Egln1 (egl-9 family hypoxia-inducible factor 1) - Rat Genome Database

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Gene: Egln1 (egl-9 family hypoxia-inducible factor 1) Rattus norvegicus
Analyze
Symbol: Egln1
Name: egl-9 family hypoxia-inducible factor 1
RGD ID: 631375
Description: Exhibits enzyme binding activity and peptidyl-proline dioxygenase activity. Involved in several processes, including negative regulation of CAMKK-AMPK signaling cascade; negative regulation of cyclic-nucleotide phosphodiesterase activity; and positive regulation of cell death. Localizes to cytosol. Used to study hypertension. Biomarker of acute kidney failure and myocardial infarction. Human ortholog(s) of this gene implicated in familial erythrocytosis 3; polycythemia; and renal cell carcinoma. Orthologous to human EGLN1 (egl-9 family hypoxia inducible factor 1); PARTICIPATES IN hypoxia inducible factor pathway; vascular endothelial growth factor signaling pathway; renal cell carcinoma pathway; INTERACTS WITH 2,6-dinitrotoluene; ammonium chloride; astemizole.
Type: protein-coding
RefSeq Status: MODEL
Also known as: egl nine homolog 1; EGL nine homolog 1 (C. elegans); HIF-PH2; HIF-prolyl hydroxylase 2; HPH-2; hypoxia-inducible factor prolyl hydroxylase 2; LOW QUALITY PROTEIN: egl nine homolog 1; PHD-2; PHD2; prolyl hydroxylase domain-containing protein 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21952,867,914 - 52,907,169 (-)NCBI
Rnor_6.0 Ensembl1957,662,278 - 57,699,113 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01957,660,194 - 57,701,158 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01968,373,433 - 68,412,983 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41955,080,670 - 55,118,226 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11955,086,125 - 55,122,813 (-)NCBI
Celera1952,235,066 - 52,273,829 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(+)-catechin  (ISO)
1,10-phenanthroline  (ISO)
17alpha-ethynylestradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,6-dinitrotoluene  (EXP)
2-hydroxypropanoic acid  (ISO)
5-chloro-7-iodoquinolin-8-ol  (ISO)
all-trans-retinoic acid  (ISO)
alpha-naphthoflavone  (ISO)
ammonium chloride  (EXP)
andrographolide  (ISO)
antirheumatic drug  (ISO)
astemizole  (EXP)
atrazine  (ISO)
Azaspiracid  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bilirubin IXalpha  (ISO)
bisphenol A  (EXP)
bromobenzene  (EXP)
calcitriol  (ISO)
chlorpyrifos  (ISO)
cisplatin  (ISO)
cobalt dichloride  (EXP,ISO)
cobalt(2+) sulfate  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
cyclosporin A  (ISO)
desferrioxamine B  (ISO)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
dinophysistoxin 1  (ISO)
dioxygen  (EXP,ISO)
entinostat  (ISO)
ethanol  (ISO)
ethyl methanesulfonate  (ISO)
fluoranthene  (ISO)
formaldehyde  (ISO)
genistein  (ISO)
iron atom  (ISO)
iron(0)  (ISO)
iron(2+) sulfate (anhydrous)  (ISO)
L-ascorbic acid  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
minocycline  (ISO)
motexafin gadolinium  (ISO)
myricetin  (ISO)
N,N,N',N'-tetrakis(2-pyridylmethyl)ethylenediamine  (ISO)
N-benzyloxycarbonyl-L-leucyl-L-leucyl-L-leucinal  (ISO)
N-methyl-4-phenylpyridinium  (EXP)
nickel dichloride  (EXP,ISO)
nickel subsulfide  (ISO)
okadaic acid  (ISO)
oxidopamine  (EXP)
paracetamol  (ISO)
quercetin  (ISO)
quercetin 3-O-beta-D-glucofuranoside  (EXP)
quercetin 3-O-beta-D-glucopyranoside  (EXP)
rac-lactic acid  (ISO)
resveratrol  (ISO)
rutin  (EXP)
SB 431542  (EXP)
sunitinib  (ISO)
Tesaglitazar  (EXP)
