Pdx1 (pancreatic and duodenal homeobox 1) - Rat Genome Database

Send us a Message

Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Pdx1 (pancreatic and duodenal homeobox 1) Rattus norvegicus
Symbol: Pdx1
Name: pancreatic and duodenal homeobox 1
RGD ID: 62387
Description: Enables DNA-binding transcription factor activity; promoter-specific chromatin binding activity; and sequence-specific DNA binding activity. Contributes to DNA-binding transcription factor activity, RNA polymerase II-specific. Involved in several processes, including positive regulation of insulin secretion; regulation of DNA-templated transcription; and transdifferentiation. Predicted to be located in nuclear speck. Predicted to be active in nucleus. Biomarker of acute necrotizing pancreatitis; hyperglycemia; placental insufficiency; and type 2 diabetes mellitus. Human ortholog(s) of this gene implicated in cerebral infarction; hyperglycemia; maturity-onset diabetes of the young type 4; pancreatic agenesis; and type 2 diabetes mellitus. Orthologous to human PDX1 (pancreatic and duodenal homeobox 1); PARTICIPATES IN forkhead class A signaling pathway; maturity-onset diabetes of the young pathway; type 2 diabetes mellitus pathway; INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; 3-aminobenzamide.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: IDX-1; Idx1; Insulin promoter factor 1; insulin promotor factor 1; IPF-1; Ipf1; islet/duodenum homeobox 1; islet/duodenum homeobox-1; pancreas/duodenum homeobox protein 1; pancreatic and duodenal homeobox gene 1; somatostatin transactivating factor 1; somatostatin-transactivating factor 1; STF-1; Stf1
RGD Orthologs
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Rat AssemblyChrPosition (strand)SourceGenome Browsers
mRatBN7.2127,757,865 - 7,763,064 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl127,757,865 - 7,763,064 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx128,444,089 - 8,449,310 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0129,067,243 - 9,072,462 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0128,095,256 - 8,100,469 (-)NCBIRnor_WKY
Rnor_6.0129,496,044 - 9,501,211 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl129,496,044 - 9,501,213 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01211,609,488 - 11,614,655 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera129,495,501 - 9,500,668 (-)NCBICelera
Cytogenetic Map12p11NCBI
JBrowse: View Region in Genome Browser (JBrowse)

