Edn3 (endothelin 3) - Rat Genome Database

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Gene: Edn3 (endothelin 3) Rattus norvegicus
Analyze
Symbol: Edn3
Name: endothelin 3
RGD ID: 2534
Description: Predicted to have endothelin B receptor binding activity and hormone activity. Involved in negative regulation of hormone secretion and regulation of neurotransmitter secretion. Predicted to localize to extracellular space. Human ortholog(s) of this gene implicated in Hirschsprung's disease; Waardenburg syndrome type 4B; Waardenburg's syndrome; and congenital central hypoventilation syndrome. Orthologous to human EDN3 (endothelin 3); PARTICIPATES IN endothelin signaling pathway; INTERACTS WITH (R)-noradrenaline; 3',5'-cyclic GMP; 3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: edn3_mapped; endothelin 3 (mapped); endothelin-3; ET-3; Et3; LOC502697; PPET3; preproendothelin-3; preproET-3; RGD1564825; similar to prepro-endothelin-3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Is Marker For: Strains:   SS.SR-(D3Mco19-D3Mco5)/Jr  
QTLs:   Cm14   Bp167  
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23163,562,307 - 163,586,636 (+)NCBI
Rnor_6.0 Ensembl3172,856,733 - 172,880,450 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03172,856,730 - 172,879,276 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03178,903,017 - 178,925,563 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43166,491,368 - 166,514,051 (+)NCBIRGSC3.4rn4RGSC3.4
Celera3162,730,251 - 162,752,801 (+)NCBICelera
Cytogenetic Map3q43NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

Additional References at PubMed
PMID:1299957   PMID:1713452   PMID:1917960   PMID:2649896   PMID:3045827   PMID:8982507   PMID:9012511   PMID:9624616   PMID:9696419   PMID:10770212   PMID:11401406   PMID:12234805  
PMID:14138974   PMID:15093706   PMID:15344879   PMID:15629454   PMID:15691296   PMID:15949640   PMID:16023617   PMID:16287488   PMID:18682267   PMID:18771698   PMID:18850267   PMID:19544475  
PMID:22897442   PMID:23122227   PMID:23370722   PMID:24040226  


Genomics

Candidate Gene Status
Edn3 is a candidate Gene for QTL Bp167
Comparative Map Data
Edn3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.23163,562,307 - 163,586,636 (+)NCBI
Rnor_6.0 Ensembl3172,856,733 - 172,880,450 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.03172,856,730 - 172,879,276 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.03178,903,017 - 178,925,563 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43166,491,368 - 166,514,051 (+)NCBIRGSC3.4rn4RGSC3.4
Celera3162,730,251 - 162,752,801 (+)NCBICelera
Cytogenetic Map3q43NCBI
EDN3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl2059,300,443 - 59,325,992 (+)EnsemblGRCh38hg38GRCh38
GRCh382059,300,415 - 59,325,992 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh372057,875,666 - 57,901,047 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362057,308,894 - 57,334,442 (+)NCBINCBI36hg18NCBI36
Build 342057,308,893 - 57,334,441NCBI
Celera2054,616,141 - 54,641,690 (+)NCBI
Cytogenetic Map20q13.32NCBI
HuRef2054,662,632 - 54,688,190 (+)NCBIHuRef
CHM1_12057,776,813 - 57,802,379 (+)NCBICHM1_1
Edn3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392174,602,412 - 174,625,835 (+)NCBIGRCm39mm39
GRCm39 Ensembl2174,602,412 - 174,625,835 (+)Ensembl
GRCm382174,760,619 - 174,784,042 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2174,760,619 - 174,784,042 (+)EnsemblGRCm38mm10GRCm38
MGSCv372174,586,274 - 174,609,543 (+)NCBIGRCm37mm9NCBIm37
MGSCv362174,403,712 - 174,426,981 (+)NCBImm8
Celera2180,720,524 - 180,743,869 (+)NCBICelera
Cytogenetic Map2H4NCBI
cM Map298.1NCBI
Edn3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955445215,859 - 237,760 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955445215,910 - 238,153 (-)NCBIChiLan1.0ChiLan1.0
EDN3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12057,012,926 - 57,038,570 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2057,012,926 - 57,038,570 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02055,652,770 - 55,678,486 (+)NCBIMhudiblu_PPA_v0panPan3
EDN3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12444,024,553 - 44,054,727 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2444,033,419 - 44,054,050 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2443,279,240 - 43,297,953 (+)NCBI
ROS_Cfam_1.02444,892,278 - 44,922,442 (+)NCBI
UMICH_Zoey_3.12444,002,694 - 44,021,373 (+)NCBI
UNSW_CanFamBas_1.02444,121,425 - 44,140,136 (+)NCBI
UU_Cfam_GSD_1.02444,781,653 - 44,800,349 (+)NCBI
Edn3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640181,539,619 - 181,562,016 (-)NCBI
SpeTri2.0NW_0049365301,744,216 - 1,766,602 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EDN3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1759,425,495 - 59,448,362 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11759,418,667 - 59,448,382 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21766,846,562 - 66,867,781 (+)NCBISscrofa10.2Sscrofa10.2susScr3
EDN3
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.124,814,447 - 4,839,950 (-)NCBI
ChlSab1.1 Ensembl24,814,140 - 4,839,626 (-)Ensembl
Edn3
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474125,658,726 - 25,680,763 (+)NCBI

