Dll4 (delta like canonical Notch ligand 4)

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Gene: Dll4 (delta like canonical Notch ligand 4) Rattus norvegicus

Analyze

Symbol:

Dll4

Name:

delta like canonical Notch ligand 4

RGD ID:

1309740

Description:

Predicted to enable Notch binding activity. Predicted to be involved in several processes, including cellular response to growth factor stimulus; circulatory system development; and regulation of Notch signaling pathway. Predicted to act upstream of or within angiogenesis; negative regulation of blood vessel endothelial cell migration; and regulation of neurogenesis. Predicted to be integral component of membrane. Predicted to be active in plasma membrane. Human ortholog(s) of this gene implicated in Adams-Oliver syndrome. Orthologous to human DLL4 (delta like canonical Notch ligand 4); PARTICIPATES IN Notch signaling pathway; INTERACTS WITH 1,2-dimethylhydrazine; 3-chloropropane-1,2-diol; acrylamide.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Also known as:

delta-like 4; delta-like 4 (Drosophila); delta-like protein 4; delta4; drosophila Delta homolog 4; LOC311332

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):	DLL4 (delta like canonical Notch ligand 4)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Dll4 (delta like canonical Notch ligand 4)	HGNC	Treefam, EggNOG, OrthoMCL, NCBI, OMA, HomoloGene, Inparanoid, Panther, OrthoDB, Ensembl
Chinchilla lanigera (long-tailed chinchilla):	Dll4 (delta like canonical Notch ligand 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	DLL4 (delta like canonical Notch ligand 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	DLL4 (delta like canonical Notch ligand 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Dll4 (delta like canonical Notch ligand 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	DLL4 (delta like canonical Notch ligand 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	DLL4 (delta like canonical Notch ligand 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Dll4 (delta like canonical Notch ligand 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	DLL4 (delta like canonical Notch ligand 4)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Mus musculus (house mouse):	Dll4 (delta like canonical Notch ligand 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Danio rerio (zebrafish):	dll4 (delta-like 4 (Drosophila))	Alliance	DIOPT (Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)
Drosophila melanogaster (fruit fly):	Dl	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoInspector\|PANTHER\|PhylomeDB\|TreeFam)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	3	106,317,114 - 106,327,004 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	3	106,316,986 - 106,326,931 (+)	Ensembl
Rnor_6.0	3	111,135,011 - 111,146,746 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	111,135,021 - 111,145,986 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	117,685,724 - 117,695,772 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	105,844,671 - 105,854,738 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	3	105,741,099 - 105,750,240 (+)	NCBI
Celera	3	105,230,387 - 105,240,148 (+)	NCBI		Celera
Cytogenetic Map	3	q35	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Adams-Oliver syndrome (ISO)

Adams-Oliver Syndrome 6 (ISO)

Bloom syndrome (ISO)

Breast Neoplasms (ISO)

colon cancer (ISO)

genetic disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(-)-epigallocatechin 3-gallate (ISO)

1,2-dimethylhydrazine (EXP)

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

3,3',5,5'-tetrabromobisphenol A (ISO)

3-chloropropane-1,2-diol (EXP)

4,4'-sulfonyldiphenol (ISO)

acrylamide (EXP,ISO)

aflatoxin B1 (ISO)

aristolochic acid (ISO)

arsane (ISO)

arsenic atom (ISO)

arsenite(3-) (ISO)

arsenous acid (ISO)

benzo[a]pyrene (ISO)

benzo[e]pyrene (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

BQ 123 (ISO)

choline (ISO)

deguelin (ISO)

diarsenic trioxide (ISO)

dibutyl phthalate (EXP)

dioxygen (ISO)

folic acid (ISO)

hydrogen cyanide (ISO)

L-methionine (ISO)

leflunomide (ISO)

Licochalcone B (ISO)

manganese(II) chloride (ISO)

methapyrilene (ISO)

methotrexate (ISO)

methylisothiazolinone (ISO)

octadecanoic acid (ISO)

paracetamol (ISO)

picoxystrobin (ISO)

potassium chromate (ISO)

potassium cyanide (ISO)

propranolol (ISO)

prostaglandin F2alpha (EXP)

pyrimidifen (ISO)

rotenone (ISO)

silicon dioxide (ISO)

simvastatin (EXP)

Soman (EXP)

tetrachloromethane (EXP)

titanium dioxide (ISO)

trimellitic anhydride (ISO)

triptonide (ISO)

troglitazone (ISO)

urethane (ISO)

valproic acid (ISO)

vinclozolin (EXP)

zinc atom (ISO)

zinc dichloride (ISO)

zinc(0) (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

angiogenesis (ISO)

blood vessel lumenization (ISO)

blood vessel remodeling (ISO)

branching involved in blood vessel morphogenesis (ISO)

cardiac atrium morphogenesis (ISO)

cardiac ventricle morphogenesis (ISO)

cellular response to fibroblast growth factor stimulus (ISO)

cellular response to vascular endothelial growth factor stimulus (ISO)

dorsal aorta morphogenesis (ISO)

negative regulation of blood vessel endothelial cell migration (ISO)

negative regulation of blood vessel endothelial cell proliferation involved in sprouting angiogenesis (ISO)

negative regulation of cell migration involved in sprouting angiogenesis (ISO)

negative regulation of cell population proliferation (ISO)

negative regulation of endothelial cell migration (ISO)

negative regulation of gene expression (ISO)

negative regulation of Notch signaling pathway (IBA,ISO)

negative regulation of transcription by RNA polymerase II (ISO)

Notch signaling involved in heart development (ISO)

Notch signaling pathway (IBA,ISO)

pericardium morphogenesis (ISO)

positive regulation of gene expression (ISO)

positive regulation of neural precursor cell proliferation (ISO)

positive regulation of Notch signaling pathway (ISO)

regulation of neural retina development (ISO)

regulation of neurogenesis (ISO)

T cell differentiation (ISO)

ventral spinal cord interneuron fate commitment (ISO)

ventricular trabecula myocardium morphogenesis (ISO)

Cellular Component

integral component of membrane (IEA)

plasma membrane (IBA)

Molecular Function

calcium ion binding (IEA)

Notch binding (IBA,ISO)

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

Notch signaling pathway (IEA,ISO)