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
3-aminobenzamide  (EXP)
4-phenylbutyric acid  (ISO)
5-fluorouracil  (ISO)
6-chloro-2,3,4,9-tetrahydro-1H-carbazole-1-carboxamide  (ISO)
9-cis-retinoic acid  (EXP,ISO)
acetic acid  (ISO)
acrylamide  (EXP)
aldehydo-D-glucose  (EXP,ISO)
all-trans-retinoic acid  (ISO)
all-trans-retinol  (ISO)
alloxan  (EXP)
amiloride  (ISO)
arsane  (EXP)
arsenic atom  (EXP)
arsenite(3-)  (ISO)
benzene  (EXP)
benzo[a]pyrene  (ISO)
bezafibrate  (EXP)
bis(2-ethylhexyl) phthalate  (EXP)
bisphenol A  (EXP,ISO)
boric acid  (ISO)
bromochloroacetic acid  (ISO)
calyculin a  (ISO)
cannabidiol  (EXP)
capsaicin  (EXP)
choline  (ISO)
cytochalasin D  (ISO)
D-glucose  (EXP,ISO)
dexamethasone  (EXP)
diazoxide  (EXP)
diethylstilbestrol  (EXP)
disodium selenite  (ISO)
ebselen  (ISO)
flavonoids  (EXP)
folic acid  (ISO)
fonofos  (ISO)
fructose  (EXP)
fulvestrant  (ISO)
furan  (EXP)
gallic acid  (ISO)
Geniposide  (EXP)
Ginsenoside Rh4  (EXP,ISO)
glucose  (EXP,ISO)
harmine  (ISO)
hexadecanoic acid  (EXP,ISO)
L-methionine  (ISO)
LY294002  (ISO)
Magnolol  (EXP)
metformin  (ISO)
methylglyoxal  (EXP)
Nonylphenol  (EXP)
okadaic acid  (ISO)
paracetamol  (EXP)
parathion  (ISO)
perfluorodecanoic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctanoic acid  (ISO)
potassium dichromate  (ISO)
quercetin  (EXP)
reactive oxygen species  (EXP)
resveratrol  (EXP,ISO)
SB 203580  (ISO)
selenic acid  (ISO)
sodium arsenite  (EXP,ISO)
streptozocin  (ISO)
terbufos  (ISO)
tributylstannane  (EXP)
wortmannin  (ISO)
zinc atom  (EXP)
zinc(0)  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
animal organ regeneration  (IEP)
cell differentiation  (IMP)
cell population proliferation  (ISO)
digestive tract development  (ISO)
DNA-templated transcription  (IMP)
endocrine pancreas development  (ISO)
enteroendocrine cell differentiation  (ISO)
epithelial cell proliferation  (ISO)
exocrine pancreas development  (ISO)
glucose homeostasis  (ISO)
glucose mediated signaling pathway  (IDA)
glucose metabolic process  (ISO)
insulin secretion  (ISO)
intrinsic apoptotic signaling pathway in response to endoplasmic reticulum stress  (ISO)
liver development  (ISO)
morphogenesis of embryonic epithelium  (ISO)
negative regulation of cell population proliferation  (ISO)
negative regulation of DNA-templated transcription  (IMP)
negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway  (ISO)
negative regulation of epithelial cell proliferation  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
negative regulation of type B pancreatic cell apoptotic process  (ISO)
nitric oxide mediated signal transduction  (ISO)
pancreas development  (IEP,ISO)
positive regulation of cell population proliferation  (IMP)
positive regulation of DNA binding  (IMP)
positive regulation of DNA-templated transcription  (IMP,ISO)
positive regulation of insulin secretion  (IMP,ISO,ISS)
positive regulation of insulin secretion involved in cellular response to glucose stimulus  (ISO)
positive regulation of response to biotic stimulus  (IMP)
positive regulation of transcription by RNA polymerase II  (IDA,IMP,ISO)
positive regulation of type B pancreatic cell proliferation  (ISO)
regulation of cell population proliferation  (ISO)
regulation of DNA-templated transcription  (TAS)
regulation of gene expression  (IMP)
regulation of transcription by RNA polymerase II  (IBA,ISO)
response to alkaloid  (IEP)
response to chlorate  (IEP)
response to cytokine  (IEP)
response to fatty acid  (IEP)
response to glucocorticoid  (IEP)
response to glucose  (IEP,IMP)
response to iron(II) ion  (IEP)
response to leucine  (IEP)
response to lipid  (IEP)
response to nicotine  (IEP)
response to nutrient levels  (IEP)
response to organic cyclic compound  (IEP)
response to vitamin  (IEP)
response to xenobiotic stimulus  (IEP)
smoothened signaling pathway  (IMP)
stem cell differentiation  (IEP,IMP)
transcription by RNA polymerase II  (IMP)
transdifferentiation  (IEP)
type B pancreatic cell apoptotic process  (ISO)
type B pancreatic cell differentiation  (IBA,IMP,ISO)
type B pancreatic cell proliferation  (ISO)

Cellular Component
cytosol  (IEA)
nuclear speck  (ISO)
nucleoplasm  (ISO)
nucleus  (IBA,ISO)