Position Markers
D3Mco3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23163,577,121 - 163,577,474 (+)MAPPER
Rnor_6.03172,871,332 - 172,871,684NCBIRnor6.0
Rnor_5.03178,917,619 - 178,917,971UniSTSRnor5.0
RGSC_v3.43166,505,970 - 166,506,322UniSTSRGSC3.4
RGSC_v3.13166,412,006 - 166,412,358RGD
Celera3162,744,853 - 162,745,205UniSTS
RH 3.4 Map31496.8RGD
RH 3.4 Map31496.8UniSTS
Cytogenetic Map3q43UniSTS
D3Mgh10  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23159,898,684 - 159,898,795 (+)MAPPER
Rnor_6.03168,732,722 - 168,732,832NCBIRnor6.0
Rnor_5.03174,828,750 - 174,828,860UniSTSRnor5.0
RGSC_v3.43161,985,069 - 161,985,179RGDRGSC3.4
RGSC_v3.43161,985,070 - 161,985,180UniSTSRGSC3.4
RGSC_v3.13161,891,105 - 161,891,215RGD
Celera3159,112,002 - 159,112,112UniSTS
RH 3.4 Map31488.7UniSTS
RH 3.4 Map31488.7RGD
SHRSP x BN Map386.5599UniSTS
SHRSP x BN Map386.5599RGD
Cytogenetic Map3q43UniSTS
D3Mco4  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_6.03172,872,892 - 172,873,190NCBIRnor6.0
Rnor_5.03178,919,179 - 178,919,477UniSTSRnor5.0
RGSC_v3.43166,507,530 - 166,507,965UniSTSRGSC3.4
Celera3162,746,413 - 162,746,715UniSTS
Cytogenetic Map3q43UniSTS
D3Mco79  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23163,577,127 - 163,577,445 (+)MAPPER
Rnor_6.03172,871,338 - 172,871,655NCBIRnor6.0
Rnor_5.03178,917,625 - 178,917,942UniSTSRnor5.0
RGSC_v3.43166,505,976 - 166,506,293UniSTSRGSC3.4
Celera3162,744,859 - 162,745,176UniSTS
Cytogenetic Map3q43UniSTS
D3Mco80  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23163,584,479 - 163,584,700 (+)MAPPER
Rnor_6.03172,878,661 - 172,878,883NCBIRnor6.0
Rnor_5.03178,924,948 - 178,925,170UniSTSRnor5.0
RGSC_v3.43166,513,436 - 166,513,658UniSTSRGSC3.4
Celera3162,752,186 - 162,752,408UniSTS
Cytogenetic Map3q43UniSTS
Edn3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23163,563,245 - 163,563,545 (+)MAPPER
Rnor_6.03172,857,456 - 172,857,755NCBIRnor6.0
Rnor_5.03178,903,743 - 178,904,042UniSTSRnor5.0
RGSC_v3.43166,492,094 - 166,492,393UniSTSRGSC3.4
Celera3162,730,977 - 162,731,276UniSTS
Cytogenetic Map3q43UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)330846101172879276Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)345406058177699992Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)3103141814176418101Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)3103141814176418101Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3103141814176418101Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3128986468173986468Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3129787213177699992Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3130006659175006659Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3132875075176418101Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3138374177177699992Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3138374177177699992Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3139578365177699992Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3146232777177699992Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3148034701177699992Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3150368003177699992Rat
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3153381237174632112Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3153381237174632112Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3153381237174632112Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3153381237174632112Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3153381237174632112Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3153381237174632112Rat
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3153381237174632112Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3153412455177699992Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3153918022177699992Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3156381661176418101Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3170428815177699992Rat