References

References - curated


1.	Fiuza UM and Arias AM, J Endocrinol. 2007 Sep;194(3):459-74.
2.	Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3.	GOA data from the GO Consortium
4.	MGD data from the GO Consortium
5.	Pipeline to import KEGG annotations from KEGG into RGD
6.	Pipeline to import Pathway Interaction Database annotations from NCI into RGD
7.	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8.	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:10837024	PMID:15146182	PMID:15466159	PMID:15466160	PMID:17728344	PMID:18559979	PMID:19389377	PMID:20616313	PMID:20947685	PMID:21209419	PMID:22323600	PMID:23388056
PMID:23918385	PMID:24667410	PMID:25180956	PMID:25700513	PMID:25931508	PMID:26114479	PMID:26491108	PMID:26872979	PMID:29674611

Genomics

Comparative Map Data

Dll4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	3	106,317,114 - 106,327,004 (+)	NCBI	mRatBN7.2
mRatBN7.2 Ensembl	3	106,316,986 - 106,326,931 (+)	Ensembl
Rnor_6.0	3	111,135,011 - 111,146,746 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	111,135,021 - 111,145,986 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	117,685,724 - 117,695,772 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	3	105,844,671 - 105,854,738 (+)	NCBI	RGSC3.4		rn4	RGSC3.4
RGSC_v3.1	3	105,741,099 - 105,750,240 (+)	NCBI
Celera	3	105,230,387 - 105,240,148 (+)	NCBI		Celera
Cytogenetic Map	3	q35	NCBI

DLL4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38.p13 Ensembl	15	40,929,340 - 40,939,073 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh38	15	40,929,340 - 40,939,073 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh37	15	41,221,538 - 41,231,271 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	15	39,008,839 - 39,018,529 (+)	NCBI	NCBI36		hg18	NCBI36
Build 34	15	39,008,838 - 39,018,529	NCBI
Celera	15	17,989,410 - 17,999,137 (+)	NCBI
Cytogenetic Map	15	q15.1	NCBI
HuRef	15	18,070,066 - 18,079,793 (+)	NCBI		HuRef
CHM1_1	15	41,339,420 - 41,349,204 (+)	NCBI		CHM1_1

Dll4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	119,156,265 - 119,166,147 (+)	NCBI	GRCm39		mm39
GRCm39 Ensembl	2	119,156,265 - 119,166,443 (+)	Ensembl
GRCm38	2	119,325,784 - 119,335,666 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	119,325,784 - 119,335,962 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	119,151,520 - 119,161,402 (+)	NCBI	GRCm37		mm9	NCBIm37
MGSCv36	2	119,017,270 - 119,027,097 (+)	NCBI			mm8
Celera	2	120,476,206 - 120,486,045 (+)	NCBI		Celera
Cytogenetic Map	2	E5	NCBI

Dll4
(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_004955416	7,807,049 - 7,817,420 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955416	7,807,049 - 7,816,346 (+)	NCBI	ChiLan1.0	ChiLan1.0

DLL4
(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	15	38,121,238 - 38,130,950 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	15	38,121,574 - 38,129,471 (+)	Ensembl	panpan1.1		panPan2
Mhudiblu_PPA_v0	15	19,871,584 - 19,881,817 (+)	NCBI	Mhudiblu_PPA_v0		panPan3

DLL4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	30	8,059,463 - 8,068,742 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	30	8,059,512 - 8,067,940 (+)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	30	8,114,087 - 8,123,649 (+)	NCBI
ROS_Cfam_1.0	30	8,188,070 - 8,197,632 (+)	NCBI
UMICH_Zoey_3.1	30	8,111,270 - 8,120,832 (+)	NCBI
UNSW_CanFamBas_1.0	30	8,217,668 - 8,227,235 (+)	NCBI
UU_Cfam_GSD_1.0	30	8,349,053 - 8,358,618 (+)	NCBI

Dll4
(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_024408640	86,472,876 - 86,482,195 (+)	NCBI
SpeTri2.0	NW_004936471	4,320,235 - 4,330,251 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

DLL4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	130,376,720 - 130,386,713 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	1	130,376,720 - 130,386,411 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	145,539,044 - 145,548,860 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

DLL4
(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	26	42,056,473 - 42,066,283 (-)	NCBI	ChlSab1.1		chlSab2
ChlSab1.1 Ensembl	26	42,056,331 - 42,065,828 (-)	Ensembl	ChlSab1.1		chlSab2
Vero_WHO_p1.0	NW_023666048	98,919,102 - 98,929,217 (+)	NCBI	Vero_WHO_p1.0

Dll4
(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_004624804	8,179,729 - 8,189,001 (+)	NCBI	HetGla_female_1.0		hetGla2

Position Markers

D3Mgh11

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	106,320,129 - 106,320,287 (+)	MAPPER	mRatBN7.2
Rnor_6.0	3	111,138,035 - 111,138,192	NCBI	Rnor6.0
Rnor_5.0	3	117,688,754 - 117,688,911	UniSTS	Rnor5.0
RGSC_v3.4	3	105,847,686 - 105,847,844	RGD	RGSC3.4
RGSC_v3.4	3	105,847,687 - 105,847,844	UniSTS	RGSC3.4
RGSC_v3.1	3	105,744,115 - 105,744,272	RGD
Celera	3	105,233,403 - 105,233,560	UniSTS
RH 3.4 Map	3	913.7	UniSTS
RH 3.4 Map	3	913.7	RGD
RH 2.0 Map	3	587.4	RGD
FHH x ACI Map	3	60.54	RGD
Cytogenetic Map	3	q35	UniSTS

UniSTS:465451

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	106,323,950 - 106,324,210 (+)	MAPPER	mRatBN7.2
Rnor_6.0	3	111,141,856 - 111,142,115	NCBI	Rnor6.0
Rnor_5.0	3	117,692,789 - 117,693,048	UniSTS	Rnor5.0
RGSC_v3.4	3	105,851,759 - 105,852,018	UniSTS	RGSC3.4
Celera	3	105,237,169 - 105,237,428	UniSTS
Cytogenetic Map	3	q35	UniSTS

UniSTS:465450

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	106,323,948 - 106,325,383 (+)	MAPPER	mRatBN7.2
Rnor_6.0	3	111,141,854 - 111,143,287	NCBI	Rnor6.0
Rnor_5.0	3	117,692,787 - 117,694,220	UniSTS	Rnor5.0
RGSC_v3.4	3	105,851,757 - 105,853,190	UniSTS	RGSC3.4
Celera	3	105,237,167 - 105,238,600	UniSTS
Cytogenetic Map	3	q35	UniSTS