Molecular Pathway Annotations     Click to see Annotation Detail View

References - curated
# Reference Title Reference Citation
1. beta-cell-specific inactivation of the mouse Ipf1/Pdx1 gene results in loss of the beta-cell phenotype and maturity onset diabetes. Ahlgren U, etal., Genes Dev. 1998 Jun 15;12(12):1763-8.
2. Pax6 and Pdx1 form a functional complex on the rat somatostatin gene upstream enhancer. Andersen FG, etal., FEBS Lett. 1999 Feb 26;445(2-3):315-20.
3. Palmitic acid increase levels of pancreatic duodenal homeobox-1 and p38/stress-activated protein kinase in islets from rats maintained on a low protein diet. Arantes VC, etal., Br J Nutr. 2006 Dec;96(6):1006-12.
4. A hierarchical analysis of transcriptome alterations in intrauterine growth restriction (IUGR) reveals common pathophysiological pathways in mammals. Buffat C, etal., J Pathol. 2007 Nov;213(3):337-46.
5. High glucose is necessary for complete maturation of Pdx1-VP16-expressing hepatic cells into functional insulin-producing cells. Cao LZ, etal., Diabetes. 2004 Dec;53(12):3168-78.
6. A Comprehensive Analysis of Cytokine-induced and Nuclear Factor-kappa B-dependent Genes in Primary Rat Pancreatic beta -Cells. Cardozo AK, etal., J Biol Chem 2001 Dec 28;276(52):48879-86.
7. Reversal of streptozotocin-induced diabetes in rats by gene therapy with betacellulin and pancreatic duodenal homeobox-1. Chen S, etal., Gene Ther. 2007 Jul;14(14):1102-10. Epub 2007 Apr 26.
8. Role of the mitogen-activated protein kinases in cytokine-mediated inhibition of insulin gene expression. Chin-Chance CV, etal., J Investig Med. 2006 Apr;54(3):132-42.
9. Involvement of Per-Arnt-Sim (PAS) kinase in the stimulation of preproinsulin and pancreatic duodenum homeobox 1 gene expression by glucose. da Silva Xavier G, etal., Proc Natl Acad Sci U S A. 2004 Jun 1;101(22):8319-24. Epub 2004 May 17.
10. Functional and molecular defects of pancreatic islets in human type 2 diabetes. Del Guerra S, etal., Diabetes. 2005 Mar;54(3):727-35.
11. Different mechanisms operating during different critical time-windows reduce rat fetal beta cell mass due to a maternal low-protein or low-energy diet. Dumortier O, etal., Diabetologia. 2007 Dec;50(12):2495-503. Epub 2007 Sep 19.
12. PDX:PBX complexes are required for normal proliferation of pancreatic cells during development. Dutta S, etal., Proc Natl Acad Sci U S A. 2001 Jan 30;98(3):1065-70. Epub 2001 Jan 16.
13. PDX-1 expression is associated with islet proliferation in vitro and in vivo. Feanny MA, etal., J Surg Res. 2008 Jan;144(1):8-16. Epub 2007 Jun 20.
14. Pancreatic and duodenal homeobox gene 1 induces expression of insulin genes in liver and ameliorates streptozotocin-induced hyperglycemia. Ferber S, etal., Nat Med. 2000 May;6(5):568-72.
15. Adult rat liver cells transdifferentiated with lentiviral IPF1 vectors reverse diabetes in mice: an ex vivo gene therapy approach. Fodor A, etal., Diabetologia. 2007 Jan;50(1):121-30. Epub 2006 Nov 28.
16. Pax6 and Pdx1 are required for production of glucose-dependent insulinotropic polypeptide in proglucagon-expressing L cells. Fujita Y, etal., Am J Physiol Endocrinol Metab. 2008 Sep;295(3):E648-57. Epub 2008 Jul 1.
17. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
18. Oligonucleotide microarray analysis reveals PDX1 as an essential regulator of mitochondrial metabolism in rat islets. Gauthier BR, etal., J Biol Chem. 2004 Jul 23;279(30):31121-30. Epub 2004 May 19.
19. NKX6.1 promotes PDX-1-induced liver to pancreatic beta-cells reprogramming. Gefen-Halevi S, etal., Cell Reprogram. 2010 Dec;12(6):655-64. doi: 10.1089/cell.2010.0030.
20. Dissecting the role of glucocorticoids on pancreas development. Gesina E, etal., Diabetes. 2004 Sep;53(9):2322-9.
21. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
22. Cyclical and alternating infusions of glucose and intralipid in rats inhibit insulin gene expression and Pdx-1 binding in islets. Hagman DK, etal., Diabetes. 2008 Feb;57(2):424-31. Epub 2007 Nov 8.
23. Defective mutations in the insulin promoter factor-1 (IPF-1) gene in late-onset type 2 diabetes mellitus. Hani EH, etal., J Clin Invest. 1999 Nov;104(9):R41-8.
24. In vivo prevention of hyperglycemia also prevents glucotoxic effects on PDX-1 and insulin gene expression. Harmon JS, etal., Diabetes. 1999 Oct;48(10):1995-2000.
25. Expression of Groucho/TLE proteins during pancreas development. Hoffman BG, etal., BMC Dev Biol. 2008 Sep 8;8:81.
26. Effect of aging on insulin secretory function and expression of beta cell function-related genes of islets. Ihm SH, etal., Diabetes Res Clin Pract. 2007 Sep;77 Suppl 1:S150-4. Epub 2007 Apr 30.
27. Cholesterol accumulation and diabetes in pancreatic beta-cell-specific SREBP-2 transgenic mice: a new model for lipotoxicity. Ishikawa M, etal., J Lipid Res. 2008 Dec;49(12):2524-34. Epub 2008 Aug 5.
28. Enhanced beta-cell mass without increased proliferation following chronic mild glucose infusion. Jetton TL, etal., Am J Physiol Endocrinol Metab. 2008 Apr;294(4):E679-87. Epub 2008 Jan 29.
29. Mechanisms of compensatory beta-cell growth in insulin-resistant rats: roles of Akt kinase. Jetton TL, etal., Diabetes. 2005 Aug;54(8):2294-304.
30. Rat alpha-fetoprotein heterogeneity. Comparative chemical study of the two electrophoretic variants and their Ricinus lectin-binding properties. Kerckaert JP, etal., Biochim Biophys Acta 1977 Aug 23;493(2):293-303.
31. Combined expression of pancreatic duodenal homeobox 1 and islet factor 1 induces immature enterocytes to produce insulin. Kojima H, etal., Diabetes 2002 May;51(5):1398-408.
32. Conophylline: a novel differentiation inducer for pancreatic beta cells. Kojima I and Umezawa K, Int J Biochem Cell Biol. 2006;38(5-6):923-30. Epub 2005 Oct 26.
33. c-Kit in early onset of diabetes: a morphological and functional analysis of pancreatic beta-cells in c-KitW-v mutant mice. Krishnamurthy M, etal., Endocrinology. 2007 Nov;148(11):5520-30. Epub 2007 Aug 2.