Related Rat Strains
The following Strains have been annotated to Edn3

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:84
Count of miRNA genes:79
Interacting mature miRNAs:79
Transcripts:ENSRNOT00000009826
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 4 17 10 4
Low 3 2 33 20 9 20 8 11 68 18 22 7 8
Below cutoff 20 15 12 10 12 2 9

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000009826   ⟹   ENSRNOP00000009826
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl3172,856,733 - 172,880,450 (+)Ensembl
RefSeq Acc Id: NM_001077650   ⟹   NP_001071118
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23163,562,520 - 163,585,093 (+)NCBI
Rnor_6.03172,856,730 - 172,879,276 (+)NCBI
Rnor_5.03178,903,017 - 178,925,563 (+)NCBI
RGSC_v3.43166,491,368 - 166,514,051 (+)RGD
Celera3162,730,251 - 162,752,801 (+)RGD
Sequence:
RefSeq Acc Id: XM_039105613   ⟹   XP_038961541
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23163,563,106 - 163,586,636 (+)NCBI
RefSeq Acc Id: XM_039105614   ⟹   XP_038961542
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23163,562,816 - 163,586,636 (+)NCBI
RefSeq Acc Id: XM_039105615   ⟹   XP_038961543
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.23163,562,307 - 163,586,636 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001071118 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961541 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961542 (Get FASTA)   NCBI Sequence Viewer  
  XP_038961543 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAB22502 (Get FASTA)   NCBI Sequence Viewer  
  P13207 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001071118   ⟸   NM_001077650
- Peptide Label: precursor
- Sequence:
RefSeq Acc Id: ENSRNOP00000009826   ⟸   ENSRNOT00000009826
RefSeq Acc Id: XP_038961543   ⟸   XM_039105615
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038961542   ⟸   XM_039105614
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038961541   ⟸   XM_039105613
- Peptide Label: isoform X1
Protein Domains
END

Transcriptome

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

Promoters
RGD ID:13692724
Promoter ID:EPDNEW_R3249
Type:single initiation site
Name:Edn3_1
Description:endothelin 3
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03172,856,720 - 172,856,780EPDNEW

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)
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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
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/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
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 (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
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
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
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
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
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 (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
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
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 (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 (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
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 (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 (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 (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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2534 AgrOrtholog
Ensembl Genes ENSRNOG00000007477 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000009826 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000009826 ENTREZGENE, UniProtKB/TrEMBL
InterPro Endothelin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Endothelin_toxin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Endothln-like_toxin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:366270 UniProtKB/Swiss-Prot
NCBI Gene 366270 ENTREZGENE
PANTHER PTHR13874 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Endothelin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Edn3 PhenoGen
PRINTS ENDOTHELIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE ENDOTHELIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART END UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt EDN3_RAT UniProtKB/Swiss-Prot
  F1LQB0_RAT UniProtKB/TrEMBL
  P13207 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-01-09 Edn3  endothelin 3  RGD1564825_predicted  similar to prepro-endothelin-3 (predicted)  Data Merged 1643240 APPROVED
2006-03-14 Edn3  endothelin 3  Edn3_mapped  endothelin 3 (mapped)  Symbol and Name updated 1299863 APPROVED
2006-03-07 RGD1564825_predicted  similar to prepro-endothelin-3 (predicted)  LOC502697  similar to prepro-endothelin-3  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC502697  similar to prepro-endothelin-3      Symbol and Name status set to provisional 70820 PROVISIONAL
2005-11-17 Edn3_mapped  endothelin 3 (mapped)  Edn3  endothelin 3  Symbol and Name updated 1556543 APPROVED
2002-06-10 Edn3  endothelin 3      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression 3.0kb prepro-endothelin 3 expressed in eye ball, submandibular gland, brain, kidney, jejunum, stomach and spleen 1578393
gene_expression 2.0kb mRNA is expressed in the eye ball and 3.3kb mRNA is expressed in small intestine 1578393
gene_expression expressed at high levels in hypothalamus 1299957
gene_physical_interaction interaction with the endothelin-B receptor is essential in the development of neural crest-derived cell lineages 61489
gene_process required for development of neural crest-derived cell lineages 61489
gene_transcript 2 isoforms produced by alternative splicing, a long form and a short form 61489