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1358885	Bp251	Blood pressure QTL 251	3.8		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	14489145	121056321	Rat
1358888	Bp264	Blood pressure QTL 264	4.43		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	14489145	121056321	Rat
737818	Hcar12	Hepatocarcinoma resistance QTL 12	2.6		liver integrity trait (VT:0010547)	volume of individual liver tumorous lesion (CMO:0001078)	3	29463235	118376539	Rat
70216	Cm14	Cardiac mass QTL 14	2.1		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	31172320	163586636	Rat
1358362	Srcrt2	Stress Responsive Cort QTL 2	2.78		blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	3	38192233	133483320	Rat
2301970	Bw81	Body weight QTL 81	5.19		body mass (VT:0001259)	body weight (CMO:0000012)	3	41874578	155617519	Rat
2301971	Cm71	Cardiac mass QTL 71	4.63		heart left ventricle mass (VT:0007031)	heart left ventricle weight (CMO:0000776)	3	41874578	155617519	Rat
1581503	Cm58	Cardiac mass QTL 58	2.7	0.05	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	43827364	121056321	Rat
1559282	Emca5	Estrogen-induced mammary cancer QTL 5	3.9		mammary gland integrity trait (VT:0010552)	percentage of study population developing mammary tumors during a period of time (CMO:0000948)	3	43827364	169034231	Rat
2292591	Esta4	Estrogen-induced thymic atrophy QTL 4			thymus mass (VT:0004954)	thymus wet weight (CMO:0000855)	3	47233211	147415807	Rat
1358186	Ept2	Estrogen-induced pituitary tumorigenesis QTL 2	8.3		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	3	47233430	110362260	Rat
2292613	Ept16	Estrogen-induced pituitary tumorigenesis QTL 16	8.3		pituitary gland mass (VT:0010496)	pituitary gland wet weight (CMO:0000853)	3	47233430	110362260	Rat
631665	Bw8	Body weight QTL 8	5.5		body mass (VT:0001259)	body weight (CMO:0000012)	3	50437042	119183768	Rat
724523	Tsu1	Thymus enlargement suppressive QTL 1	3.84		thymus mass (VT:0004954)	thymus weight to body weight ratio (CMO:0000612)	3	50437504	115638231	Rat
1582218	Bw74	Body weight QTL 74	3.9	0.0021	body mass (VT:0001259)	body weight (CMO:0000012)	3	53184593	115665732	Rat
1582238	Bw68	Body weight QTL 68	3.2	0.0064	body mass (VT:0001259)	body weight (CMO:0000012)	3	53184593	115665732	Rat
1582239	Epfw1	Epididymal fat weight QTL 1	4.5	0.0006	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	3	53184593	115665732	Rat
1581568	Rf53	Renal function QTL 53			total urine protein amount (VT:0000032)	urine protein excretion rate to body weight ratio (CMO:0001099)	3	56395968	161299569	Rat
8662816	Vetf4	Vascular elastic tissue fragility QTL 4	4		renal artery integrity trait (VT:0010642)	number of ruptures of the internal elastic lamina of the renal arteries (CMO:0002563)	3	59242096	157323038	Rat
1300111	Rf12	Renal function QTL 12	3.78		renal blood flow trait (VT:2000006)	absolute change in renal blood flow rate (CMO:0001168)	3	61017749	121056321	Rat
1582210	Bw71	Body weight QTL 71	3.3	0.0012	body mass (VT:0001259)	body weight (CMO:0000012)	3	64655305	115665732	Rat
1582221	Kidm30	Kidney mass QTL 30	3.5	0.0008	kidney mass (VT:0002707)	both kidneys wet weight (CMO:0000085)	3	64655305	115665732	Rat
12879848	Bw181	Body weght QTL 181		0.015	body mass (VT:0001259)	body weight (CMO:0000012)	3	70348525	121056321	Rat
2301414	Kidm37	Kidney mass QTL 37		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	70653097	121056321	Rat
1600376	Arunc5	Aerobic running capacity QTL 5		0.21	exercise endurance trait (VT:0002332)	maximum distance run on treadmill (CMO:0001406)	3	73376539	118376539	Rat
1581546	Pur13	Proteinuria QTL 13	2.93	0.0335	total urine protein amount (VT:0000032)	urine protein excretion rate (CMO:0000759)	3	78196190	146592722	Rat
2302273	Gluco35	Glucose level QTL 35	5.3	0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	80800231	114297550	Rat
631649	Bp123	Blood pressure QTL 123	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	89772419	134772419	Rat
8694437	Bw167	Body weight QTL 167	22.46	0.001	retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	3	91797474	136797474	Rat
631841	Niddm39	Non-insulin dependent diabetes mellitus QTL 39	3.36		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	94856903	159898684	Rat
724532	Cm17	Cardiac mass QTL 17	2		heart mass (VT:0007028)	calculated heart weight (CMO:0000073)	3	95735366	140735366	Rat
1582219	Bw63	Body weight QTL 63	3.8	0.001	body mass (VT:0001259)	body weight (CMO:0000012)	3	96127817	115665732	Rat
1354611	Despr2	Despair related QTL 2	3.03	0.0028	locomotor behavior trait (VT:0001392)	amount of time spent in voluntary immobility (CMO:0001043)	3	97084464	142084464	Rat
2293087	Iddm27	Insulin dependent diabetes mellitus QTL 27	2.68		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	97551417	147415807	Rat
2312659	Slep7	Serum leptin concentration QTL 7		0.001	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	3	98535255	168026850	Rat
2312670	Bw94	Body weight QTL 94		0.01	inguinal fat pad mass (VT:0010424)	inguinal fat pad weight to body weight ratio (CMO:0001253)	3	98535255	168026850	Rat
2312673	Scl63	Serum cholesterol level QTL 63		0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	3	98535255	168026850	Rat
2302373	Gluco39	Glucose level QTL 39	5.01		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	3	98535386	161695835	Rat
1582216	Bw65	Body weight QTL 65	6.3		body mass (VT:0001259)	body weight (CMO:0000012)	3	102200529	115665732	Rat

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	598
Count of miRNA genes:	270
Interacting mature miRNAs:	340
Transcripts:	ENSRNOT00000018970
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		5								6		11
Low	3	38	57	41	19	41	8	11	74	29	35		8
Below cutoff											6

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001107760	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006234765	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AC132987	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473949	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000118	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Reference Sequences

RefSeq Acc Id:

