Cartpt (CART prepropeptide) - Rat Genome Database

Name: Cartpt
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

	Submit Data \| Help \| Video Tutorials \| News \| Publications \| FTP 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 FTP 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 Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory 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 GERRC (Gene Editing Rat Resource Center) 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: Cartpt (CART prepropeptide) Rattus norvegicus

Analyze

Symbol:

Cartpt

Name:

CART prepropeptide

RGD ID:

2272

Description:

Predicted to have neuropeptide hormone activity. Involved in several processes, including adult feeding behavior; circadian regulation of gene expression; and regulation of peptide hormone secretion. Localizes to extracellular space. Biomarker of type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in obesity. Orthologous to human CARTPT (CART prepropeptide); INTERACTS WITH (3,4-dihydroxyphenyl)acetic acid; (S)-nicotine; 17beta-estradiol.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

Cart; cocaine and amphetamine regulated transcript; cocaine- and amphetamine-regulated transcript protein

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):	CARTPT (CART prepropeptide)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Cartpt (CART prepropeptide)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, PhylomeDB, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Cartpt (CART prepropeptide)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CARTPT (CART prepropeptide)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CARTPT (CART prepropeptide)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Cartpt (CART prepropeptide)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CARTPT (CART prepropeptide)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (African green monkey):	CARTPT (CART prepropeptide)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Cartpt (CART prepropeptide)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Mus musculus (house mouse):	Cartpt (CART prepropeptide)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Homo sapiens (human):	CARTPT (CART prepropeptide)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	cart2 (cocaine- and amphetamine-regulated transcript 2)	Alliance	DIOPT (InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	cart1 (cocaine- and amphetamine-regulated transcript 1)	Alliance	DIOPT (PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	cart4 (cocaine- and amphetamine-regulated transcript 4)	Alliance	DIOPT (Ensembl Compara\|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
Rnor_6.0	2	30,125,249 - 30,127,408 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	30,125,249 - 30,127,269 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	2	49,285,118 - 49,287,405 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	30,889,817 - 30,891,837 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	2	30,810,185 - 30,812,206 (-)	NCBI
Celera	2	27,276,402 - 27,278,422 (-)	NCBI		Celera
Cytogenetic Map	2	q12	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Alcohol-Related Disorders (ISO)

anxiety disorder (ISO)

Cocaine-Related Disorders (ISO)

Hyperalgesia (ISO)

hyperthyroidism (ISO)

Neurodevelopmental Disorders (ISO)

obesity (ISO)

type 2 diabetes mellitus (IEP)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(3,4-dihydroxyphenyl)acetic acid (EXP)

(S)-nicotine (EXP,ISO)

1,2-dimethylhydrazine (ISO)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (EXP)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',4,4'-Tetrabromodiphenyl ether (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

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

2-naphthylamine (ISO)

3-\{1-[3-(dimethylamino)propyl]-1H-indol-3-yl\}-4-(1H-indol-3-yl)-1H-pyrrole-2,5-dione (EXP)

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

acrylamide (EXP)

AM-251 (EXP)

ammonium chloride (EXP)

amphetamine (EXP)

arsenite(3-) (ISO)

atrazine (EXP)

benzo[a]pyrene (EXP,ISO)

bisphenol A (EXP,ISO)

C60 fullerene (EXP)

carbonyl sulfide (EXP)

chlorpyrifos (EXP,ISO)

clozapine (EXP)

cocaine (EXP,ISO)

copper atom (ISO)

copper(0) (ISO)

corticosterone (EXP)

dichlorine (EXP)

diprotium oxide (EXP)

entinostat (ISO)

ethanol (ISO)

fluoxetine (EXP)

fonofos (ISO)

glycidol (EXP)

hydrogen sulfide (ISO)

icariin (ISO)

KT 5720 (EXP)

lipopolysaccharide (EXP)

morphine (ISO)

nicotine (EXP,ISO)

nitroprusside (EXP)

ozone (EXP)

parathion (ISO)

PCB138 (ISO)

pirinixic acid (EXP,ISO)

rotenone (EXP)

scopolamine (EXP)

Soman (EXP)

streptozocin (EXP)

terbufos (ISO)

triphenyl phosphate (ISO)

water (EXP)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

activation of MAPKK activity (IDA,ISO)

adult feeding behavior (IDA,ISO)

cellular glucose homeostasis (ISO,ISS)

cellular response to starvation (IBA,IDA,ISO)

chemical synaptic transmission (IEA)

circadian regulation of gene expression (IDA)

