCGGAGGGACCGTAAAAGT
TAGGGGCGGGGATACCAGAGTTGAACCTAGTCACCAGCTGAGGCTGGAAAAACCGAGTGCTGCA
GTTCTGGCCTGTGGAGGGCTTGACCTGGCGAGATAGCGTGGGCGTGGGCCTTATCTGCACACGG
ACAGGATGGACTGGTCCTAGGGCCTCTATATCACTCACTCGCTTTCTCGGGTTCCCCCTATCTC
GTGGGTAGGTCCTGGCCTCTGAACAAAGACTTCACTCTTCCACCAGCACGTACACGCGCGTTTT
GCATTAGTTGCTCATTAATCAGCCTTACGATGGCCCGGACTGTGATAGTGCTTGGCGGAGGTAT
CAGCGGATTGGCCGCAAGTTATCATCTGACCCGAAGCCCCAGTCCTCCTAAGGTGATCTTAGTG
GAGGGCAGCAAACGTTTGGGAGGCTGGATCCGTTCAGTCCGAGGATCAGATGGTGCGATCTTTG
AACTTGGACCTCGAGGAATTAGGCCGGCTGGAGCCCTGGGAGCCCGGACCCTGCTCCTGTTTCT
CCTCTTCCTGAGGGCTTGTGGAGAGCAGGTTTCTGAACTTGGCTTGGAATCCGAAGTCTTGCCT
GTCCGAGGGGATCATCCAGCTGCCCAGAACCGGTTCCTGTATGTAGGCGGTGCCCTGCACCCCC
TACCCTCTGGCCTCAGGGGGCTACTTCGTCCTTCACCCCCCTTCTCAAAACCTCTATTTTGGGC
TGGACTGAGGGAGTTGACGAAGCCCAGGGGCAAAGAGCCTGATGAGACTGTGCACAGTTTTGCC
CAGCGCCGCCTTGGACCTGAGGTGGCGTCTCTGGCTATGGACAGCCTTTGCAGAGGAGTGTTTG
CTGGCAACAGCCAAGAGCTCAGCATCCGGTCCTGCTTTCCCAGTCTCTTCCAAGCTGAACAAAC
CCACGGGTCCATGTTACTGGGGCTGCTGCTGGGGGCAGGGCAGACTCCACAGCCCAATTCCTCA
TTAATTCGTCAGGCCCGCGCTGAGCGATGGAGTCAGTGGTCACTCCGTGGAGGGCTGGAGATGT
TGCCCCAGGCCCTTCATAACTACCTAACAAGTAAAGGGGTCACTATCCTCAGTGGTCAGCCAGC
CTGCGGGCTCAGCCTTCAGCCAGAAGGGCACTGGAAGGTGTCTCTAGGGGACAGCAGTCTGGAG
GCTGACCACATTATAAGCACCATTCCAGCTTCAGTGCTCAGCAAGCTGCTCCCTGCCGAGGCTG
CACCTCTGGCTCACATCCTGAGTACCATCCAAGCTGTGTCTGTGGCCGTGGTGAATCTGCAGTA
CAAAGGAGCTTGTCTGCCTGTGCAGGGATTTGGACATCTGGTGCCATCCTCAGAAGACCCGACC
GTCCTGGGAATCGTGTATGACTCGGTTGCTTTTCCTGAGCAGGATGGGAACCCCCCAGGCCTCA
GACTGACTGTGATGTTGGGAGGTTACTGGTTACAGAAGCTGAAAGCCAATGGCCATGAATTGTC
TCCAGAGCTATTCCAACGAGCAGCACAGGAAGCGGCTGCCACACAGTTAGGACTGAAAGAGCAA
CCAAGCCATTGCTTGGTCCATCTACACAAAAACTGTATCCCTCAGTATACACTAGGCCACTGGC
AAAAACTAGACTCAGCTCTGCAATTCCTGACGGCCCAGAGGTTGCCCCTGACTTTGGCTGGGGC
CTCCTATGAGGGGGTAGCTGTCAATGACTGTATAGAGAGTGGGCGCCAGGCAGCAATTGCTGTC
CTGGGCACAGAATCGAACAGCTGACCCCCACTCTCCTACTCATGAAAGTAAAAGTTGATGGAGC
TTG

hide sequence

RefSeq Acc Id:

XM_006250243 ⟹ XP_006250305

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	83,697,661 - 83,701,392 (-)	NCBI
Rnor_6.0	13	89,650,094 - 89,653,824 (-)	NCBI
Rnor_5.0	13	94,276,960 - 94,281,296 (-)	NCBI