ENSRNOT00000018970 ⟹ ENSRNOP00000018970

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	3	106,316,986 - 106,325,478 (+)	Ensembl
Rnor_6.0 Ensembl	3	111,135,021 - 111,145,986 (+)	Ensembl

RefSeq Acc Id:

ENSRNOT00000117478 ⟹ ENSRNOP00000091766

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	3	106,316,986 - 106,326,931 (+)	Ensembl

RefSeq Acc Id:

NM_001107760 ⟹ NP_001101230

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	106,317,114 - 106,326,931 (+)	NCBI
Rnor_6.0	3	111,135,019 - 111,144,835 (+)	NCBI
Rnor_5.0	3	117,685,724 - 117,695,772 (+)	NCBI
RGSC_v3.4	3	105,844,671 - 105,854,738 (+)	RGD
Celera	3	105,230,387 - 105,240,148 (+)	RGD

Sequence:

show sequence

CGCTGCTCGCTGGCCAGGAACCCGTGGCCAAGAGCCGCAGCCAAAGCCTCTTGGGTGCAGTGTA
CTCCCGCACTAGCCCGCTTGAGACCCTAGGATTTGCTCCAGGACACGTACTTAGAGCAGCCACC
GCCCAGTCGCCCTCACCTGGATTACCTACCGAGGCATCGAGCAGCGGAGTTTTCGAGAAAGCGA
CGAGGGAGCAGCGTCCCGAGAGGAATCAGCTTTTCAGGAACTCGGTTGGCAGACGGACTTGCAG
GAGAGCGACATCCCAACAAGCAGATTCAGAGCCCCCGAGTGGAGAGGACACCCCAAGGGATGAC
GCCTGGGTCCCGGAGCGCCTGTCGCTGGGCGCTACTGCTGCTGGCGGTCCTGTGGCCGCAGCGC
GCGGCGGGCTCCGGCATCTTCCAGTTGCGGCTGCAGGAGTTCGCCAACGAGCGCGGTATGCTGG
CCAATGGGCGGCCCTGCGAGCCCGGCTGCCGGACTTTCTTCCGAATCTGCCTTAAGCATTACCA
GGCAACCTTCTCCGAGGGACCCTGCACCTTTGGCAATGTCTCCACGCCGGTATTGGGCACCAAC
TCCTTCGTCATCAGGGACAAGAATAGCGGCAGTGGTCGTAACCCTCTTCAATTGCCCTTCAATT
TTACCTGGCCGGGAACCTTCTCACTCAACATCCAAGCTTGGCACACGCCGGGAGACGACCTGCG
GCCAGAGACTTCACCAGGAAATTCACTTATCAGCCAAATCATCATCCAAGGCTCCCTTGCTGTG
GGTAAGAATTGGAAATCAGATGAGCAAAATAACACCCTCACAAGACTGCGCTACTCTTACCGGG
TCGTCTGCAGCGACAACTACTATGGAGATAGCTGTTCTCGCCTGTGCAAGAAGCGCGATGACCA
CTTCGGACATTATGAGTGCCAACCAGATGGCAGCCTGTCCTGCCTGCCGGGCTGGACTGGGAAA
TACTGTGATCAGCCTATATGTCTTTCTGGCTGTCATGAGCAGAATGGCTACTGCAGCAAGCCAG
ATGAGTGCAACTGCCGTCCAGGTTGGCAGGGCCCCTTATGCAATGAATGTATCCCCCACAATGG
CTGTCGTCATGGCACCTGCACCATCCCCTGGCAATGTGCCTGCGATGAGGGCTGGGGAGGTCTG
TTTTGTGACCAAGATCTTAATTACTGCACTCACCACTCTCCGTGCAAGAATGGATCAACTTGCT
CCAACAGTGGGCCGAGGGGCTATACCTGCACCTGTCTCCCAGGCTACACTGGTGAGCACTGTGA
GCTGGAACTCAGCAAGTGTGCCAGCAACCCCTGTCGAAATGGTGGCAGCTGTAAGGACCATGAG
AATAGCTACCACTGCCTGTGTCCCCCGGGCTACTATGGCCAGCACTGTGAACACAGTACCTTGA
CCTGTGCGGATTCACCCTGCTTCAATGGAGGCTCCTGCCGGGAGCGCAACCAGGGGGCCAGTTA
TGCCTGCGAGTGTCCCCCTAACTTCACTGGGTCCAACTGTGAGAAGAAAGTTGACAGGTGTACC
AGCAACCCCTGTGCCAATGGAGGTCAGTGCCTGAACAGAGGTCCAAGCCGGACCTGCCGCTGTC
GACCTGGATTCACAGGCACCCACTGTGAACTGCACATCAGCGATTGTGCCCGAAGCCCTTGTGC
CCATGGGGGCACTTGCCACGATCTGGAGAACGGGCCTGTGTGCACCTGCCCTGCTGGCTTTTCT
GGCAGGCGCTGCGAGGTGCGGATAACCAACGACGCCTGTGCCTCAGGACCCTGCTTCAATGGGG
CCACTTGCTACACTGGCCTCTCCCCAAACAACTTTGTCTGCAACTGTCCTTATGGCTTTGTGGG
CAGCCGCTGCGAGTTTCCCGTGGGCTTGCCACCCAGCTTCCCCTGGGTAGCTGTCTCCCTGGGT
GTGGGGCTGGTGGTACTGCTGGTGTTGCTGGTCATGGTGGCAGTGGCTGTGCGGCAGCTGCGGC
TTCGGAGGCCCGATGACGACAGCAGGGAAGCCATGAACAATTTGTCAGACTTCCAGAAGGACAA
CCTAATCCCTGCTGCCCAGCTCAAGAACACAAACCAGAAGAAGGAGCTGGAAGTGGATTGTGGC
CTGGACAAGTCCAACTGTGGCAAACTGCAGAACCACACACTGGACTATAATCTGGCCCCAGGAT
TCCTGGGGCGGGGGAGCACGCCTGGGAAGTATCCTCACAGCGACAAGAGTTTAGGAGAGAAGGT
GCCACTTCGGTTACACAGTGAAAAGCCGGCATGTCGAATATCAGCGATATGCTCCCCCAGGGAC
TCTATGTACCAGTCAGTATGTTTGATATCAGAAGAGAGGAACGAATGTGTCATTGCCACAGAGG
TATAAGGCAGGAGCCTACTCAGACACCCAGCTTCGGCCCAGCAGCTGGGCCTTCCTTCTGCATT
GTTTACATTGCATCCTGGATGGGACATCTTTAGTATGCACAGTGCTGCTCTGAGGAGGAGGAGG
AAGAAGAGGAGAAGGAGGAGGAATGGCATGAACTGGACAGACTGTGAACCTGCCCAGAGTCGAG
CCACTTCTGCACACCTTCAGGAGTCTGTCTGGCCTCAGATGGGCAGCGCCATCAAGGGAAGAGT
CAAGGGGCCAGAGGAACATCAGTTGAGCTGATATCTAAGGTGCCTCTTGGACTTGGACTTGCTC
TGCCAACAGTGGTCATCGTGGAGCTCTTGACTGTTCTCCAGAGAGTGGCAGTGGCCCTAGTGGG
TCTTGGCGCTGCTGTAGCTCCTGTGGGCATCTGTATTTCCAAAGTGCCTTTGCCCAGACTCCAT
CCTTACAGCTGGGCCCCAATGAGAAAGCAGAGAGGAGACTTGCAAGGGACAGGCCTCCTGTAGG
CAGAACAGCCTTGGAGTCTGGCATTTAGCAGGAGCTACCCTGCAGGTGAGGAGAGCCTGAGGGG
GCTGGTGTGAATCTCGCCTCTGACCACAGCAGGTGGGGTGCCACCTACAACCTCTGGGCGAGAG
TTGGTCCTCTCCCTGGTCCTGGTGCCTCTGGGCTCATGTGAGCAGATGAGTTTAGGGCCCCCTT
TGCCAGCCAGGGGTACAGGCCTAACTGGGGAGCTCAGGGCCTTTATGCTAAAACTCCAATAAGG
GAGAGAGGGGTGGTGCTGTGGCCTAGGCCCTTCCTTCCCTCATACCCATTTCTGTGCCCTTGAG
CCTGGGCTCTACCAGTGCCCACTGCTGCCCCGAGACCAACCTTGAAGCCGATCTTCAAAAATCA
ATAATATGAGGTTTTGTTTTGTTTTGTAGTTTATTTTGGAATCTAGTATTTTGATAATTTAAGA
ATCAGAAGCACTGGCCTTTCTACATTTTATAACATTATTTTGTATATAATGTGTATTTATAATA
TGGAACAGATGTGTACA