G protein-coupled receptor signaling pathway (IDA,ISO)

gastric acid secretion (TAS)

negative regulation of appetite (IBA,IDA,ISO)

negative regulation of bone resorption (ISO)

negative regulation of glucagon secretion (IDA)

neuropeptide signaling pathway (IEA)

positive regulation of blood pressure (ISO,ISS)

positive regulation of epinephrine secretion (ISO,ISS)

positive regulation of transmission of nerve impulse (ISO,ISS)

regulation of bone remodeling (ISO)

regulation of insulin secretion (IDA)

somatostatin secretion (IDA)

Cellular Component

extracellular space (IBA,IDA,ISO,ISS)

secretory granule (ISO)

synapse (IEA)

Molecular Function

neuropeptide hormone activity (IEA)

protein binding (IPI,ISO)

References

References - curated


1.	Brischoux F, etal., J Neurobiol 2002 Sep 5;52(3):221-9.
2.	del Giudice EM, etal., Diabetes. 2001 Sep;50(9):2157-60.
3.	Douglass J, etal., J Neurosci 1995 Mar;15(3 Pt 2):2471-81.
4.	Echwald SM, etal., Obes Res. 1999 Nov;7(6):532-6.
5.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
6.	Hubert GW and Kuhar MJ, Neuropeptides. 2006 Dec;40(6):409-15. Epub 2006 Oct 24.
7.	Kristensen P, etal., Nature. 1998 May 7;393(6680):72-6.
8.	Lakatos A, etal., Neurosci Lett. 2005 Aug 12-19;384(1-2):198-202.
9.	MGD data from the GO Consortium
10.	NCBI rat LocusLink and RefSeq merged data July 26, 2002
11.	Okumura T, etal., Endocrinology 2000 Aug;141(8):2854-60.
12.	OMIM Disease Annotation Pipeline
13.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
14.	RGD automated import pipeline for gene-chemical interactions
15.	Sohn EH, etal., Endocrinology 2002 Mar;143(3):954-63.
16.	Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
17.	Vicentic A, etal., Brain Res. 2005 Jan 25;1032(1-2):111-5.
18.	Walder K, etal., Int J Obes Relat Metab Disord. 2000 Apr;24(4):520-1.
19.	Wierup N, etal., Diabetes. 2006 Feb;55(2):305-11.

Additional References at PubMed

PMID:9654146	PMID:11711504	PMID:11841916	PMID:12147208	PMID:12147209	PMID:12468444	PMID:12490674	PMID:12559087	PMID:12588509	PMID:12591118	PMID:12732339	PMID:12933358
PMID:14691017	PMID:14698680	PMID:14700744	PMID:14730586	PMID:14764627	PMID:15155577	PMID:15271883	PMID:15380921	PMID:15572204	PMID:15652661	PMID:15720470	PMID:15724149
PMID:15874973	PMID:15890775	PMID:15908130	PMID:15978559	PMID:16154276	PMID:16339196	PMID:16374620	PMID:16614075	PMID:16644010	PMID:16684132	PMID:16879170	PMID:16971488
PMID:17023531	PMID:17105939	PMID:17434149	PMID:17616293	PMID:17634068	PMID:17669377	PMID:17880396	PMID:18078990	PMID:18384674	PMID:18472225	PMID:18554810	PMID:18624928
PMID:18645412	PMID:18719668	PMID:18823957	PMID:19005467	PMID:19046951	PMID:19070636	PMID:19254763	PMID:19258027	PMID:19426783	PMID:19490082	PMID:19533109	PMID:19632277
PMID:19704931	PMID:19755135	PMID:19825396	PMID:19854189	PMID:20116848	PMID:20528087	PMID:20595030	PMID:20626417	PMID:20810898	PMID:20883668	PMID:20886038	PMID:21167239
PMID:21407156	PMID:21452228	PMID:21539900	PMID:21589937	PMID:21624661	PMID:21821286	PMID:21903152	PMID:22137563	PMID:22887004	PMID:22960117	PMID:23155622	PMID:23206801
PMID:23211962	PMID:23250745	PMID:23318496	PMID:23538212	PMID:23545074	PMID:23736294	PMID:23770418	PMID:23907376	PMID:24549602	PMID:24630272	PMID:24647922	PMID:24939825
PMID:24989426	PMID:25151991	PMID:25256086	PMID:25552080	PMID:25825358	PMID:26008155	PMID:26150151	PMID:26771081	PMID:26955782	PMID:27258934	PMID:27349817	PMID:27822503
PMID:27823935	PMID:28237718	PMID:28300671	PMID:28984394	PMID:30610873