thimerosal  (ISO)
torcetrapib  (ISO)
triphenyl phosphate  (EXP)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
vorinostat  (ISO)
zinc acetate  (ISO)
zinc atom  (ISO)
zinc dichloride  (ISO)
zinc sulfate  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
1. Albiero E, etal., Haematologica. 2012 Jan;97(1):123-7. doi: 10.3324/haematol.2010.039545. Epub 2011 Aug 9.
2. Arsenault PR, etal., J Biol Chem. 2013 Nov 22;288(47):33571-84. doi: 10.1074/jbc.M113.482364. Epub 2013 Oct 11.
3. Bento C, etal., Eur J Haematol. 2013 Oct;91(4):361-8. doi: 10.1111/ejh.12170. Epub 2013 Aug 20.
4. Bruick RK Genes Dev 2003 Nov 1;17(21):2614-23.
5. Charchar FJ, etal., Hypertension. 2010 May;55(5):1231-8. doi: 10.1161/HYPERTENSIONAHA.109.141663. Epub 2010 Mar 15.
6. Chen YR, etal., Acta Biochim Biophys Sin (Shanghai). 2006 Jun;38(6):423-34.
7. D'Angelo G, etal., J Biol Chem 2003 Oct 3;278(40):38183-7.
8. Fallon MJ and MacDonald MJ, Metabolism. 2008 Aug;57(8):1148-54.
9. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
10. GOA data from the GO Consortium
11. Han WQ, etal., Biochim Biophys Acta. 2013 Jun;1833(6):1454-62. doi: 10.1016/j.bbamcr.2013.02.029. Epub 2013 Mar 1.
12. Huo Z, etal., Biochem Biophys Res Commun. 2012 Oct 12;427(1):73-9. doi: 10.1016/j.bbrc.2012.09.005. Epub 2012 Sep 10.
13. Hyvarinen J, etal., J Biol Chem. 2010 Apr 30;285(18):13646-57. doi: 10.1074/jbc.M109.084855. Epub 2010 Feb 25.
14. Ladroue C, etal., Haematologica. 2012 Jan;97(1):9-14. doi: 10.3324/haematol.2011.044644. Epub 2011 Sep 20.
15. Lipscomb EA, etal., J Neurochem. 1999 Jul;73(1):429-32.
16. Loboda A, etal., Mol Cells. 2010 May;29(5):435-42. Epub 2010 Apr 12.
17. Minamishima YA, etal., Blood. 2008 Mar 15;111(6):3236-44. Epub 2007 Dec 20.
18. OMIM Disease Annotation Pipeline
19. Percy MJ, etal., Proc Natl Acad Sci U S A. 2006 Jan 17;103(3):654-9. Epub 2006 Jan 9.
20. Pipeline to import KEGG annotations from KEGG into RGD
21. Pipeline to import Pathway Interaction Database annotations from NCI into RGD
22. Rahtu-Korpela L, etal., Arterioscler Thromb Vasc Biol. 2016 Apr;36(4):608-17. doi: 10.1161/ATVBAHA.115.307136. Epub 2016 Feb 4.
23. RGD automated data pipeline
24. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
25. RGD automated import pipeline for gene-chemical interactions
26. Schodel J, etal., Am J Pathol. 2009 May;174(5):1663-74. doi: 10.2353/ajpath.2009.080687. Epub 2009 Apr 6.
27. Semenza GL Physiology (Bethesda). 2009 Apr;24:97-106.
28. Straub JA, etal., J Neurochem. 2003 Apr;85(2):318-28.
29. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
30. Wang Z, etal., Hypertension. 2010 May;55(5):1129-36. Epub 2010 Mar 22.
31. Willam C, etal., J Mol Cell Cardiol. 2006 Jul;41(1):68-77.
32. Yan H, etal., J Cell Mol Med. 2012 Sep;16(9):2049-59. doi: 10.1111/j.1582-4934.2011.01500.x.
33. Yi Y, etal., Clin Cancer Res. 2010 Nov 1;16(21):5142-52. doi: 10.1158/1078-0432.CCR-09-3416. Epub 2010 Oct 26.
34. Zhu Q, etal., J Cell Mol Med. 2012 Nov;16(11):2701-7. doi: 10.1111/j.1582-4934.2012.01590.x.
Additional References at PubMed
PMID:8889548   PMID:11598268   PMID:12615973   PMID:12788921   PMID:16956324   PMID:16966370   PMID:17129494   PMID:18500250   PMID:18651560   PMID:19420289   PMID:21601578   PMID:21825224  
PMID:22286099   PMID:22955912   PMID:24190904   PMID:24695462   PMID:25635047   PMID:25975603   PMID:26681021   PMID:26765925   PMID:26818499   PMID:26972007   PMID:28594552   PMID:29158549  
PMID:29355756   PMID:29471019   PMID:31998438   PMID:32179740  


