Ido1 (indoleamine 2,3-dioxygenase 1) - Rat Genome Database

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Gene: Ido1 (indoleamine 2,3-dioxygenase 1) Rattus norvegicus
Analyze
Symbol: Ido1
Name: indoleamine 2,3-dioxygenase 1
RGD ID: 619989
Description: Exhibits amino acid binding activity; indoleamine 2,3-dioxygenase activity; and oxygen binding activity. Involved in tryptophan catabolic process to kynurenine. Localizes to cytosol. Orthologous to human IDO1 (indoleamine 2,3-dioxygenase 1); PARTICIPATES IN tryptophan metabolic pathway; kynurenine metabolic pathway; sleeping sickness pathway; INTERACTS WITH ammonium chloride; atrazine; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: Ido; IDO-1; Indo; indoleamine 2,3-dioxygenase; indoleamine 23-dioxygenase; indoleamine-pyrrole 2,3 dioxygenase; indoleamine-pyrrole 2,3-dioxygenase
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
mRatBN7.21667,430,684 - 67,442,459 (+)NCBI
Rnor_6.0 Ensembl1672,216,326 - 72,228,098 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01672,216,326 - 72,228,098 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01671,866,330 - 71,878,339 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41671,866,340 - 71,878,373 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11671,866,604 - 71,878,638 (+)NCBI
Celera1665,330,156 - 65,341,814 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(S)-amphetamine  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4,6-trinitrobenzenesulfonic acid  (ISO)
3',5'-cyclic AMP  (ISO)
5-aza-2'-deoxycytidine  (ISO)
acetylsalicylic acid  (ISO)
acyclovir  (ISO)
ammonium chloride  (EXP)
anthranilic acid  (ISO)
arsenite(3-)  (ISO)
atrazine  (EXP)
bazedoxifene  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP)
buta-1,3-diene  (ISO)
butanal  (ISO)
cadmium dichloride  (EXP)
cannabidiol  (ISO)
carbon nanotube  (ISO)
chromium(6+)  (ISO)
cisplatin  (ISO)
curcumin  (ISO)
dextran sulfate  (ISO)
dorsomorphin  (ISO)
entinostat  (ISO)
gadodiamide hydrate  (ISO)
hyaluronic acid  (EXP)
hydrogen peroxide  (EXP)
indirubin-3'-monoxime  (ISO)
indole-3-methanol  (ISO)
kynurenine  (ISO)
L-tryptophan  (ISO)
lasofoxifene  (ISO)
lead diacetate  (ISO)
lipopolysaccharide  (ISO)
lithium atom  (ISO)
lithium chloride  (ISO)
lithium hydride  (ISO)
medroxyprogesterone acetate  (ISO)
muramyl dipeptide  (ISO)
N-nitrosodiethylamine  (EXP)
neopterin  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
nitric oxide  (ISO)
nitroglycerin  (EXP)
paracetamol  (ISO)
perfluorododecanoic acid  (EXP)
phenethyl caffeate  (EXP)
pirinixic acid  (ISO)
poly(I:C)  (ISO)
quercetin  (ISO)
raloxifene  (ISO)
resveratrol  (ISO)
Salinomycin  (ISO)
SB 431542  (ISO)
simvastatin  (ISO)
sulfasalazine  (ISO)
testosterone  (ISO)
testosterone enanthate  (ISO)
tetrachloromethane  (ISO)
trichostatin A  (ISO)
trimellitic anhydride  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)
XL147  (ISO)
zinc atom  (ISO)
zinc(0)  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Ara├║jo EF, etal., PLoS Pathog. 2016 Dec 19;12(12):e1006115. doi: 10.1371/journal.ppat.1006115. eCollection 2016 Dec.
2. Bessede A, etal., Nature. 2014 Jul 10;511(7508):184-90. doi: 10.1038/nature13323.
3. Cannazza G, etal., Neurochem Res. 2001 May;26(5):511-4.
4. Changsirivathanathamrong D, etal., Crit Care Med. 2011 Dec;39(12):2678-83. doi: 10.1097/CCM.0b013e31822827f2.
5. Collins JM, etal., JCI Insight. 2020 May 21;5(10). pii: 137131. doi: 10.1172/jci.insight.137131.