Genomics

Comparative Map Data

Cartpt
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rnor_6.0	2	30,125,249 - 30,127,408 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	2	30,125,249 - 30,127,269 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	2	49,285,118 - 49,287,405 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	2	30,889,817 - 30,891,837 (-)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	2	30,810,185 - 30,812,206 (-)	NCBI
Celera	2	27,276,402 - 27,278,422 (-)	NCBI		Celera
Cytogenetic Map	2	q12	NCBI

CARTPT
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	5	71,719,275 - 71,721,048 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	5	71,719,275 - 71,721,045 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	5	71,014,990 - 71,016,875 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	5	71,050,750 - 71,052,628 (+)	NCBI	NCBI36		hg18	NCBI36
Celera	5	66,910,678 - 66,912,563 (+)	NCBI
Cytogenetic Map	5	q13.2	NCBI
HuRef	5	66,220,931 - 66,222,816 (+)	NCBI		HuRef
CHM1_1	5	70,447,686 - 70,449,571 (+)	NCBI		CHM1_1

Cartpt
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	100,034,991 - 100,037,191 (-)	NCBI	GRCm39		mm39
GRCm38	13	99,898,483 - 99,910,179 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	99,898,489 - 99,901,091 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	13	100,668,439 - 100,670,638 (-)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	13	100,998,914 - 101,000,892 (-)	NCBI			mm8
Celera	13	103,550,272 - 103,552,922 (-)	NCBI		Celera
Cytogenetic Map	13	D1	NCBI

Cartpt
(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_004955575	551,991 - 555,149 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955575	551,991 - 555,118 (+)	NCBI	ChiLan1.0	ChiLan1.0

CARTPT
(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	5	44,236,114 - 44,238,229 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	5	44,236,114 - 44,238,229 (-)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	5	43,591,683 - 43,593,586 (-)	NCBI	Mhudiblu_PPA_v0		panPan3

CARTPT
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1 Ensembl	2	54,865,298 - 54,867,158 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
CanFam3.1	2	54,865,043 - 54,867,410 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1

Cartpt
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
SpeTri2.0	NW_004936549	4,717,337 - 4,719,523 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CARTPT
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	16	48,043,407 - 48,045,590 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	16	48,043,558 - 48,045,592 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	16	51,989,808 - 51,991,843 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CARTPT
(Chlorocebus sabaeus - African green monkey)

Vervet Assembly	Chr	Position (strand)	Source	Genome Browsers
Vervet Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	4	66,058,755 - 66,060,635 (+)	NCBI
ChlSab1.1 Ensembl	4	66,058,769 - 66,061,112 (+)	Ensembl

Cartpt
(Heterocephalus glaber - naked mole-rat)

Molerat Assembly	Chr	Position (strand)	Source	Genome Browsers
Molerat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla 1.0	NW_004624905	751,032 - 753,012 (+)	NCBI