Genomics

Comparative Map Data
Egln1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21952,867,914 - 52,907,169 (-)NCBI
Rnor_6.0 Ensembl1957,662,278 - 57,699,113 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01957,660,194 - 57,701,158 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01968,373,433 - 68,412,983 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41955,080,670 - 55,118,226 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11955,086,125 - 55,122,813 (-)NCBI
Celera1952,235,066 - 52,273,829 (-)NCBICelera
Cytogenetic Map19q12NCBI
EGLN1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1231,363,751 - 231,422,287 (-)EnsemblGRCh38hg38GRCh38
GRCh381231,363,756 - 231,422,332 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371231,499,502 - 231,558,033 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361229,568,054 - 229,627,413 (-)NCBINCBI36hg18NCBI36
Build 341227,808,165 - 227,867,525NCBI
Celera1204,764,347 - 204,825,640 (-)NCBI
Cytogenetic Map1q42.2NCBI
HuRef1201,982,787 - 202,043,989 (-)NCBIHuRef
CHM1_11232,773,121 - 232,834,670 (-)NCBICHM1_1
Egln1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398125,635,326 - 125,675,993 (-)NCBIGRCm39mm39
GRCm39 Ensembl8125,635,326 - 125,676,063 (-)Ensembl
GRCm388124,908,587 - 124,949,254 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8124,908,587 - 124,949,324 (-)EnsemblGRCm38mm10GRCm38
MGSCv378127,432,487 - 127,473,154 (-)NCBIGRCm37mm9NCBIm37
MGSCv368127,794,676 - 127,801,870 (-)NCBImm8
Celera8129,217,254 - 129,257,497 (-)NCBICelera
Cytogenetic Map8E2NCBI
Egln1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554927,407,800 - 7,454,851 (+)NCBIChiLan1.0ChiLan1.0
EGLN1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11211,939,543 - 211,997,325 (-)NCBIpanpan1.1PanPan1.1panPan2
Mhudiblu_PPA_v01206,915,541 - 206,976,656 (-)NCBIMhudiblu_PPA_v0panPan3
EGLN1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.148,053,486 - 8,110,791 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl48,053,837 - 8,109,325 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha48,045,638 - 8,103,130 (+)NCBI
ROS_Cfam_1.048,078,966 - 8,136,243 (+)NCBI
UMICH_Zoey_3.148,082,361 - 8,139,616 (+)NCBI
UNSW_CanFamBas_1.048,204,144 - 8,261,586 (+)NCBI
UU_Cfam_GSD_1.048,432,143 - 8,489,997 (+)NCBI
Egln1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934443,178,544 - 43,220,861 (+)NCBI
SpeTri2.0NW_00493648419,343,770 - 19,386,087 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
EGLN1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1459,112,899 - 59,168,395 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11459,113,527 - 59,168,421 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21463,786,901 - 63,840,214 (+)NCBISscrofa10.2Sscrofa10.2susScr3
EGLN1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12568,624,754 - 68,685,961 (-)NCBI
ChlSab1.1 Ensembl2568,625,260 - 68,682,804 (-)Ensembl
Egln1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462477518,325,135 - 18,369,504 (+)NCBI