6. Dang Y, etal., Free Radic Biol Med. 2000 Feb 15;28(4):615-24.
7. De Luca A, etal., PLoS Pathog. 2013;9(7):e1003486. doi: 10.1371/journal.ppat.1003486. Epub 2013 Jul 11.
8. Fallarino F, etal., Immunobiology. 2015 Feb;220(2):315-21. doi: 10.1016/j.imbio.2014.09.017. Epub 2014 Sep 28.
9. Fox JM, etal., J Leukoc Biol. 2014 Sep;96(3):447-52. doi: 10.1189/jlb.3AB0114-046RR. Epub 2014 May 5.
10. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
11. Geisler S, etal., Int J Infect Dis. 2020 Feb;91:162-168. doi: 10.1016/j.ijid.2019.12.005. Epub 2019 Dec 9.
12. Guo G, etal., Cell Cycle. 2019 Oct;18(20):2598-2613. doi: 10.1080/15384101.2019.1652471. Epub 2019 Aug 15.
13. Hoshi M, etal., Infect Immun. 2014 Nov;82(11):4487-95. doi: 10.1128/IAI.02113-14. Epub 2014 Aug 11.
14. Huang L, etal., PLoS One. 2013 Jun 13;8(6):e66546. doi: 10.1371/journal.pone.0066546. Print 2013.
15. Juda MB, etal., Epilepsia. 2019 Apr;60(4):626-635. doi: 10.1111/epi.14675. Epub 2019 Feb 15.
16. KEGG
17. Littlejohn TK, etal., J Biol Chem 2003 Aug 8;278(32):29525-31. Epub 2003 May 24.
18. Maddison DC and Giorgini F, Semin Cell Dev Biol. 2015 Apr;40:134-41. doi: 10.1016/j.semcdb.2015.03.002. Epub 2015 Mar 12.
19. MGD data from the GO Consortium
20. Mukherjee T, etal., J Infect Dis. 2019 May 5;219(11):1841-1851. doi: 10.1093/infdis/jiz009.
21. NCBI rat LocusLink and RefSeq merged data July 26, 2002
22. Noh KT, etal., J Biol Chem. 2017 Feb 24;292(8):3290-3298. doi: 10.1074/jbc.M116.764464. Epub 2017 Jan 11.
23. Okayama A, etal., Toxicol Appl Pharmacol. 1988 Jul;94(3):356-61.
24. Peng K and Monack DM, Infect Immun. 2010 Jun;78(6):2723-33. doi: 10.1128/IAI.00008-10. Epub 2010 Apr 12.
25. Pipeline to import KEGG annotations from KEGG into RGD
26. Pipeline to import SMPDB annotations from SMPDB into RGD
27. Put K, etal., PLoS One. 2016 Feb 25;11(2):e0150075. doi: 10.1371/journal.pone.0150075. eCollection 2016.
28. RGD automated data pipeline
29. RGD automated import pipeline for gene-chemical interactions
30. Robinson CM, etal., J Interferon Cytokine Res 2003 Aug;23(8):413-21.
31. Schulz S, etal., Clin Exp Immunol. 2015 Jun;180(3):484-98. doi: 10.1111/cei.12586.
32. Staudacher A, etal., Allergy. 2015 Nov;70(11):1432-9. doi: 10.1111/all.12699. Epub 2015 Sep 2.
33. Too LK, etal., Behav Brain Res. 2014 Aug 15;270:179-95. doi: 10.1016/j.bbr.2014.05.018. Epub 2014 May 17.
34. Ufermann CM, etal., Front Cell Infect Microbiol. 2019 Jun 5;9:184. doi: 10.3389/fcimb.2019.00184. eCollection 2019.
35. Virok DP, etal., Front Cell Infect Microbiol. 2019 Jun 12;9:192. doi: 10.3389/fcimb.2019.00192. eCollection 2019.
36. Yeung AW, etal., Clin Sci (Lond). 2015 Oct;129(7):601-72. doi: 10.1042/CS20140392.
37. Zhong W, etal., Oncotarget. 2017 Jun 20;8(25):40486-40500. doi: 10.18632/oncotarget.17119.
38. Ziklo N, etal., BMC Infect Dis. 2019 Mar 4;19(1):218. doi: 10.1186/s12879-019-3843-4.
Additional References at PubMed
PMID:2419335   PMID:9712583   PMID:11751753   PMID:16319139   PMID:16477023   PMID:16688932   PMID:17645734   PMID:17671174   PMID:17868070   PMID:18077788   PMID:18436652   PMID:18475196  
PMID:18480171   PMID:19177450   PMID:19234212   PMID:19234218   PMID:19283707   PMID:19602041   PMID:19741271   PMID:19935463   PMID:19944758   PMID:22172881   PMID:22424783   PMID:22454246  
PMID:22751107   PMID:23607691   PMID:25310899   PMID:25498102   PMID:25829217   PMID:26506443   PMID:26636969   PMID:27366867   PMID:27870896   PMID:27994058   PMID:28118532   PMID:30736955  