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
631682	Bp115	Blood pressure QTL 115	4.3	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	1	35167060	Rat
738010	Lnnr3	Liver neoplastic nodule remodeling QTL 3	2.94		liver integrity trait (VT:0010547)	liver remodeling tumorous lesion number (CMO:0001461)	2	1	41179397	Rat
61355	Bp36	Blood pressure QTL 36	2.9		blood pressure trait (VT:0000183)	systolic blood pressure (CMO:0000004)	2	3127638	105149020	Rat
9590080	Insglur4	Insulin/glucose ratio QTL 4	28.7	0.001	blood insulin amount (VT:0001560)	calculated plasma insulin level (CMO:0002170)	2	3686308	48686308	Rat
1600379	Mcs18	Mammary carcinoma susceptibility QTL 18	2.6		mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	2	5417336	42777046	Rat
738012	Anxrr3	Anxiety related response QTL 3	3.8		exploratory behavior trait (VT:0010471)	percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)	2	7893600	52893600	Rat
1578664	Bmd9	Bone mineral QTL density 9	5		femur mineral mass (VT:0010011)	total volumetric bone mineral density (CMO:0001728)	2	9444679	49615930	Rat
1578671	Bmd10	Bone mineral density QTL 10	5.4		femur mineral mass (VT:0010011)	cortical volumetric bone mineral density (CMO:0001730)	2	9444679	68866454	Rat
10755430	Coatc6	Coat color QTL 6		0.02576	coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	2	10555275	55555275	Rat
731184	Mamtr4	Mammary tumor resistance QTL 4		0.0003	mammary gland integrity trait (VT:0010552)	mammary tumor number (CMO:0000343)	2	14237830	59237830	Rat
10755499	Bp389	Blood pressure QTL 389	2.61		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	16679272	245624402	Rat
1357990	Ael1	Aortic elastin QTL 1	3.1	0.00091	aorta elastin amount (VT:0003905)	aortic elastin	2	19016465	64016465	Rat
731167	Glom4	Glomerulus QTL 4	2.4	0.0082	kidney glomerulus morphology trait (VT:0005325)	count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)	2	20276981	65276981	Rat
2300168	Bmd47	Bone mineral density QTL 47	6.6	0.0001	femur mineral mass (VT:0010011)	bone mineral density (CMO:0001226)	2	20641371	65641371	Rat
7387318	Stl32	Serum triglyceride level QTL 32	3.2	0.0003	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	2	22612952	67612952	Rat
10402051	Gdil2	Gastrointestinal dilation QTL 2			enteric ganglion morphology trait (VT:0001045)	length of intestine affected by colonic aganglionosis to total length of colon ratio (CMO:0001836)	2	23280647	75687607	Rat
1302794	Stl27	Serum triglyceride level QTL 27	4.4	0.0001	blood triglyceride amount (VT:0002644)	plasma triglyceride level (CMO:0000548)	2	23837491	149614623	Rat
1358894	Kidm24	Kidney mass QTL 24	4.03		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	23837491	169852800	Rat
1358899	Kidm23	Kidney mass QTL 23	3.88		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	23837491	169852800	Rat
1358901	Cm38	Cardiac mass QTL 38	2		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	23837491	169852800	Rat
1358904	Cm39	Cardiac mass QTL 39	2.26		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	23837491	169852800	Rat
1358910	Kidm27	Kidney mass QTL 27	5.77		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	23837491	169852800	Rat
1358911	Kidm28	Kidney mass QTL 28	5.42		kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	23837491	169852800	Rat
1358913	Cm41	Cardiac mass QTL 41	2.73		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	23837491	218957222	Rat
1358917	Cm42	Cardiac mass QTL 42	2.82		heart mass (VT:0007028)	heart weight to body weight ratio (CMO:0000074)	2	23837491	218957222	Rat
1358887	Bw50	Body weight QTL 50	2.39		body mass (VT:0001259)	body weight (CMO:0000012)	2	23837719	169852670	Rat
1358908	Bw49	Body weight QTL 49	3.36		body mass (VT:0001259)	body weight (CMO:0000012)	2	23837719	169852670	Rat
1354617	Bp240	Blood pressure QTL 240	4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	2	26186097	83819822	Rat
1354617	Bp240	Blood pressure QTL 240	4		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	26186097	83819822	Rat
1354617	Bp240	Blood pressure QTL 240	4		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	26186097	83819822	Rat
1354603	Bp243	Blood pressure QTL 243	3.9		arterial blood pressure trait (VT:2000000)	diastolic blood pressure (CMO:0000005)	2	26186097	135654963	Rat
2290453	Scl55	Serum cholesterol level QTL 55	2.83		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	2	26186097	142053534	Rat
1331764	Bp205	Blood pressure QTL 205	3.476		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	2	26267995	43133606	Rat
1643006	Pain1	Pain QTL 1	3.63	0.005	mechanical nociception trait (VT:0002734)	self mutilation severity score (CMO:0002145)	2	26267995	48676716	Rat
12879841	Cm87	Cardiac mass QTL 87		0.026	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	2	27161361	148295267	Rat
12879842	Cm88	Cardiac mass QTL 88		0.042	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	2	27161361	148295267	Rat
12879843	Am3	Aortic mass QTL 3		0.016	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	2	27161361	148295267	Rat
12879844	Kidm62	Kidney mass QTL 62		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	2	27161361	148295267	Rat
9590095	Sffal3	Serum free fatty acids level QTL 3	6.78	0.001	blood free fatty acid amount (VT:0001553)	plasma free fatty acids level (CMO:0000546)	2	27760301	72760301	Rat
1300160	Hrtrt3	Heart rate QTL 3	3.62		heart pumping trait (VT:2000009)	absolute change in heart rate (CMO:0000534)	2	28727867	52507805	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	173
Count of miRNA genes:	134
Interacting mature miRNAs:	143
Transcripts:	ENSRNOT00000023869
Prediction methods:	Microtar, Miranda, Rnahybrid
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	1								20
Low	2	7	8						50		9	3
Below cutoff		8	11	4	9	4	1	1	4	4	11	6	1

