Pdcd1 (programmed cell death 1) - Rat Genome Database

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Gene: Pdcd1 (programmed cell death 1) Rattus norvegicus
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Symbol: Pdcd1
Name: programmed cell death 1
RGD ID: 1311658
Description: Predicted to enable signaling receptor activity. Predicted to be involved in negative regulation of T cell activation; negative regulation of T cell mediated immune response to tumor cell; and positive regulation of T cell apoptotic process. Predicted to act upstream of or within negative regulation of B cell apoptotic process and negative regulation of tolerance induction. Predicted to be located in membrane. Predicted to be active in external side of plasma membrane. Biomarker of anti-basement membrane glomerulonephritis; periodontitis; and pre-eclampsia. Human ortholog(s) of this gene implicated in autoimmune hepatitis; liver disease (multiple); lupus nephritis; and systemic lupus erythematosus. Orthologous to human PDCD1 (programmed cell death 1); PARTICIPATES IN T cell receptor signaling pathway; INTERACTS WITH 17beta-estradiol; 17beta-estradiol 3-benzoate; alpha-Zearalanol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC102550808; LOC301626; programmed cell death protein 1; programmed cell death protein 1-like
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89101,866,124 - 101,879,278 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl9101,866,126 - 101,879,270 (-)EnsemblGRCr8
mRatBN7.2994,418,786 - 94,431,945 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl994,418,791 - 94,431,937 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx9102,854,260 - 102,867,404 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09107,989,476 - 108,002,637 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09106,346,469 - 106,359,638 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.09101,305,742 - 101,319,937 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9101,307,764 - 101,319,845 (-)Ensemblrn6Rnor6.0
Rnor_6.0 Ensembl9101,025,313 - 101,038,625 (-)Ensemblrn6Rnor6.0
Rnor_5.09100,676,274 - 100,690,991 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4993,172,543 - 93,185,687 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera991,952,891 - 91,966,035 (-)NCBICelera
Cytogenetic Map9q36NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View
acute myeloid leukemia  (ISO)
acute myocarditis  (ISO)
anogenital venereal wart  (ISO)
anti-basement membrane glomerulonephritis  (IEP)
asthma  (ISO)
autoimmune hepatitis  (ISO)
Burns  (ISO)
cervix uteri carcinoma in situ  (ISO)
Chlamydia pneumonia  (ISO)
Chronic Hepatitis B  (ISO)
Colonic Neoplasms  (ISO)
Colorectal Neoplasms  (IEP)
cryptococcal meningitis  (ISO)
cystitis  (ISO)
Cytomegalovirus Infections  (ISO)
dilated cardiomyopathy  (ISO,ISS)
Experimental Autoimmune Encephalomyelitis  (ISO)
Experimental Melanoma  (ISO)
Fungemia  (ISO)
Graves' disease  (ISO)
Helicobacter Infections  (ISO)
Hepatic Echinococcosis  (ISO)
hepatitis  (ISO)
hepatitis A  (ISO)
hepatitis B  (ISO)
hepatitis C  (ISO)
hepatocellular carcinoma  (ISO)
histoplasmosis  (ISO)
human immunodeficiency virus infectious disease  (ISO)
hydronephrosis  (ISO)
infantile onset multisystem autoimmune disease 4  (ISO)
lung adenocarcinoma  (ISO)
Lung Neoplasms  (ISO)
lupus nephritis  (ISO)
lymphocytic choriomeningitis  (ISO)
melanoma  (ISO)
multiple sclerosis  (ISO)
myocarditis  (ISO)
periodontitis  (IEP)
Pneumovirus Infections  (ISO)
pre-eclampsia  (IEP,ISO)
pulmonary tuberculosis  (ISO)
Recurrent Respiratory Papillomatosis  (ISO)
renal cell carcinoma  (ISO)
respiratory syncytial virus infectious disease  (ISO)
Schistosomiasis Japonica  (ISO)
Sepsis  (ISO)
Spinal Cord Injuries  (IEP)
stomach cancer  (ISO)
Streptococcus pneumonia  (ISO)
systemic lupus erythematosus  (ISO,ISS)
toxic shock syndrome  (ISO)
Transplant Rejection  (ISO)
triple-receptor negative breast cancer  (ISO)
tuberculosis  (ISO)
type 2 diabetes mellitus  (ISO)
Viral Bronchiolitis  (ISO)
viral encephalitis  (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
# Reference Title Reference Citation
1. Roles of programmed death-1 (PD-1)/PD-1 ligands pathway in the development of murine acute myocarditis caused by coxsackievirus B3. null
2. Endoplasmic reticulum stress response and inflammatory cytokines in type 2 diabetic nephropathy: role of indoleamine 2,3-dioxygenase and programmed death-1. Baban B, etal., Exp Mol Pathol. 2013 Apr;94(2):343-51. doi: 10.1016/j.yexmp.2012.11.004. Epub 2012 Dec 5.