Sequence:

show sequence

GCCTTACGATGGCCCGGACTGTGATAGTGCTTGGCGGAGGTATCAGCGGATTGGCCGCAAGTTA
TCATCTGACCCGAAGCCCCAGTCCTCCTAAGGTGATCTTAGTGGAGGGCAGCAAACGTTTGGGA
GGCTGGATCCGTTCAGTCCGAGGATCAGATGGTGCGATCTTTGAACTTGGACCTCGAGGAATTA
GGCCGGCTGGAGCCCTGGGAGCCCGGACCCTGCTCCTGGGCTTGTGGAGAGCAGGTTTCTGAAC
TTGGCTTGGAATCCGAAGTCTTGCCTGTCCGAGGGGATCATCCAGCTGCCCAGAACCGGTTCCT
GTATGTAGGCGGTGCCCTGCACCCCCTACCCTCTGGCCTCAGGGGGCTACTTCGTCCTTCACCC
CCCTTCTCAAAACCTCTATTTTGGGCTGGACTGAGGGAGTTGACGAAGCCCAGGGGCAAAGAGC
CTGATGAGACTGTGCACAGTTTTGCCCAGCGCCGCCTTGGACCTGAGGTGGCGTCTCTGGCTAT
GGACAGCCTTTGCAGAGGAGTGTTTGCTGGCAACAGCCAAGAGCTCAGCATCCGGTCCTGCTTT
CCCAGTCTCTTCCAAGCTGAACAAACCCACGGGTCCATGTTACTGGGGCTGCTGCTGGGGGCAG
GGCAGACTCCACAGCCCAATTCCTCATTAATTCGTCAGGCCCGCGCTGAGCGATGGAGTCAGTG
GTCACTCCGTGGAGGGCTGGAGATGTTGCCCCAGGCCCTTCATAACTACCTAACAAGTAAAGGG
GTCACTATCCTCAGTGGTCAGCCAGCCTGCGGGCTCAGCCTTCAGCCAGAAGGGCACTGGAAGG
TGTCTCTAGGGGACAGCAGTCTGGAGGCTGACCACATTATAAGCACCATTCCAGCTTCAGTGCT
CAGCAAGCTGCTCCCTGCCGAGGCTGCACCTCTGGCTCACATCCTGAGTACCATCCAAGCTGTG
TCTGTGGCCGTGGTGAATCTGCAGTACAAAGGAGCTTGTCTGCCTGTGCAGGGATTTGGACATC
TGGTGCCATCCTCAGAAGACCCGACCGTCCTGGGAATCGTGTATGACTCGGTTGCTTTTCCTGA
GCAGGATGGGAACCCCCCAGGCCTCAGACTGACTGTGATGTTGGGAGGTTACTGGTTACAGAAG
CTGAAAGCCAATGGCCATGAATTGTCTCCAGAGCTATTCCAACGAGCAGCACAGGAAGCGGCTG
CCACACAGTTAGGACTGAAAGAGCAACCAAGCCATTGCTTGGTCCATCTACACAAAAACTGTAT
CCCTCAGTATACACTAGGCCACTGGCAAAAACTAGACTCAGCTCTGCAATTCCTGACGGCCCAG
AGGTTGCCCCTGACTTTGGCTGGGGCCTCCTATGAGGGGGTAGCTGTCAATGACTGTATAGAGA
GTGGGCGCCAGGCAGCAATTGCTGTCCTGGGCACAGAATCGAACAGCTGACCCCCACTCTCCTA
CTCATGAAAGTAAAAGTTGATGGAGCTTG

hide sequence

RefSeq Acc Id:

XM_039090506 ⟹ XP_038946434

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	83,697,661 - 83,701,998 (-)	NCBI

RefSeq Acc Id:

XM_039090507 ⟹ XP_038946435

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	83,697,661 - 83,701,312 (-)	NCBI

RefSeq Acc Id:

XM_039090508 ⟹ XP_038946436

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	83,697,661 - 83,701,148 (-)	NCBI

RefSeq Acc Id:

XM_039090509 ⟹ XP_038946437

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	13	83,698,407 - 83,701,998 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001099438	(Get FASTA)	NCBI Sequence Viewer
	XP_006250302	(Get FASTA)	NCBI Sequence Viewer
	XP_006250303	(Get FASTA)	NCBI Sequence Viewer
	XP_006250305	(Get FASTA)	NCBI Sequence Viewer
	XP_038946434	(Get FASTA)	NCBI Sequence Viewer
	XP_038946435	(Get FASTA)	NCBI Sequence Viewer
	XP_038946436	(Get FASTA)	NCBI Sequence Viewer
	XP_038946437	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL94621	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001099438 ⟸ NM_001105968