Position Markers
AI503754  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21754,345,171 - 54,345,273 (+)MAPPER
Rnor_6.01757,130,351 - 57,130,452NCBIRnor6.0
Rnor_5.01755,162,176 - 55,162,277UniSTSRnor5.0
RGSC_v3.41762,878,179 - 62,878,280UniSTSRGSC3.4
Celera1750,325,356 - 50,325,457UniSTS
Cytogenetic Map19q12UniSTS
RH129177  
Rat AssemblyChrPosition (strand)SourceJBrowse
Celera1750,325,270 - 50,325,419UniSTS
Celera1952,236,817 - 52,236,966UniSTS
Cytogenetic Map19q12UniSTS
RH143878  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21952,874,004 - 52,874,111 (+)MAPPER
Rnor_6.01957,666,299 - 57,666,405NCBIRnor6.0
Rnor_5.01968,379,538 - 68,379,644UniSTSRnor5.0
RGSC_v3.41955,085,266 - 55,085,372UniSTSRGSC3.4
Celera1952,241,171 - 52,241,277UniSTS
RH 3.4 Map19723.4UniSTS
Cytogenetic Map19q12UniSTS
RH143920  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0628,669,343 - 28,669,528UniSTSRnor5.0
RGSC_v3.47194,033 - 194,218UniSTSRGSC3.4
Celera6380,891 - 381,076UniSTS
RH 3.4 Map3209.72UniSTS
Cytogenetic Map19q12UniSTS
AI178936  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21952,903,444 - 52,903,639 (+)MAPPER
Rnor_6.01957,696,057 - 57,696,251NCBIRnor6.0
Rnor_5.01968,409,429 - 68,409,623UniSTSRnor5.0
RGSC_v3.41955,114,876 - 55,115,070UniSTSRGSC3.4
Celera1952,270,425 - 52,270,619UniSTS
RH 3.4 Map19727.8UniSTS
Cytogenetic Map19q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19243296362275575Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19650676160220581Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191899398262275575Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191917749562275575Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)192140778762275575Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192481825762275575Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)193299439262275575Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193791679960220451Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193791679960220451Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194883071260220581Rat
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)195473521758072143Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:216
Count of miRNA genes:145
Interacting mature miRNAs:171
Transcripts:ENSRNOT00000026767
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


Expression


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

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 43 57 41 19 41 8 11 74 35 41 11 8
Low
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000026767   ⟹   ENSRNOP00000026767
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1957,662,278 - 57,699,113 (-)Ensembl
RefSeq Acc Id: XM_002725436   ⟹   XP_002725482
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Celera1952,235,066 - 52,273,829 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008772679   ⟹   XP_008770901
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01957,660,194 - 57,701,158 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039098215   ⟹   XP_038954143
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21952,867,914 - 52,907,169 (-)NCBI
Protein Sequences
Protein RefSeqs XP_038954143 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH81694 (Get FASTA)   NCBI Sequence Viewer  
  AAO34711 (Get FASTA)   NCBI Sequence Viewer  
  EDL96749 (Get FASTA)   NCBI Sequence Viewer  
  P59722 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_002725482   ⟸   XM_002725436
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_008770901   ⟸   XM_008772679
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000026767   ⟸   ENSRNOT00000026767
RefSeq Acc Id: XP_038954143   ⟸   XM_039098215
Protein Domains
Fe2OG dioxygenase

Transcriptome

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


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)
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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)
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
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
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:631375 AgrOrtholog
Ensembl Genes ENSRNOG00000019773 Ensembl, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000026767 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000026767 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7189949 IMAGE-MGC_LOAD
InterPro Oxoglu/Fe-dep_dioxygenase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pro_4_hyd_alph UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:308913 UniProtKB/Swiss-Prot
MGC_CLONE MGC:93066 IMAGE-MGC_LOAD
NCBI Gene 308913 ENTREZGENE
Pfam 2OG-FeII_Oxy_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Egln1 PhenoGen
PROSITE FE2OG_OXY UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART P4Hc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A140TAD9_RAT UniProtKB/TrEMBL
  EGLN1_RAT UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q642G6 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-09-16 Egln1  egl-9 family hypoxia-inducible factor 1  Egln1  EGL nine homolog 1 (C. elegans)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2004-02-11 Elgn1  EGL nine homolog 1 (C. elegans)      Symbol and Name status set to approved 625702 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_regulation expression increased by hypoxia 727754