3. Genetic, immunologic, and immunohistochemical analysis of the programmed death 1/programmed death ligand 1 pathway in human systemic lupus erythematosus. Bertsias GK, etal., Arthritis Rheum. 2009 Jan;60(1):207-18. doi: 10.1002/art.24227.
4. Expression of programmed death 1 and its ligands in the liver of autoimmune hepatitis C57BL/6 mice. Cao J, etal., Chin Med J (Engl). 2009 Aug 20;122(16):1941-6.
5. Blockade of the negative co-stimulatory molecules PD-1 and CTLA-4 improves survival in primary and secondary fungal sepsis. Chang KC, etal., Crit Care. 2013 May 11;17(3):R85. doi: 10.1186/cc12711.
6. In vitro and in vivo effect of PD-1/PD-L1 blockade on microglia/macrophage activation and T cell subset balance in cryptococcal meningitis. Che YM, etal., J Cell Biochem. 2018 Apr;119(4):3044-3057. doi: 10.1002/jcb.26432. Epub 2017 Dec 26.
7. Programmed cell death-1 3'-untranslated region polymorphism is associated with spontaneous clearance of hepatitis B virus infection. Chihab H, etal., J Med Virol. 2018 Nov;90(11):1730-1738. doi: 10.1002/jmv.25265. Epub 2018 Aug 13.
8. Phenotypic Characteristics of PD-1 and CTLA-4 Expression in Symptomatic Acute Hepatitis A. Cho H, etal., Gut Liver. 2016 Mar;10(2):288-94. doi: 10.5009/gnl14368.
9. CD72/CD100 and PD-1/PD-L1 markers are increased on T and B cells in HIV-1+ viremic individuals, and CD72/CD100 axis is correlated with T-cell exhaustion. Correa-Rocha R, etal., PLoS One. 2018 Aug 30;13(8):e0203419. doi: 10.1371/journal.pone.0203419. eCollection 2018.
10. Gene transfer of programmed death ligand-1.Ig prolongs cardiac allograft survival. Dudler J, etal., Transplantation. 2006 Dec 27;82(12):1733-7.
11. Viral acute lower respiratory infections impair CD8+ T cells through PD-1. Erickson JJ, etal., J Clin Invest. 2012 Aug;122(8):2967-82. doi: 10.1172/JCI62860. Epub 2012 Jul 17.
12. Programmed death-1 impairs secondary effector lung CD8⁺ T cells during respiratory virus reinfection. Erickson JJ, etal., J Immunol. 2014 Nov 15;193(10):5108-17. doi: 10.4049/jimmunol.1302208. Epub 2014 Oct 22.
13. Programmed death 1 protects from fatal circulatory failure during systemic virus infection of mice. Frebel H, etal., J Exp Med. 2012 Dec 17;209(13):2485-99. doi: 10.1084/jem.20121015. Epub 2012 Dec 10.
14. Therapy With Carboplatin and Anti-PD-1 Antibodies Before Surgery Demonstrates Sustainable Anti-Tumor Effects for Secondary Cancers in Mice With Triple-Negative Breast Cancer. Gao M, etal., Front Immunol. 2020 Mar 5;11:366. doi: 10.3389/fimmu.2020.00366. eCollection 2020.
15. 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.
16. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
17. DUG is a novel homologue of translation initiation factor 4G that binds eIF4A. Goke A, etal., Biochem Biophys Res Commun 2002 Sep 13;297(1):78-82.