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_017110	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006231843	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AABR07007841	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AAHX01012481	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AF519794	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473955	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	U10071	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000023869 ⟹ ENSRNOP00000023869

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	2	30,125,249 - 30,127,269 (-)	Ensembl

RefSeq Acc Id:

NM_017110 ⟹ NP_058806

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	2	30,125,249 - 30,127,269 (-)	NCBI
Rnor_5.0	2	49,285,118 - 49,287,405 (-)	NCBI
RGSC_v3.4	2	30,889,817 - 30,891,837 (-)	RGD
Celera	2	27,276,402 - 27,278,422 (-)	RGD

Sequence:

show sequence

AGCGAGGAAGTCCAGCACCATGGAGAGCTCCCGCCTGCGGCTGCTACCCGTCCTGGGCGCCGCC
CTACTGCTGCTGCTACCTTTGCTGGGTGCCGGTGCCCAGGAGGATGCCGAGCTGCAGCCCCGAG
CCCTGGACATCTACTCTGCCGTGGATGATGCGTCCCATGAGAAGGAGCTGCCAAGGCGGCAACT
TCGGGCTCCCGGCGCTGTGTTGCAGATTGAAGCGCTGCAGGAAGTCCTGAAGAAGCTCAAGAGT
AAACGCATTCCGATCTATGAGAAGAAGTACGGCCAAGTCCCCATGTGTGACGCTGGAGAGCAGT
GCGCAGTGCGGAAAGGGGCCAGGATCGGGAAGCTGTGTGACTGTCCCCGAGGAACTTCTTGCAA
TTCTTTCCTCTTGAAGTGCTTGTGAAGGGGTGACAGCCTCCTTCGGTTCCCATATTTCCTCTTT
CCCCTAAAGGAGCGCTCTTTTGTCCCTGGAGCCGCTTTAACAACAATAAAGTTTGCGTTCCCCC
CAGAGAGTGGATGGGCTCTTTCCCTGCTGCTTCAAAATAAAAGATTTGATGTTATTGTGTGAAG
GACAATACCTTGAATGGTGTTGGTATGTGTGCAAAGTATTCTTCTCTCGTTTTATCCACCTGAC
ACATTCTTGTGACCTTTCTGGGAAGAAGAGGGACTTTCGCTTTAAAACTGTATTTTTGTATGTG
GCGGGTCACAATGAAGATTAGACCTAGTTAATTTTGGCAGATGACATCATAACCCGGAAAACAA
ATCACCCCAAAGCAACACAAATGGAAGCATGTGCAAATTACACCCAATAAAGCATTTTTGATAA
TTGCTCAC

hide sequence

RefSeq Acc Id:

XM_006231843 ⟹ XP_006231905

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0	2	30,125,252 - 30,127,408 (-)	NCBI
Rnor_5.0	2	49,285,118 - 49,287,405 (-)	NCBI

Sequence:

show sequence

CGTCAAACGGCAGCGGAGCGCTGCCTACAGACGGCTGACCCGGGCTCTTCTCCACACCCCCGTC
CTTCTTCTCCCCCTCCCTTTTCCCGGCACCCGATTTCAACCGGCTATAAGAAGAGGGAGAGCGC
AGTGCCCGAGCAGCGAGGAAGTCCAGCACCATGGAGAGCTCCCGCCTGCGGCTGCTACCCGTCC
TGGGCGCCGCCCTACTGCTGCTGCTACCTTTGCTGGGTGCCGGTGCCCAGGAGGATGCCGAGCT
GCAGCCCCGAGCCCTGGACATCTACTCTGCCGTGGATGATGCGTCCCATGAGAAGGAGCTGATT
GAAGCGCTGCAGGAAGTCCTGAAGAAGCTCAAGAGTAAACGCATTCCGATCTATGAGAAGAAGT
ACGGCCAAGTCCCCATGTGTGACGCTGGAGAGCAGTGCGCAGTGCGGAAAGGGGCCAGGATCGG
GAAGCTGTGTGACTGTCCCCGAGGAACTTCTTGCAATTCTTTCCTCTTGAAGTGCTTGTGAAGG
GGTGACAGCCTCCTTCGGTTCCCATATTTCCTCTTTCCCCTAAAGGAGCGCTCTTTTGTCCCTG
GAGCCGCTTTAACAACAATAAAGTTTGCGTTCCCCCCAGAGAGTGGATGGGCTCTTTCCCTGCT
GCTTCAAAATAAAAGATTTGATGTTATTGTGTGAAGGACAATACCTTGAATGGTGTTGGTATGT
GTGCAAAGTATTCTTCTCTCGTTTTATCCACCTGACACATTCTTGTGACCTTTCTGGGAAGAAG
AGGGACTTTCGCTTTAAAACTGTATTTTTGTATGTGGCGGGTCACAATGAAGATTAGACCTAGT
TAATTTTGGCAGATGACATCATAACCCGGAAAACAAATCACCCCAAAGCAACACAAATGGAAGC
GTGTGCAAATTACACCCAATAAAGCATTTTTGATAATTGCT

hide sequence

Protein Sequences


Protein RefSeqs	NP_058806	(Get FASTA)	NCBI Sequence Viewer
	XP_006231905	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAA87897	(Get FASTA)	NCBI Sequence Viewer
	AAN03865	(Get FASTA)	NCBI Sequence Viewer
	EDM10183	(Get FASTA)	NCBI Sequence Viewer
	EDM10184	(Get FASTA)	NCBI Sequence Viewer
	EDM10185	(Get FASTA)	NCBI Sequence Viewer
	P49192	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:	NP_058806 ⟸ NM_017110
- Peptide Label:	precursor
- UniProtKB:	P49192 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MESSRLRLLPVLGAALLLLLPLLGAGAQEDAELQPRALDIYSAVDDASHEKELPRRQLRAPGAV LQIEALQEVLKKLKSKRIPIYEKKYGQVPMCDAGEQCAVRKGARIGKLCDCPRGTSCNSFLLKC L hide sequence

RefSeq Acc Id:	XP_006231905 ⟸ XM_006231843
- Peptide Label:	isoform X1
- UniProtKB:	P49192 (UniProtKB/Swiss-Prot)
- Sequence:	show sequence MESSRLRLLPVLGAALLLLLPLLGAGAQEDAELQPRALDIYSAVDDASHEKELIEALQEVLKKL KSKRIPIYEKKYGQVPMCDAGEQCAVRKGARIGKLCDCPRGTSCNSFLLKCL hide sequence

RefSeq Acc Id:

ENSRNOP00000023869 ⟸ ENSRNOT00000023869

Transcriptome

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

Promoters

RGD ID:

13691099

Promoter ID:

EPDNEW_R1624

Type:

single initiation site

Name:

Cartpt_1

Description:

CART prepropeptide

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	2	30,127,269 - 30,127,329	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:2272	AgrOrtholog
Ensembl Genes	ENSRNOG00000017712	Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000023869	ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000023869	ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH	4.10.40.30	UniProtKB/Swiss-Prot
InterPro	CART	UniProtKB/Swiss-Prot
	CART_C_sf	UniProtKB/Swiss-Prot
KEGG Report	rno:29131	UniProtKB/Swiss-Prot
NCBI Gene	29131	ENTREZGENE
PANTHER	PTHR16655	UniProtKB/Swiss-Prot
Pfam	CART	UniProtKB/Swiss-Prot
PhenoGen	Cartpt	PhenoGen
Superfamily-SCOP	SSF64546	UniProtKB/Swiss-Prot
TIGR	TC234475
UniGene	Rn.89164	ENTREZGENE
UniProt	CART_RAT	UniProtKB/Swiss-Prot, ENTREZGENE

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-05-15	Cartpt	CART prepropeptide	Cart	cocaine and amphetamine regulated transcript	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2002-06-10	Cart	cocaine and amphetamine regulated transcript			Symbol and Name status set to approved	70586	APPROVED

RGD Curation Notes

Note Type	Note	Reference
gene_expression	expressed in mesencephalon of central nervous system	634696
gene_process	may have a role in the development of specific regions of the rat brain	634696
gene_regulation	expression may be regulated by testosterone	1299848

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