34. Long-term consumption of fermented soybean-derived Chungkookjang enhances insulinotropic action unlike soybeans in 90% pancreatectomized diabetic rats. Kwon DY, etal., Eur J Nutr. 2007 Feb;46(1):44-52. Epub 2007 Jan 2.
35. Influence of diabetes on the loss of beta cell differentiation after islet transplantation in rats. Laybutt DR, etal., Diabetologia. 2007 Oct;50(10):2117-25. Epub 2007 Jul 20.
36. Critical reduction in beta-cell mass results in two distinct outcomes over time. Adaptation with impaired glucose tolerance or decompensated diabetes. Laybutt DR, etal., J Biol Chem. 2003 Jan 31;278(5):2997-3005. Epub 2002 Nov 15.
37. Characterization of somatostatin transactivating factor-1, a novel homeobox factor that stimulates somatostatin expression in pancreatic islet cells. Leonard J, etal., Mol Endocrinol 1993 Oct;7(10):1275-83.
38. Adeno-associated virus-mediated pancreatic and duodenal homeobox gene-1 expression enhanced differentiation of hepatic oval stem cells to insulin-producing cells in diabetic rats. Li H, etal., J Biomed Sci. 2008 Jul;15(4):487-97. Epub 2008 Feb 6.
39. Activin A and betacellulin: effect on regeneration of pancreatic beta-cells in neonatal streptozotocin-treated rats. Li L, etal., Diabetes 2004 Mar;53(3):608-15.
40. Coexpression of Pdx1 and betacellulin in mesenchymal stem cells could promote the differentiation of nestin-positive epithelium-like progenitors and pancreatic islet-like spheroids. Li L, etal., Stem Cells Dev. 2008 Aug;17(4):815-23.
41. Generation of insulin-producing cells from PDX-1 gene-modified human mesenchymal stem cells. Li Y, etal., J Cell Physiol. 2007 Apr;211(1):36-44.
42. Treatment of Type 1 Diabetes with Adipose Tissue-Derived Stem Cells Expressing Pancreatic Duodenal Homeobox 1. Lin G, etal., Stem Cells Dev. 2009 Feb 26.
43. PDX-1 expression and proliferation of duct epithelial cells after partial pancreatectomy in rats. Liu T, etal., Hepatobiliary Pancreat Dis Int. 2007 Aug;6(4):424-9.
44. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
45. IDX-1: a new homeodomain transcription factor expressed in rat pancreatic islets and duodenum that transactivates the somatostatin gene. Miller CP, etal., EMBO J 1994 Mar 1;13(5):1145-56.
46. Peroxisome proliferator-activated receptor-gamma regulates expression of PDX-1 and NKX6.1 in INS-1 cells. Moibi JA, etal., Diabetes. 2007 Jan;56(1):88-95.
47. Combining a dipeptidyl peptidase-4 inhibitor, alogliptin, with pioglitazone improves glycaemic control, lipid profiles and beta-cell function in db/db mice. Moritoh Y, etal., Br J Pharmacol. 2009 Jun;157(3):415-26. Epub 2009 Apr 3.
48. Endocrine pancreatic tissue plasticity in obese humans is associated with cytoplasmic expression of PBX-1 in pancreatic ductal cells. Muharram G, etal., Biochem Biophys Res Commun. 2005 Aug 12;333(4):1153-9.
49. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
50. Beta-cell maturation leads to in vitro sensitivity to cytotoxins. Nielsen K, etal., Diabetes. 1999 Dec;48(12):2324-32.
51. alpha-Cell neogenesis in an animal model of IDDM. O'Reilly LA, etal., Diabetes. 1997 Apr;46(4):599-606.
52. Promotion of beta-cell differentiation by conophylline in fetal and neonatal rat pancreas. Ogata T, etal., Diabetes. 2004 Oct;53(10):2596-602.
53. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
54. Role of the D76N polymorphism of insulin promoter factor-1 in predisposing to Type 2 diabetes. Owen KR, etal., Diabetologia. 2004 May;47(5):957-8. Epub 2004 May 7.
55. Development of type 2 diabetes following intrauterine growth retardation in rats is associated with progressive epigenetic silencing of Pdx1. Park JH, etal., J Clin Invest. 2008 Jun;118(6):2316-24.
56. Exercise improves glucose homeostasis that has been impaired by a high-fat diet by potentiating pancreatic beta-cell function and mass through IRS2 in diabetic rats. Park S, etal., J Appl Physiol. 2007 Nov;103(5):1764-71. Epub 2007 Aug 30.
57. PDX-1 mediates glucose responsiveness of GAD(67), but not GAD(65), gene transcription in islets of Langerhans. Pedersen AA, etal., Biochem Biophys Res Commun 2002 Jul 12;295(2):243-8.
58. The pancreatic islet factor STF-1 binds cooperatively with Pbx to a regulatory element in the somatostatin promoter: importance of the FPWMK motif and of the homeodomain. Peers B, etal., Mol Cell Biol. 1995 Dec;15(12):7091-7.
59. Glucagon-like peptide-1 induces cell proliferation and pancreatic-duodenum homeobox-1 expression and increases endocrine cell mass in the pancreas of old, glucose-intolerant rats. Perfetti R, etal., Endocrinology. 2000 Dec;141(12):4600-5.
60. Elevated glucose attenuates human insulin gene promoter activity in INS-1 pancreatic beta-cells via reduced nuclear factor binding to the A5/core and Z element. Pino MF, etal., Mol Endocrinol. 2005 May;19(5):1343-60. Epub 2005 Jan 13.
61. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
62. PID Annotation Import Pipeline Pipeline to import Pathway Interaction Database annotations from NCI into RGD
63. Insulin gene transcription is mediated by interactions between the p300 coactivator and PDX-1, BETA2, and E47. Qiu Y, etal., Mol Cell Biol. 2002 Jan;22(2):412-20.
64. GOA pipeline RGD automated data pipeline
65. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
66. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
67. Expression of the Notch signaling pathway and effect on exocrine cell proliferation in adult rat pancreas. Rooman I, etal., Am J Pathol. 2006 Oct;169(4):1206-14.
68. Modulation of rat pancreatic acinoductal transdifferentiation and expression of PDX-1 in vitro. Rooman I, etal., Diabetologia. 2000 Jul;43(7):907-14.
69. Pancreatic homeodomain transcription factor IDX1/IPF1 expressed in developing brain regulates somatostatin gene transcription in embryonic neural cells. Schwartz PT, etal., J Biol Chem. 2000 Jun 23;275(25):19106-14.