18. Regulation of Trypanosoma cruzi-induced myocarditis by programmed death cell receptor 1. Gutierrez FR, etal., Infect Immun. 2011 May;79(5):1873-81. doi: 10.1128/IAI.01047-10. Epub 2011 Feb 28.
19. Immune suppression in premalignant respiratory papillomas: enriched functional CD4+Foxp3+ regulatory T cells and PD-1/PD-L1/L2 expression. Hatam LJ, etal., Clin Cancer Res. 2012 Apr 1;18(7):1925-35. doi: 10.1158/1078-0432.CCR-11-2941. Epub 2012 Feb 9.
20. Dexmedetomidine Mitigates Microglia-Mediated Neuroinflammation through Upregulation of Programmed Cell Death Protein 1 in a Rat Spinal Cord Injury Model. He H, etal., J Neurotrauma. 2018 Nov 1;35(21):2591-2603. doi: 10.1089/neu.2017.5625. Epub 2018 Jun 7.
21. Association between a polymorphism in the human programmed death-1 (PD-1) gene and cytomegalovirus infection after kidney transplantation. Hoffmann TW, etal., J Med Genet. 2010 Jan;47(1):54-8. doi: 10.1136/jmg.2009.068841. Epub 2009 Jul 5.
22. A Programmed Cell Death-1 Haplotype is Associated with Clearance of Hepatitis B Virus. Hou Z, etal., Ann Clin Lab Sci. 2017 May;47(3):334-343.
23. PD-1 expression by macrophages plays a pathologic role in altering microbial clearance and the innate inflammatory response to sepsis. Huang X, etal., Proc Natl Acad Sci U S A. 2009 Apr 14;106(15):6303-8. doi: 10.1073/pnas.0809422106. Epub 2009 Mar 30.
24. Prognostic Significance of PD-1, PD-L1 and CD8 Gene Expression Levels in Gastric Cancer. Ito S, etal., Oncology. 2020;98(7):501-511. doi: 10.1159/000506075. Epub 2020 May 7.
25. Correlation of CpG methylation of the Pdcd1 gene with PD-1 expression on CD8+ T cells and medical laboratory indicators in chronic hepatitis B infection. Jiao L, etal., J Gene Med. 2020 Feb;22(2):e3148. doi: 10.1002/jgm.3148. Epub 2020 Jan 9.
26. Association of a PDCD1 polymorphism with renal manifestations in systemic lupus erythematosus. Johansson M, etal., Arthritis Rheum. 2005 Jun;52(6):1665-9.
27. Chronically inflamed livers up-regulate expression of inhibitory B7 family members. Kassel R, etal., Hepatology. 2009 Nov;50(5):1625-37. doi: 10.1002/hep.23173.
28. Non-oncogenic Acute Viral Infections Disrupt Anti-cancer Responses and Lead to Accelerated Cancer-Specific Host Death. Kohlhapp FJ, etal., Cell Rep. 2016 Oct 18;17(4):957-965. doi: 10.1016/j.celrep.2016.09.068.
29. Upregulation of PD-1 on CD4⁺CD25⁺ T cells is associated with immunosuppression in liver of mice infected with Echinococcus multilocularis. La X, etal., Int Immunopharmacol. 2015 Jun;26(2):357-66. doi: 10.1016/j.intimp.2015.04.013. Epub 2015 Apr 20.
30. Anti-programmed death-1 synergizes with granulocyte macrophage colony-stimulating factor--secreting tumor cell immunotherapy providing therapeutic benefit to mice with established tumors. Li B, etal., Clin Cancer Res. 2009 Mar 1;15(5):1623-34. doi: 10.1158/1078-0432.CCR-08-1825. Epub 2009 Feb 10.
31. Genetic polymorphisms of immune checkpoint proteins PD-1 and TIM-3 are associated with survival of patients with hepatitis B virus-related hepatocellular carcinoma. Li Z, etal., Oncotarget. 2016 May 3;7(18):26168-80. doi: 10.18632/oncotarget.8435.