hide sequence

RefSeq Acc Id:

XM_006234765 ⟹ XP_006234827

RefSeq Status:

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	106,317,359 - 106,327,004 (+)	NCBI
Rnor_6.0	3	111,135,011 - 111,146,746 (+)	NCBI
Rnor_5.0	3	117,685,724 - 117,695,772 (+)	NCBI

Sequence:

show sequence

AGTAGCGGCGCTGCTCGCTGGCCAGGAACCCGTGGCCAAGAGCCGCAGCCAAAGCCTCTTGGGT
GCAGTGTACTCCCGCACTAGCCCGCTTGAGACCCTAGGATTTGCTCCAGGACACGTACTTAGAG
CAGCCACCGCCCAGTCGCCCTCACCTGGATTACCTACCGAGGCATCGAGCAGCGGAGTTTTCGA
GAAAGCGACGAGGGAGCAGCGTCCCGAGAGGAATCAGCTTTTCAGGAACTCGGTTGGCAGACGG
ACTTGCAGGAGAGCGACATCCCAACAAGCAGATTCAGAGCCCCCGAGTGGAGAGGACACCCCAA
GGGATGACGCCTGGGTCCCGGAGCGCCTGTCGCTGGGCGCTACTGCTGCTGGCGGTCCTGTGGC
CGCAGCAGCGCGCGGCGGGCTCCGGCATCTTCCAGTTGCGGCTGCAGGAGTTCGCCAACGAGCG
CGGTATGCTGGCCAATGGGCGGCCCTGCGAGCCCGGCTGCCGGACTTTCTTCCGAATCTGCCTT
AAGCATTACCAGGCAACCTTCTCCGAGGGACCCTGCACCTTTGGCAATGTCTCCACGCCGGTAT
TGGGCACCAACTCCTTCGTCATCAGGGACAAGAATAGCGGCAGTGGTCGTAACCCTCTTCAATT
GCCCTTCAATTTTACCTGGCCGGGAACCTTCTCACTCAACATCCAAGCTTGGCACACGCCGGGA
GACGACCTGCGGCCAGAGACTTCACCAGGAAATTCACTTATCAGCCAAATCATCATCCAAGGCT
CCCTTGCTGTGGGTAAGAATTGGAAATCAGATGAGCAAAATAACACCCTCACAAGACTGCGCTA
CTCTTACCGGGTCGTCTGCAGCGACAACTACTATGGAGATAGCTGTTCTCGCCTGTGCAAGAAG
CGCGATGACCACTTCGGACATTATGAGTGCCAACCAGATGGCAGCCTGTCCTGCCTGCCGGGCT
GGACTGGGAAATACTGTGATCAGCCTATATGTCTTTCTGGCTGTCATGAGCAGAATGGCTACTG
CAGCAAGCCAGATGAGTGCAACTGCCGTCCAGGTTGGCAGGGCCCCTTATGCAATGAATGTATC
CCCCACAATGGCTGTCGTCATGGCACCTGCACCATCCCCTGGCAATGTGCCTGCGATGAGGGCT
GGGGAGGTCTGTTTTGTGACCAAGATCTTAATTACTGCACTCACCACTCTCCGTGCAAGAATGG
ATCAACTTGCTCCAACAGTGGGCCGAGGGGCTATACCTGCACCTGTCTCCCAGGCTACACTGGT
GAGCACTGTGAGCTGGAACTCAGCAAGTGTGCCAGCAACCCCTGTCGAAATGGTGGCAGCTGTA
AGGACCATGAGAATAGCTACCACTGCCTGTGTCCCCCGGGCTACTATGGCCAGCACTGTGAACA
CAGTACCTTGACCTGTGCGGATTCACCCTGCTTCAATGGAGGCTCCTGCCGGGAGCGCAACCAG
GGGGCCAGTTATGCCTGCGAGTGTCCCCCTAACTTCACTGGGTCCAACTGTGAGAAGAAAGTTG
ACAGGTGTACCAGCAACCCCTGTGCCAATGGAGGTCAGTGCCTGAACAGAGGTCCAAGCCGGAC
CTGCCGCTGTCGACCTGGATTCACAGGCACCCACTGTGAACTGCACATCAGCGATTGTGCCCGA
AGCCCTTGTGCCCATGGGGGCACTTGCCACGATCTGGAGAACGGGCCTGTGTGCACCTGCCCTG
CTGGCTTTTCTGGCAGGCGCTGCGAGGTGCGGATAACCAACGACGCCTGTGCCTCAGGACCCTG
CTTCAATGGGGCCACTTGCTACACTGGCCTCTCCCCAAACAACTTTGTCTGCAACTGTCCTTAT
GGCTTTGTGGGCAGCCGCTGCGAGTTTCCCGTGGGCTTGCCACCCAGCTTCCCCTGGGTAGCTG
TCTCCCTGGGTGTGGGGCTGGTGGTACTGCTGGTGTTGCTGGTCATGGTGGCAGTGGCTGTGCG
GCAGCTGCGGCTTCGGAGGCCCGATGACGACAGCAGGGAAGCCATGAACAATTTGTCAGACTTC
CAGAAGGACAACCTAATCCCTGCTGCCCAGCTCAAGAACACAAACCAGAAGAAGGAGCTGGAAG
TGGATTGTGGCCTGGACAAGTCCAACTGTGGCAAACTGCAGAACCACACACTGGACTATAATCT
GGCCCCAGGATTCCTGGGGCGGGGGAGCACGCCTGGGAAGTATCCTCACAGCGACAAGAGTTTA
GGAGAGAAGGTGCCACTTCGGTTACACAGTGAAAAGCCGGCATGTCGAATATCAGCGATATGCT
CCCCCAGGGACTCTATGTACCAGTCAGTATGTTTGATATCAGAAGAGAGGAACGAATGTGTCAT
TGCCACAGAGGTATAAGGCAGGAGCCTACTCAGACACCCAGCTTCGGCCCAGCAGCTGGGCCTT
CCTTCTGCATTGTTTACATTGCATCCTGGATGGGACATCTTTAGTATGCACAGTGCTGCTCTGA