70. Development of beta-cells in the native pancreas after pancreas allo-transplantation in the Spontaneously Diabetic Torii rat. Shimada K, etal., J Surg Res. 2008 Apr;145(2):229-37. Epub 2007 Aug 30.
71. Regeneration of beta cells in the native pancreata after syngeneic and allogeneic pancreas transplantations in spontaneously type 2 diabetic Torii rats. Shimada K, etal., Transplant Proc. 2008 Mar;40(2):438-40.
72. Ectopic PDX-1 expression in liver ameliorates type 1 diabetes. Shternhall-Ron K, etal., J Autoimmun. 2007 Mar-May;28(2-3):134-42. Epub 2007 Mar 23.
73. Prenatal nicotine exposure alters early pancreatic islet and adipose tissue development with consequences on the control of body weight and glucose metabolism later in life. Somm E, etal., Endocrinology. 2008 Dec;149(12):6289-99. Epub 2008 Aug 7.
74. Pancreas duodenum homeobox-1 transcriptional activation requires interactions with p300. Stanojevic V, etal., Endocrinology. 2004 Jun;145(6):2918-28. Epub 2004 Mar 4.
75. The coactivator Bridge-1 increases transcriptional activation by pancreas duodenum homeobox-1 (PDX-1). Stanojevic V, etal., Mol Cell Endocrinol. 2005 Jun 15;237(1-2):67-74.
76. Neonatal exendin-4 prevents the development of diabetes in the intrauterine growth retarded rat. Stoffers DA, etal., Diabetes. 2003 Mar;52(3):734-40.
77. Peroxisome proliferator-activated receptor-alpha regulates the expression of pancreatic/duodenal homeobox-1 in rat insulinoma (INS-1) cells and ameliorates glucose-induced insulin secretion impaired by palmitate. Sun Y, etal., Endocrinology. 2008 Feb;149(2):662-71. Epub 2007 Nov 8.
78. Co-localization of nestin and PDX-1 in small evaginations of the main pancreatic duct in adult rats. Taguchi M and Otsuki M, J Mol Histol. 2004 Nov;35(8-9):785-9.
79. Induction of PDX-1-positive cells in the main duct during regeneration after acute necrotizing pancreatitis in rats. Taguchi M, etal., J Pathol. 2002 Aug;197(5):638-46.
80. Genetic deficiency of glycogen synthase kinase-3beta corrects diabetes in mouse models of insulin resistance. Tanabe K, etal., PLoS Biol. 2008 Feb;6(2):e37.
81. Hedgehog signaling regulation of homeodomain protein islet duodenum homeobox-1 expression in pancreatic beta-cells. Thomas MK, etal., Endocrinology. 2001 Mar;142(3):1033-40.
82. Expression of transcription factors and precursor cell markers during regeneration of beta cells in pancreata of rats treated with streptozotocin. Tiemann K, etal., Virchows Arch. 2007 Mar;450(3):261-6. Epub 2007 Jan 18.
83. Inhibition of cyclin-dependent kinase 5 activity protects pancreatic beta cells from glucotoxicity. Ubeda M, etal., J Biol Chem. 2006 Sep 29;281(39):28858-64. Epub 2006 Aug 3.
84. Hydrolysed casein diet protects BB rats from developing diabetes by promoting islet neogenesis. Wang GS, etal., J Autoimmun. 2000 Dec;15(4):407-16.
85. Pdx1 level defines pancreatic gene expression pattern and cell lineage differentiation. Wang H, etal., J Biol Chem. 2001 Jul 6;276(27):25279-86. Epub 2001 Apr 17.
86. Decreased sucrase and lactase activity in iron deficiency is accompanied by reduced gene expression and upregulation of the transcriptional repressor PDX-1. West AR and Oates PS, Am J Physiol Gastrointest Liver Physiol. 2005 Dec;289(6):G1108-14. Epub 2005 Aug 4.
87. In vitro transdifferentiation of mature hepatocytes into insulin-producing cells. Yamada S, etal., Endocr J. 2006 Dec;53(6):789-95. Epub 2006 Sep 19.
88. Association of genetic variants with atherothrombotic cerebral infarction in Japanese individuals with metabolic syndrome. Yamada Y, etal., Int J Mol Med. 2008 Jun;21(6):801-8.
89. The Kruppel-like zinc finger protein Glis3 directly and indirectly activates insulin gene transcription. Yang Y, etal., Nucleic Acids Res. 2009 May;37(8):2529-38. Epub 2009 Mar 5.
90. Effects of biotin on glucotoxicity or lipotoxicity in rat pancreatic islets. Yoshikawa H, etal., Metabolism. 2002 Feb;51(2):163-8.
91. Regulation of pancreatic endocrine cell differentiation by sulphated proteoglycans. Zertal-Zidani S, etal., Diabetologia. 2007 Mar;50(3):585-95. Epub 2007 Jan 13.
92. Coordinated regulation by Shp2 tyrosine phosphatase of signaling events controlling insulin biosynthesis in pancreatic beta-cells. Zhang SS, etal., Proc Natl Acad Sci U S A. 2009 May 5;106(18):7531-6. Epub 2009 Apr 20.
93. AMP-activated protein kinase and pancreatic/duodenal homeobox-1 involved in insulin secretion under high leucine exposure in rat insulinoma beta-cells. Zhang X, etal., J Cell Mol Med. 2009 Apr;13(4):758-70.
94. Insulin-producing cells derived from rat bone marrow and their autologous transplantation in the duodenal wall for treating diabetes. Zhang YH, etal., Anat Rec (Hoboken). 2009 May;292(5):728-35.
Additional References at PubMed
PMID:8567692   PMID:8625829   PMID:9353644   PMID:10868931   PMID:11287626   PMID:12124776   PMID:12368292   PMID:12488434   PMID:12904469   PMID:12972592   PMID:14701942   PMID:14702043  
PMID:14704343   PMID:15121856   PMID:15486225   PMID:15605246   PMID:15793245   PMID:15888377   PMID:15944145   PMID:16126192   PMID:16166097   PMID:16418487   PMID:16847327   PMID:17056599  
PMID:17172056   PMID:17876894   PMID:17897921   PMID:17928203   PMID:17941991   PMID:18155690   PMID:18670842   PMID:18971862   PMID:19266047   PMID:19513971   PMID:19604517   PMID:19619492  
PMID:19651901   PMID:19656489   PMID:19799567   PMID:19833727   PMID:19837876   PMID:20306305   PMID:20401447   PMID:20458761   PMID:20589757   PMID:20626638   PMID:20644547   PMID:20811152  
PMID:20943817   PMID:21385937   PMID:21533167   PMID:21652712   PMID:22028850   PMID:22086006   PMID:22253604   PMID:22644623   PMID:23123389   PMID:23147208   PMID:23424659   PMID:23703573  
PMID:23853095   PMID:24029239   PMID:24567802   PMID:25667428   PMID:27620967   PMID:27645924   PMID:29303357   PMID:30353648   PMID:30997693   PMID:31337977   PMID:32690606   PMID:33569632  