32. Genetic variations in LTA gene and PDCD1 gene and intrauterine infection of hepatitis B virus: a case-control study in China. Liu T, etal., Amino Acids. 2018 Jul;50(7):877-883. doi: 10.1007/s00726-018-2568-9. Epub 2018 May 21.
33. The PD-1/PD-L costimulatory pathway critically affects host resistance to the pathogenic fungus Histoplasma capsulatum. Lázár-Molnár E, etal., Proc Natl Acad Sci U S A. 2008 Feb 19;105(7):2658-63. doi: 10.1073/pnas.0711918105. Epub 2008 Feb 11.
34. Programmed Death-Ligand 1 Expression Is Common in Gastric Cancer Associated With Epstein-Barr Virus or Microsatellite Instability. Ma C, etal., Am J Surg Pathol. 2016 Nov;40(11):1496-1506. doi: 10.1097/PAS.0000000000000698.
35. Blockade of the PD-1/PD-1L pathway reverses the protective effect of anti-CD40L therapy in a rat to mouse concordant islet xenotransplantation model. Mai G, etal., Xenotransplantation. 2007 May;14(3):243-8.
36. Anti-programmed cell death-1 antibody as a new serological marker for type 1 autoimmune hepatitis. Matsumoto K, etal., J Gastroenterol Hepatol. 2014 Jan;29(1):110-5. doi: 10.1111/jgh.12340.
37. PD-1 suppresses protective immunity to Streptococcus pneumoniae through a B cell-intrinsic mechanism. McKay JT, etal., J Immunol. 2015 Mar 1;194(5):2289-99. doi: 10.4049/jimmunol.1401673. Epub 2015 Jan 26.
38. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
39. Modulation of expression of Programmed Death-1 by administration of probiotic Dahi in DMH-induced colorectal carcinogenesis in rats. Mohania D, etal., Acta Biomed. 2013 Sep 1;84(2):102-9.
40. A putative regulatory polymorphism in PD-1 is associated with nephropathy in a population-based cohort of systemic lupus erythematosus patients. Nielsen C, etal., Lupus. 2004;13(7):510-6.
41. A seven-gene prognostic model related to immune checkpoint PD-1 revealing overall survival in patients with lung adenocarcinoma. Niu W and Jiang L, Math Biosci Eng. 2021 Jul 13;18(5):6136-6154. doi: 10.3934/mbe.2021307.
42. Hydronephrosis associated with antiurothelial and antinuclear autoantibodies in BALB/c-Fcgr2b-/-Pdcd1-/- mice. Okazaki T, etal., J Exp Med. 2005 Dec 19;202(12):1643-8. Epub 2005 Dec 13.
43. Autoantibodies against cardiac troponin I are responsible for dilated cardiomyopathy in PD-1-deficient mice. Okazaki T, etal., Nat Med. 2003 Dec;9(12):1477-83. Epub 2003 Nov 2.
44. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
45. Notch Signaling Pathway Was Involved in Regulating Programmed Cell Death 1 Expression during Sepsis-Induced Immunosuppression. Pan T, etal., Mediators Inflamm. 2015;2015:539841. doi: 10.1155/2015/539841. Epub 2015 Apr 30.
46. Frontline Science: Anti-PD-L1 protects against infection with common bacterial pathogens after burn injury. Patil NK, etal., J Leukoc Biol. 2018 Jan;103(1):23-33. doi: 10.1002/JLB.5HI0917-360R. Epub 2017 Dec 21.
47. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
48. Stimulation of the PD-1/PDL-1 T-cell co-inhibitory pathway is effective in treatment of experimental autoimmune glomerulonephritis. Reynolds J, etal., Nephrol Dial Transplant. 2012 Apr;27(4):1343-50. doi: 10.1093/ndt/gfr529. Epub 2011 Sep 29.
49. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
50. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
51. Comprehensive gene review and curation RGD comprehensive gene curation
52. Monocyte programmed death ligand-1 expression after 3-4 days of sepsis is associated with risk stratification and mortality in septic patients: a prospective cohort study. Shao R, etal., Crit Care. 2016 May 9;20(1):124. doi: 10.1186/s13054-016-1301-x.