GGAGGAGGAGGAAGAAGAGGAGAAGGAGGAGGAATGGCATGAACTGGACAGACTGTGAACCTGC
CCAGAGTCGAGCCACTTCTGCACACCTTCAGGAGTCTGTCTGGCCTCAGATGGGCAGCGCCATC
AAGGGAAGAGTCAAGGGGCCAGAGGAACATCAGTTGAGCTGATATCTAAGGTGCCTCTTGGACT
TGGACTTGCTCTGCCAACAGTGGTCATCGTGGAGCTCTTGACTGTTCTCCAGAGAGTGGCAGTG
GCCCTAGTGGGTCTTGGCGCTGCTGTAGCTCCTGTGGGCATCTGTATTTCCAAAGTGCCTTTGC
CCAGACTCCATCCTTACAGCTGGGCCCCAATGAGAAAGCAGAGAGGAGACTTGCAAGGGACAGG
CCTCCTGTAGGCAGAACAGCCTTGGAGTCTGGCATTTAGCAGGAGCTACCCTGCAGGTGAGGAG
AGCCTGAGGGGGCTGGTGTGAATCTCGCCTCTGACCACAGCAGGTGGGGTGCCACCTACAACCT
CTGGGCGAGAGTTGGTCCTCTCCCTGGTCCTGGTGCCTCTGGGCTCATGTGAGCAGATGAGTTT
AGGGCCCCCTTTGCCAGCCAGGGGTACAGGCCTAACTGGGGAGCTCAGGGCCTTTATGCTAAAA
CTCCAATAAGGGAGAGAGGGGTGGTGCTGTGGCCTAGGCCCTTCCTTCCCTCATACCCATTTCT
GTGCCCTTGAGCCTGGGCTCTACCAGTGCCCACTGCTGCCCCGAGACCAACCTTGAAGCCGATC
TTCAAAAATCAATAATATGAGGTTTTGTTTTGTTTTGTAGTTTATTTTGGAATCTAGTATTTTG
ATAATTTAAGAATCAGAAGCACTGGCCTTTCTACATTTTATAACATTATTTTGTATATAATGTG
TATTTATAATATGGAACAGATGTGTACAGGAATTTATTACTTCTTGGGTCCTGTCTTTGTAATA
GCAGAGTAGGGATCTTTTCCCTGCCTTCCTATCCCAAGTTCAAAGCCCTTTTCTTTTCATTGTC
GAATGGCCCTGCTGGAACCCTAGGGCCTGTGCATGCTCGGGTTAGGCATGTTATGTGGAAGGGT
GGTGTCTCAGTCCAGTCTTTGAGGAGCCTTGCTTTGGTCACCTGATCCCCAGCCTAGGTCAGCC
TTCCTATGCCTGATGACTTTATGACTGGGTGCTACTACTCCACTTTAAGTTCCACGGGGCTATT
TTCCCCTGACTGGAATCTCTTTCCCTTTCCCCCAAGCCGGAAAAGAAGCTATGGGTGCTTTGAT
TTTCTCCCATTGAGGAAGATTTTCTCATTATTTATTCAAAAGGATTCTTTTATTAGATAATGAG
TGAAGTCCCCTCTGGCTACTTCCTCCTACCGCCGGGGCATTTGGGTTGCACTGGCACCTGCACT
TCTGAGTCTAGTGCGGAATTGGTTTGAGATGAGGAATGGTAGGGGATTTGCCCTAGGTTTATCT
TTCTTGAAGTTGGCAGAGCTGAGGGGACTGGTGAGGCTACAAGAAGGGGAGGAGTCAGAGCCTT
CCCTGAGTCTGTTGCTCAGGCTGAGACACTAATGAGGGAGTTTCCAGTCTACTCCATGCCAAGC
TTCCTCTAAGGCACAGGATAGTCCCTAGGGTGCTGATCCTCTCTCTGCGGCCACTAATATACCC
CATGTCAAGCAAATTTCGGGGAAAACAACAACAACAACAACAACAACAACAACAAAAAGCCAGC
CCTAAGCCAGTGAAAAGCTTTGCAGAGGCTCCCAGCCTGTTTATAGTAAAGCAAAACAGACCCT
ACAGATGCCTTTCTCTTAGTGGAATCCAACTCTGGGAGACGAGCCACTCCCCAGCCCAGGCTCC
AGCACGGTGAACAGGATCTGGGTGCTTACTGGAGTCCCGGGAGTATGCACACGTTCCACGGCTT
GGTCCTTGGTCCCTGTTGCTCTACTGCACACACAGGGTATCAAACAGGAAAACATTCAGGGAAC
GGTTCCCACAGCCTGAGCCGACAGCAGGGGGAAGAACAACACGACCTCACTCTTCCTGCCCAAA
ATGAAACAGGAAAGCGGCTCCTAGGCTCTGGGGGGGCGGGGGAGGCTGGGCTGGGACAGAAGTG
GAGATGACGAGGCTCCCATGTGGGGGACAGGTAGGACACCCGCAGGCCTGCACGTCCACACCAC
TAGGCTAGGCTACATTGCCAGATGGTCAGAGAAGAGCCCTGGAGGGGTCCTGGTGGCTGGCTCA
ATCCATTTACTACCTCTGATACCATAGCCAAGGAGCTGAGAGGGGCTTTCTGGGGCAAGTTGGA
ACGGGTGCAAGGGACTTAGTGTGGTATGCTTGTGGGGGCTCCAACCTGCAGCTCATGCCAGGCC
TTCTTCCCAGTAACTCAGAAGTGGCCCCAGTTCTCACTTGGAGTGTGAACGAAATGTTATTTTC
TCCCACCACAGAGGTAGGATATTTAAGGGTCTCTGGATCACCCCAGAGTCCAAGGCACTTGGCA
TTCAAACAAGATTAGACTCTCAAGAGCCTAGCAAACGCTCATCTTTGTATGTTTTATAATAGAA
TTAGAGTTTAGCAGTTCCTCAGTAGCTTGGAGTTACAGTCCTGCCTAAAGAATTAGTCTGACCT
CCTGGTGACCCTCGGGCCTGAGGACAGCTGCTTTTCCAGAGCTTGTTGGCTGGTGACCACCTGG
AGATCCTTGTGCTCTGGGTTGGGAGGGGCTGCAGTCATATACCTCTCTTGGCTAGCCTAGGCAG
AGCCACAGTTGATCTCATCTGGGGGCAAATGACGGTACAGTGATTCCGACCCACTTCTGCTCAG
GCTAGTTGAGGCTACTAAA