Comparative Map Data
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
mRatBN7.2127,757,865 - 7,763,064 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl127,757,865 - 7,763,064 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx128,444,089 - 8,449,310 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0129,067,243 - 9,072,462 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0128,095,256 - 8,100,469 (-)NCBIRnor_WKY
Rnor_6.0129,496,044 - 9,501,211 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl129,496,044 - 9,501,213 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01211,609,488 - 11,614,655 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera129,495,501 - 9,500,668 (-)NCBICelera
Cytogenetic Map12p11NCBI
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
GRCh381327,920,000 - 27,926,313 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1327,920,000 - 27,926,313 (+)EnsemblGRCh38hg38GRCh38
GRCh371328,494,137 - 28,500,450 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361327,392,157 - 27,397,394 (+)NCBINCBI36Build 36hg18NCBI36
Build 341327,392,176 - 27,397,394NCBI
Celera139,568,879 - 9,575,162 (+)NCBICelera
Cytogenetic Map13q12.2NCBI
HuRef139,314,253 - 9,320,535 (+)NCBIHuRef
CHM1_11328,462,445 - 28,468,728 (+)NCBICHM1_1
T2T-CHM13v2.01327,141,129 - 27,147,442 (+)NCBIT2T-CHM13v2.0
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
GRCm395147,206,907 - 147,212,658 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5147,206,769 - 147,212,658 (+)EnsemblGRCm39 Ensembl
GRCm385147,270,097 - 147,275,848 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5147,269,959 - 147,275,848 (+)EnsemblGRCm38mm10GRCm38
MGSCv375148,081,707 - 148,086,725 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv365147,580,475 - 147,586,196 (+)NCBIMGSCv36mm8
Celera5145,261,170 - 145,266,188 (+)NCBICelera
Cytogenetic Map5G3NCBI
cM Map586.84NCBI
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
ChiLan1.0NW_0049554977,281,886 - 7,307,969 (+)NCBIChiLan1.0ChiLan1.0
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
NHGRI_mPanPan11318,610,792 - 18,616,867 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0139,199,572 - 9,206,202 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11327,545,855 - 27,553,118 (+)NCBIpanpan1.1PanPan1.1panPan2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
CanFam3.12511,741,863 - 11,746,885 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2511,741,863 - 11,746,885 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2511,805,337 - 11,810,359 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02511,870,873 - 11,875,895 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2511,870,873 - 11,875,895 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12511,765,554 - 11,770,575 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02511,758,195 - 11,763,217 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02511,802,135 - 11,807,157 (-)NCBIUU_Cfam_GSD_1.0
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
HiC_Itri_2NW_024404945172,845,028 - 172,849,677 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647223,102,534 - 23,107,127 (+)EnsemblSpeTri2.0
SpeTri2.0NW_00493647223,102,534 - 23,107,127 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
Sscrofa11.1 Ensembl115,303,609 - 5,309,063 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1115,303,609 - 5,309,063 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2114,961,177 - 4,966,632 (+)NCBISscrofa10.2Sscrofa10.2susScr3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
ChlSab1.137,038,088 - 7,046,593 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl37,041,466 - 7,045,976 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605737,343,264 - 37,348,413 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
HetGla_female_1.0 EnsemblNW_00462477610,591,855 - 10,596,676 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462477610,591,855 - 10,596,738 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Variants in Pdx1
13 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:210
Count of miRNA genes:149
Interacting mature miRNAs:156
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.