Genomics

Comparative Map Data
Ido1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21667,430,684 - 67,442,459 (+)NCBI
Rnor_6.0 Ensembl1672,216,326 - 72,228,098 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01672,216,326 - 72,228,098 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01671,866,330 - 71,878,339 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41671,866,340 - 71,878,373 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11671,866,604 - 71,878,638 (+)NCBI
Celera1665,330,156 - 65,341,814 (+)NCBICelera
Cytogenetic Map16q12.5NCBI
IDO1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl839,902,275 - 39,928,790 (+)EnsemblGRCh38hg38GRCh38
GRCh38839,913,891 - 39,928,790 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh37839,771,410 - 39,786,309 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36839,890,485 - 39,905,107 (+)NCBINCBI36hg18NCBI36
Build 34839,890,484 - 39,905,102NCBI
Celera838,723,061 - 38,737,682 (+)NCBI
Cytogenetic Map8p11.21NCBI
HuRef838,304,038 - 38,319,017 (+)NCBIHuRef
CHM1_1839,817,930 - 39,832,909 (+)NCBICHM1_1
Ido1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39825,074,149 - 25,086,968 (-)NCBIGRCm39mm39
GRCm39 Ensembl825,074,152 - 25,087,025 (-)Ensembl
GRCm38824,584,133 - 24,596,952 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl824,584,136 - 24,597,009 (-)EnsemblGRCm38mm10GRCm38
MGSCv37825,694,613 - 25,707,481 (-)NCBIGRCm37mm9NCBIm37
MGSCv36826,049,686 - 26,062,554 (-)NCBImm8
Celera826,068,313 - 26,081,132 (-)NCBICelera
Cytogenetic Map8A2NCBI
Ido1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555362,943,611 - 2,955,829 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555362,944,770 - 2,955,829 (-)NCBIChiLan1.0ChiLan1.0
IDO1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1836,606,721 - 36,632,371 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl836,617,312 - 36,632,352 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0839,108,310 - 39,123,611 (+)NCBIMhudiblu_PPA_v0panPan3
IDO1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11625,391,759 - 25,407,161 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1625,391,754 - 25,407,048 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1625,901,596 - 25,916,857 (-)NCBI
ROS_Cfam_1.01627,218,925 - 27,234,204 (-)NCBI
UMICH_Zoey_3.11625,516,922 - 25,532,182 (-)NCBI
UNSW_CanFamBas_1.01626,072,694 - 26,087,946 (-)NCBI
UU_Cfam_GSD_1.01626,131,508 - 26,146,796 (-)NCBI
Ido1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494348,593,856 - 48,608,521 (-)NCBI
SpeTri2.0NW_004936843658,058 - 672,662 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IDO1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl179,245,196 - 9,260,491 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1179,245,283 - 9,260,140 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21710,913,978 - 10,928,837 (-)NCBISscrofa10.2Sscrofa10.2susScr3
IDO1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1837,930,910 - 37,950,790 (+)NCBI
ChlSab1.1 Ensembl837,930,562 - 37,946,505 (+)Ensembl
Vero_WHO_p1.0NW_0236660523,981,103 - 3,996,711 (-)NCBI
Ido1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247803,684,941 - 3,697,506 (-)NCBI


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)16109005486162972Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)162075555680316424Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)162751998072519980Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162834031573340315Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163900002184000021Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)164151271086512710Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)164151271086512710Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164655818890668790Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165781635790668790Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165781635790668790Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165781635790668790Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165928577589248943Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:18
Count of miRNA genes:18
Interacting mature miRNAs:18
Transcripts:ENSRNOT00000051363
Prediction methods: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 hemolymphoid system nervous system renal system reproductive system respiratory system
High
Medium
Low 2 1 8 8 7
Below cutoff 1 8 1 6 2 1 8 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000051363   ⟹   ENSRNOP00000050320
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1672,216,326 - 72,228,098 (+)Ensembl
RefSeq Acc Id: NM_023973   ⟹   NP_076463
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21667,430,684 - 67,442,459 (+)NCBI
Rnor_6.01672,216,326 - 72,228,098 (+)NCBI
Rnor_5.01671,866,330 - 71,878,339 (+)NCBI
RGSC_v3.41671,866,340 - 71,878,373 (+)RGD
Celera1665,330,156 - 65,341,814 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_076463 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAG30573 (Get FASTA)   NCBI Sequence Viewer  
  EDM09039 (Get FASTA)   NCBI Sequence Viewer  
  Q9ERD9 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_076463   ⟸   NM_023973
- UniProtKB: Q9ERD9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000050320   ⟸   ENSRNOT00000051363

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)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
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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:619989 AgrOrtholog
Ensembl Genes ENSRNOG00000031189 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000050320 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000051363 ENTREZGENE, UniProtKB/TrEMBL
InterPro Indolamine_dOase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Trp/Indoleamine_2_3_dOase-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:66029 UniProtKB/Swiss-Prot
NCBI Gene 66029 ENTREZGENE
PANTHER PTHR28657 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam IDO UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ido1 PhenoGen
PROSITE IDO_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IDO_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF140959 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt F1LMC9_RAT UniProtKB/TrEMBL
  I23O1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2009-02-04 Ido1  indoleamine 2,3-dioxygenase 1  Indo  indoleamine-pyrrole 2,3 dioxygenase  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-30 Indo  indoleamine-pyrrole 2,3 dioxygenase    indoleamine 2,3-dioxygenase  Name updated 1299863 APPROVED
2004-09-10 Indo  indoleamine 2,3-dioxygenase  Ido    Symbol and Name updated 1299863 APPROVED
2002-08-07 Ido  indoleamine 2,3-dioxygenase      Symbol and Name status set to provisional 70820 PROVISIONAL