hide sequence

Protein Sequences


Protein RefSeqs	NP_001101230	(Get FASTA)	NCBI Sequence Viewer
	XP_006234827	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	D3ZHH1	(Get FASTA)	NCBI Sequence Viewer
	EDL79901	(Get FASTA)	NCBI Sequence Viewer
	EDL79902	(Get FASTA)	NCBI Sequence Viewer

Reference Sequences

RefSeq Acc Id:

NP_001101230 ⟸ NM_001107760

- Peptide Label:

precursor

- Sequence:

show sequence

MTPGSRSACRWALLLLAVLWPQRAAGSGIFQLRLQEFANERGMLANGRPCEPGCRTFFRICLKH
YQATFSEGPCTFGNVSTPVLGTNSFVIRDKNSGSGRNPLQLPFNFTWPGTFSLNIQAWHTPGDD
LRPETSPGNSLISQIIIQGSLAVGKNWKSDEQNNTLTRLRYSYRVVCSDNYYGDSCSRLCKKRD
DHFGHYECQPDGSLSCLPGWTGKYCDQPICLSGCHEQNGYCSKPDECNCRPGWQGPLCNECIPH
NGCRHGTCTIPWQCACDEGWGGLFCDQDLNYCTHHSPCKNGSTCSNSGPRGYTCTCLPGYTGEH
CELELSKCASNPCRNGGSCKDHENSYHCLCPPGYYGQHCEHSTLTCADSPCFNGGSCRERNQGA
SYACECPPNFTGSNCEKKVDRCTSNPCANGGQCLNRGPSRTCRCRPGFTGTHCELHISDCARSP
CAHGGTCHDLENGPVCTCPAGFSGRRCEVRITNDACASGPCFNGATCYTGLSPNNFVCNCPYGF
VGSRCEFPVGLPPSFPWVAVSLGVGLVVLLVLLVMVAVAVRQLRLRRPDDDSREAMNNLSDFQK
DNLIPAAQLKNTNQKKELEVDCGLDKSNCGKLQNHTLDYNLAPGFLGRGSTPGKYPHSDKSLGE
KVPLRLHSEKPACRISAICSPRDSMYQSVCLISEERNECVIATEV

hide sequence

RefSeq Acc Id:	XP_006234827 ⟸ XM_006234765
- Peptide Label:	isoform X1
- UniProtKB:	D3ZHH1 (UniProtKB/TrEMBL)
- Sequence:	show sequence MTPGSRSACRWALLLLAVLWPQQRAAGSGIFQLRLQEFANERGMLANGRPCEPGCRTFFRICLK HYQATFSEGPCTFGNVSTPVLGTNSFVIRDKNSGSGRNPLQLPFNFTWPGTFSLNIQAWHTPGD DLRPETSPGNSLISQIIIQGSLAVGKNWKSDEQNNTLTRLRYSYRVVCSDNYYGDSCSRLCKKR DDHFGHYECQPDGSLSCLPGWTGKYCDQPICLSGCHEQNGYCSKPDECNCRPGWQGPLCNECIP HNGCRHGTCTIPWQCACDEGWGGLFCDQDLNYCTHHSPCKNGSTCSNSGPRGYTCTCLPGYTGE HCELELSKCASNPCRNGGSCKDHENSYHCLCPPGYYGQHCEHSTLTCADSPCFNGGSCRERNQG ASYACECPPNFTGSNCEKKVDRCTSNPCANGGQCLNRGPSRTCRCRPGFTGTHCELHISDCARS PCAHGGTCHDLENGPVCTCPAGFSGRRCEVRITNDACASGPCFNGATCYTGLSPNNFVCNCPYG FVGSRCEFPVGLPPSFPWVAVSLGVGLVVLLVLLVMVAVAVRQLRLRRPDDDSREAMNNLSDFQ KDNLIPAAQLKNTNQKKELEVDCGLDKSNCGKLQNHTLDYNLAPGFLGRGSTPGKYPHSDKSLG EKVPLRLHSEKPACRISAICSPRDSMYQSVCLISEERNECVIATEV hide sequence

RefSeq Acc Id:

ENSRNOP00000018970 ⟸ ENSRNOT00000018970

RefSeq Acc Id:

ENSRNOP00000091766 ⟸ ENSRNOT00000117478

Protein Domains

DSL EGF-like

Transcriptome

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

Promoters

RGD ID:

13692325

Promoter ID:

EPDNEW_R2850

Type:

single initiation site

Name:

Dll4_1

Description:

delta like canonical Notch ligand 4

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	3	111,135,011 - 111,135,071	EPDNEW

Strain Variation

Strain Sequence Variants (Rnor 6.0)

ACI/EurMcwi (2019)

Visual

CSV

TAB

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

ACI/EurMcwi (MCW)

Visual

CSV

TAB

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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 (2020)

Visual

CSV

TAB

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

ACI/N (MCW)

Visual

CSV

TAB

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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-Lx/CubMcwi (2019)

Visual

CSV

TAB

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2019)

Visual

CSV

TAB

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/NHsdMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/SsN (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BN/SsN (MCW)

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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 (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH2/CubMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

BXH3/CubMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

Buf/N (MCW)

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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)

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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)

DA/OlaHsd (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/DuCrl (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/N (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/NCrl (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

F344/NCrl (RGD)

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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)

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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

F344/Stm (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FHH/EurMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FHH/EurMcwi (MCW)

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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)

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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)

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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)

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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

FXLE16/Stm (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

FXLE18/Stm (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

GH/OmrMcwi (MCW)

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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/FarMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

GK/Ox (RGD)

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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

HXB10/IpcvMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB2/IpcvMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB20/IpcvMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB31/IpcvMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

HXB4/IpcvMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LE/Stm (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LE/Stm (RGD)

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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 (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEW/Crl (RGD)

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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)

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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

LEXF10A/StmMcwi (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF11/Stm (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1A/Stm (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF1C/Stm (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF2B/Stm (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF3/Stm (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LEXF4/Stm (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LH/MavRrrc (RGD)

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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/MavRrrcAek (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LL/MavRrrc (RGD)

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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/MavRrrcAek (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

LN/MavRrrc (RGD)

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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/MavRrrcAek (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Kwitek
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/N (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

M520/N (MCW)

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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

M520/NRrrcMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MHS/Gib (RGD)

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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)

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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 (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

MR/N (MCW)

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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

MWF/Hsd (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

PVG/Seac (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Japan
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SBH/Ygl (MCW)

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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)

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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)

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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)

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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)

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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/OlalpcvMcwi (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHRSP/A3NCrl (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SHRSP/Gcrc (RGD)

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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 (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Envigo
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SR/JrHsd (MCW)

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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)

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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)

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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 (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	MCW
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

SS/JrHsdMcwi (MCW)

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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)

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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)

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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/RijCrl (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/Gcrc (RGD)

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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 (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/N (MCW)

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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 (2019)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	Charles River
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WKY/NCrl (RGD)

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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)

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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 (2020)

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Sequenced By:	MCW
Platform:	GSPMC-Illumina-NovaSeq6000
Secondary Analysis:	BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder:	NIH
Description:	Dr. Mindy Dwinell - Hybrid rat diversity program

WN/N (MCW)

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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

Damaging Variants

Assembly: Rnor_5.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
3	117686068	117686069	C	T	snv	ACI/EurMcwi (MCW), ACI/N (KNAW), ACI/EurMcwi (KNAW), HTX/Kyo (KyushuU), SDLEF7/Barth (UDEL), NIG-III/Hok (KyushuU), DA/BklArbNsi (KNAW)

Assembly: mRatBN7.2

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
3	106317444	106317445	C	T	snv	ACI/EurMcwi (2019), DA/OlaHsd (2019), ACI/N (2020)

Assembly: Rnor_6.0

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
3	111135349	111135350	C	T	snv	ACI/EurMcwi (MCW), ACI/N (MCW), DA/OlaHsd (2019), ACI/EurMcwi (2019), ACI/N (2020), ACI/EurMcwi (RGD)

Assembly: RGSC_v3.4

Chromosome	Start Pos	End Pos	Reference Nucleotide	Variant Nucleotide	Variant Type	Strain
3	105845001	105845002	C	T	snv	ACI/EurMcwi (MCW), ACI/N (KNAW), ACI/EurMcwi (ICL), DA/BklArbNsi (ICAHN), HCR/2Mco (UMich), LCR/2Mco (UMich), HCR/1Mco (UMich)

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1309740	AgrOrtholog
Ensembl Genes	ENSRNOG00000014011	Ensembl, UniProtKB/Swiss-Prot
Ensembl Protein	ENSRNOP00000018970	UniProtKB/Swiss-Prot
Ensembl Transcript	ENSRNOT00000018970	UniProtKB/Swiss-Prot
InterPro	DSL	UniProtKB/Swiss-Prot
	EGF-like_Ca-bd_dom	UniProtKB/Swiss-Prot
	EGF-like_CS	UniProtKB/Swiss-Prot
	EGF-like_dom	UniProtKB/Swiss-Prot
	EGF-type_Asp/Asn_hydroxyl_site	UniProtKB/Swiss-Prot
	Growth_fac_rcpt_	UniProtKB/Swiss-Prot
	Notch_ligand_N	UniProtKB/Swiss-Prot
NCBI Gene	311332	ENTREZGENE
Pfam	DSL	UniProtKB/Swiss-Prot
	EGF	UniProtKB/Swiss-Prot
	hEGF	UniProtKB/Swiss-Prot
	MNNL	UniProtKB/Swiss-Prot
PhenoGen	Dll4	PhenoGen
PROSITE	ASX_HYDROXYL	UniProtKB/Swiss-Prot
	DSL	UniProtKB/Swiss-Prot
	EGF_1	UniProtKB/Swiss-Prot
	EGF_2	UniProtKB/Swiss-Prot
	EGF_3	UniProtKB/Swiss-Prot
SMART	DSL	UniProtKB/Swiss-Prot
	EGF	UniProtKB/Swiss-Prot
	EGF_CA	UniProtKB/Swiss-Prot
Superfamily-SCOP	SSF57184	UniProtKB/Swiss-Prot
UniProt	D3ZHH1	ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-05-20	Dll4	delta like canonical Notch ligand 4	Dll4	delta-like 4 (Drosophila)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2008-04-30	Dll4	delta-like 4 (Drosophila)	Dll4_predicted	delta-like 4 (Drosophila) (predicted)	'predicted' is removed	2292626	APPROVED
2005-01-12	Dll4_predicted	delta-like 4 (Drosophila) (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 - KEGG (archival)

Imported Annotations - PID (archival)

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - OMIM

RGD Manual Annotations

Imported Annotations - KEGG (archival)

Imported Annotations - PID (archival)