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1300174Bw15Body weight QTL 152.93body mass (VT:0001259)body weight loss (CMO:0001399)1219318387Rat
2312418Kidm41Kidney mass QTL 413.70.0001kidney mass (VT:0002707)single kidney wet weight to body weight ratio (CMO:0000622)12119611090Rat
10755457Coatc14Coat color QTL 140.01759coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)12122591684Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12123297788Rat
1581516Cm56Cardiac mass QTL 564.20.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)12129333307Rat
1598855Bp294Blood pressure QTL 2943.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)12134851688Rat
7411660Foco28Food consumption QTL 2810.90.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
9590086Insglur6Insulin/glucose ratio QTL 618.970.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)12142110980Rat
8694179Bw150Body weight QTL 1502.90.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
7411586Foco5Food consumption QTL 55.40.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411595Foco9Food consumption QTL 940.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12142110980Rat
7411545Bw128Body weight QTL 1285.20.001body mass (VT:0001259)body weight gain (CMO:0000420)12142110980Rat
9590147Scort7Serum corticosterone level QTL 713.610.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)12142110980Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12142450532Rat
737979Pia22Pristane induced arthritis QTL 2253.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12144465750Rat
634351Apr5Acute phase response QTL 56.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)12144503507Rat
2302042Pia38Pristane induced arthritis QTL 383.50.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)12144503507Rat
7243862Mcs30Mammary carcinoma susceptibility QTL 308.62mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)127977298525593Rat
634350Apr4Acute phase response QTL 46orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)12117200546172005Rat
724526Uae3Urinary albumin excretion QTL 34.90.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)12390696910373166Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)6556449546669029Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449546669029Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)12556449546669029Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)12556449846669029Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)12610757946669029Rat
1600391Edcs2Endometrial carcinoma susceptibility QTL23.50.01uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)12683319017870186Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)12719673046669029Rat