- UniProtKB:

D3ZVN7 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MARTVIVLGGGISGLAASYHLTRSPSPPKVILVEGSKRLGGWIRSVRGSDGAIFELGPRGIRPA
GALGARTLLLVSELGLESEVLPVRGDHPAAQNRFLYVGGALHPLPSGLRGLLRPSPPFSKPLFW
AGLRELTKPRGKEPDETVHSFAQRRLGPEVASLAMDSLCRGVFAGNSQELSIRSCFPSLFQAEQ
THGSMLLGLLLGAGQTPQPNSSLIRQARAERWSQWSLRGGLEMLPQALHNYLTSKGVTILSGQP
ACGLSLQPEGHWKVSLGDSSLEADHIISTIPASVLSKLLPAEAAPLAHILSTIQAVSVAVVNLQ
YKGACLPVQGFGHLVPSSEDPTVLGIVYDSVAFPEQDGNPPGLRLTVMLGGYWLQKLKANGHEL
SPELFQRAAQEAAATQLGLKEQPSHCLVHLHKNCIPQYTLGHWQKLDSALQFLTAQRLPLTLAG
ASYEGVAVNDCIESGRQAAIAVLGTESNS

hide sequence

RefSeq Acc Id:

XP_006250302 ⟸ XM_006250240

- Peptide Label:

isoform X1

- Sequence:

show sequence

MARTVIVLGGGISGLAASYHLTRSPSPPKVILVEGSKRLGGWIRSVRGSDGAIFELGPRGIRPA
GALGARTLLLFLLFLRACGEQVSELGLESEVLPVRGDHPAAQNRFLYVGGALHPLPSGLRGLLR
PSPPFSKPLFWAGLRELTKPRGKEPDETVHSFAQRRLGPEVASLAMDSLCRGVFAGNSQELSIR
SCFPSLFQAEQTHGSMLLGLLLGAGQTPQPNSSLIRQARAERWSQWSLRGGLEMLPQALHNYLT
SKGVTILSGQPACGLSLQPEGHWKVSLGDSSLEADHIISTIPASVLSKLLPAEAAPLAHILSTI
QAVSVAVVNLQYKGACLPVQGFGHLVPSSEDPTVLGIVYDSVAFPEQDGNPPGLRLTVMLGGYW
LQKLKANGHELSPELFQRAAQEAAATQLGLKEQPSHCLVHLHKNCIPQYTLGHWQKLDSALQFL
TAQRLPLTLAGASYEGVAVNDCIESGRQAAIAVLGTESNS

hide sequence

RefSeq Acc Id:

XP_006250303 ⟸ XM_006250241

- Peptide Label:

isoform X1

- Sequence:

show sequence

MARTVIVLGGGISGLAASYHLTRSPSPPKVILVEGSKRLGGWIRSVRGSDGAIFELGPRGIRPA
GALGARTLLLFLLFLRACGEQVSELGLESEVLPVRGDHPAAQNRFLYVGGALHPLPSGLRGLLR
PSPPFSKPLFWAGLRELTKPRGKEPDETVHSFAQRRLGPEVASLAMDSLCRGVFAGNSQELSIR
SCFPSLFQAEQTHGSMLLGLLLGAGQTPQPNSSLIRQARAERWSQWSLRGGLEMLPQALHNYLT
SKGVTILSGQPACGLSLQPEGHWKVSLGDSSLEADHIISTIPASVLSKLLPAEAAPLAHILSTI
QAVSVAVVNLQYKGACLPVQGFGHLVPSSEDPTVLGIVYDSVAFPEQDGNPPGLRLTVMLGGYW
LQKLKANGHELSPELFQRAAQEAAATQLGLKEQPSHCLVHLHKNCIPQYTLGHWQKLDSALQFL
TAQRLPLTLAGASYEGVAVNDCIESGRQAAIAVLGTESNS

hide sequence

RefSeq Acc Id:

XP_006250305 ⟸ XM_006250243

- Peptide Label:

isoform X3

- Sequence:

show sequence

MVRSLNLDLEELGRLEPWEPGPCSWACGEQVSELGLESEVLPVRGDHPAAQNRFLYVGGALHPL
PSGLRGLLRPSPPFSKPLFWAGLRELTKPRGKEPDETVHSFAQRRLGPEVASLAMDSLCRGVFA
GNSQELSIRSCFPSLFQAEQTHGSMLLGLLLGAGQTPQPNSSLIRQARAERWSQWSLRGGLEML
PQALHNYLTSKGVTILSGQPACGLSLQPEGHWKVSLGDSSLEADHIISTIPASVLSKLLPAEAA
PLAHILSTIQAVSVAVVNLQYKGACLPVQGFGHLVPSSEDPTVLGIVYDSVAFPEQDGNPPGLR
LTVMLGGYWLQKLKANGHELSPELFQRAAQEAAATQLGLKEQPSHCLVHLHKNCIPQYTLGHWQ
KLDSALQFLTAQRLPLTLAGASYEGVAVNDCIESGRQAAIAVLGTESNS

hide sequence

RefSeq Acc Id:

ENSRNOP00000004896 ⟸ ENSRNOT00000004896

RefSeq Acc Id:	XP_038946434 ⟸ XM_039090506
- Peptide Label:	isoform X2

RefSeq Acc Id:	XP_038946435 ⟸ XM_039090507
- Peptide Label:	isoform X4

RefSeq Acc Id:	XP_038946436 ⟸ XM_039090508
- Peptide Label:	isoform X4

RefSeq Acc Id:	XP_038946437 ⟸ XM_039090509
- Peptide Label:	isoform X5

Protein Domains

Amino_oxidase

Transcriptome

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

Promoters

RGD ID:

13699000

Promoter ID:

EPDNEW_R9525

Type:

initiation region

Name:

Ppox_1

Description:

protoporphyrinogen oxidase

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	13	89,654,237 - 89,654,297	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

ACI/EurMcwi (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

ACI/N (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

BBDP/Wor (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

BN/SsN (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Buf/N (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

COP/CrCrl (MCW & UW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob) University of Wisconsin (Dr. James Shull)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Charles River Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)

F344/NCrl (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

F344/NRrrc (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

FHH/EurMcwi (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHH/EurMcwi (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

FHL/EurMcwi (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

FHL/EurMcwi (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

GH/OmrMcwi (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

GK/Ox (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LE/Stm (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/Crl (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LEW/NCrlBR (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LH/MavRrrc (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LL/MavRrrc (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

LN/MavRrrc (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

M520/N (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

MHS/Gib (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MNS/Gib (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

MR/N (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

SBH/Ygl (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBH/Ygl sequenced by MCW

SBH/Ygl (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SBN/Ygl (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	SBN/Ygl sequenced by MCW

SBN/Ygl (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHR/NHsd (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SHRSP/Gcrc (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SR/JrHsd (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Harlan Laboratories
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SR/JrHsd (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/Jr (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

SS/JrHsdMcwi (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Medical College of Wisconsin (Dr. Howard Jacob)
Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA v0.7.7 and GATK v3.2-2
Breeder:	Medical College of Wisconsin
Description:	Provided by the Medical College of Wisconsin (Dr. Howard Jacob)

SS/JrHsdMcwi (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WAG/Rij (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/Gcrc (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/N (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

WKY/NCrl (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WKY/NHsd (RGD)

Visual

CSV

TAB

Printer

Platform:	Illumina HiSeq 2000
Secondary Analysis:	BWA mem 0.7.15, GATK v.3.6-0
Description:	Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD

WN/N (MCW)

Visual

CSV

TAB

Printer

Sequenced By:	Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen) Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform:	SOLiD 4 and 5500
Secondary Analysis:	liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder:	National Institutes of Health
Description:	Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1310543	AgrOrtholog
Ensembl Genes	ENSRNOG00000003567	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000004896	ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000004896	ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH	3.50.50.60	UniProtKB/TrEMBL
InterPro	Amino_oxidase	UniProtKB/TrEMBL
	FAD/NAD-bd_sf	UniProtKB/TrEMBL
	Protoporphyrinogen_oxidase	UniProtKB/TrEMBL
KEGG Report	rno:289219	UniProtKB/TrEMBL
NCBI Gene	289219	ENTREZGENE
Pfam	Amino_oxidase	UniProtKB/TrEMBL
PhenoGen	Ppox	PhenoGen
Superfamily-SCOP	SSF51905	UniProtKB/TrEMBL
TIGRFAMs	proto_IX_ox	UniProtKB/TrEMBL
UniProt	D3ZVN7	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-04-30	Ppox	protoporphyrinogen oxidase	Ppox_predicted	protoporphyrinogen oxidase (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Ppox_predicted	protoporphyrinogen oxidase (predicted)			Symbol and Name status set to approved	70820	APPROVED

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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)

Send us a Message

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - SMPDB

Imported Annotations - KEGG (archival)