Markers in Region
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2127,758,030 - 7,758,204 (+)MAPPERmRatBN7.2
Rnor_6.0129,496,210 - 9,496,383NCBIRnor6.0
Rnor_5.01211,609,654 - 11,609,827UniSTSRnor5.0
Celera129,495,667 - 9,495,840UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2127,757,867 - 7,758,036 (+)MAPPERmRatBN7.2
Rnor_6.0129,496,047 - 9,496,215NCBIRnor6.0
Rnor_5.01211,609,491 - 11,609,659UniSTSRnor5.0
Celera129,495,504 - 9,495,672UniSTS
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2127,758,255 - 7,758,564 (+)MAPPERmRatBN7.2
Rnor_6.0129,496,435 - 9,496,743NCBIRnor6.0
Rnor_5.01211,609,879 - 11,610,187UniSTSRnor5.0
Celera129,495,892 - 9,496,200UniSTS


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 endocrine system exocrine system hemolymphoid system hepatobiliary system renal system reproductive system
Low 4 4 4
Below cutoff 2 7 5 6 5 2 10


Reference Sequences
RefSeq Acc Id: ENSRNOT00000071942   ⟹   ENSRNOP00000066935
RefSeq Status:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl127,757,865 - 7,763,064 (-)Ensembl
Rnor_6.0 Ensembl129,496,044 - 9,501,213 (-)Ensembl
RefSeq Acc Id: NM_022852   ⟹   NP_074043
RefSeq Status: VALIDATED
Rat AssemblyChrPosition (strand)Source
mRatBN7.2127,757,865 - 7,763,064 (-)NCBI
Rnor_6.0129,496,044 - 9,501,211 (-)NCBI
Rnor_5.01211,609,488 - 11,614,655 (-)NCBI
Celera129,495,501 - 9,500,668 (-)RGD
Protein Sequences
Protein RefSeqs NP_074043 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA18355 (Get FASTA)   NCBI Sequence Viewer  
  EDL89565 (Get FASTA)   NCBI Sequence Viewer  
  P52947 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_074043   ⟸   NM_022852
- UniProtKB: P52947 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000066935   ⟸   ENSRNOT00000071942

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P52947-F1-model_v2 AlphaFold P52947 1-283 view protein structure


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

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:62387 AgrOrtholog
BioCyc Gene G2FUF-20115 BioCyc
Ensembl Genes ENSRNOG00000046458 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSRNOP00000066935 ENTREZGENE
  ENSRNOP00000066935.1 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000071942 ENTREZGENE
  ENSRNOT00000071942.2 UniProtKB/Swiss-Prot
Gene3D-CATH Homeodomain-like UniProtKB/Swiss-Prot
InterPro Homeobox-like_sf UniProtKB/Swiss-Prot
  Homeobox_antennapedia UniProtKB/Swiss-Prot
  Homeobox_CS UniProtKB/Swiss-Prot
  Homeobox_dom UniProtKB/Swiss-Prot
  Homeobox_metazoa UniProtKB/Swiss-Prot
KEGG Report rno:29535 UniProtKB/Swiss-Prot
Pfam Homeodomain UniProtKB/Swiss-Prot
PhenoGen Pdx1 PhenoGen
  HOMEOBOX UniProtKB/Swiss-Prot
  HOMEOBOX_2 UniProtKB/Swiss-Prot
SMART HOX UniProtKB/Swiss-Prot
Superfamily-SCOP SSF46689 UniProtKB/Swiss-Prot
UniProt P52947 ENTREZGENE, UniProtKB/Swiss-Prot

Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-02-18 Pdx1  pancreatic and duodenal homeobox 1  Pdx1  pancreatic and duodenal homeobox gene 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Pdx1  pancreatic and duodenal homeobox gene 1      Symbol and Name status set to approved 70586 APPROVED
2001-06-12 Ipf1  Insulin promoter factor 1      Symbol withdrawn, duplicate entry of Pdx1(RGD:62387) 62408 WITHDRAWN

RGD Curation Notes
Note Type Note Reference
gene_process involved in maintenance of differentiated beta-cell functions 70227
gene_regulation activity inhibited by cytokines such as interteukine1-beta and interferon-gamma, inhibitory effect prevented by blocking NF-kappaB activation or NO production 70227
gene_regulation inhibitory effect can be prevented by blocking NF-kappaB activation or NO production 70227