53. The characteristic profiles of PD-1 and PD-L1 expressions and dynamic changes during treatment in active tuberculosis. Shen L, etal., Tuberculosis (Edinb). 2016 Dec;101:146-150. doi: 10.1016/j.tube.2016.10.001. Epub 2016 Oct 1.
54. Immunovirotherapy with vesicular stomatitis virus and PD-L1 blockade enhances therapeutic outcome in murine acute myeloid leukemia. Shen W, etal., Blood. 2016 Mar 17;127(11):1449-58. doi: 10.1182/blood-2015-06-652503. Epub 2015 Dec 28.
55. Mechanistic investigation of immunosuppression in patients with condyloma acuminata. Shi YJ, etal., Mol Med Rep. 2013 Aug;8(2):480-6. doi: 10.3892/mmr.2013.1511. Epub 2013 Jun 6.
56. PD-1 Dynamically Regulates Inflammation and Development of Brain-Resident Memory CD8 T Cells During Persistent Viral Encephalitis. Shwetank, etal., Front Immunol. 2019 Apr 17;10:783. doi: 10.3389/fimmu.2019.00783. eCollection 2019.
57. Inhibiting the programmed death 1 pathway rescues Mycobacterium tuberculosis-specific interferon γ-producing T cells from apoptosis in patients with pulmonary tuberculosis. Singh A, etal., J Infect Dis. 2013 Aug 15;208(4):603-15. doi: 10.1093/infdis/jit206. Epub 2013 May 9.
58. Programmed Death Ligand 1 Promotes Early-Life Chlamydia Respiratory Infection-Induced Severe Allergic Airway Disease. Starkey MR, etal., Am J Respir Cell Mol Biol. 2016 Apr;54(4):493-503. doi: 10.1165/rcmb.2015-0204OC.
59. BALB/c-Fcgr2bPdcd1 mouse expressing anti-urothelial antibody is a novel model of autoimmune cystitis. Sugino Y, etal., Sci Rep. 2012;2:317. doi: 10.1038/srep00317. Epub 2012 Mar 19.
60. PD-1 is expressed by tumor-infiltrating immune cells and is associated with poor outcome for patients with renal cell carcinoma. Thompson RH, etal., Clin Cancer Res. 2007 Mar 15;13(6):1757-61.
61. The PD-1/PD-L1 inhibitory pathway is altered in pre-eclampsia and regulates T cell responses in pre-eclamptic rats. Tian M, etal., Sci Rep. 2016 Jun 9;6:27683. doi: 10.1038/srep27683.
62. Association of PDCD1 polymorphisms with childhood-onset systemic lupus erythematosus. Velazquez-Cruz R, etal., Eur J Hum Genet. 2007 Mar;15(3):336-41. Epub 2007 Jan 17.
63. Aberrant production of soluble inducible T cell co‑stimulator and soluble programmed cell death protein 1 in patients with chronic hepatitis B. Wang D, etal., Mol Med Rep. 2017 Dec;16(6):8556-8562. doi: 10.3892/mmr.2017.7630. Epub 2017 Sep 26.
64. TLR4 signaling improves PD-1 blockade therapy during chronic viral infection. Wang Y, etal., PLoS Pathog. 2019 Feb 6;15(2):e1007583. doi: 10.1371/journal.ppat.1007583. eCollection 2019 Feb.
65. Programmed death 1 mRNA in peripheral blood as biomarker of acute renal allograft rejection. Wang YW, etal., Chin Med J (Engl). 2011 Mar;124(5):674-8.
66. Lymphocyte subset expression and serum concentrations of PD-1/PD-L1 in sepsis - pilot study. Wilson JK, etal., Crit Care. 2018 Apr 17;22(1):95. doi: 10.1186/s13054-018-2020-2.
67. Blockade of programmed death-1 in young (New Zealand black x New Zealand white)F1 mice promotes the activity of suppressive CD8+ T cells that protect from lupus-like disease. Wong M, etal., J Immunol. 2010 Dec 1;185(11):6563-71. doi: 10.4049/jimmunol.0903401. Epub 2010 Nov 1.
68. Suppression of furin by interferon-γ and the impact on hepatitis B virus antigen biosynthesis in human hepatocytes. Wu JF, etal., Am J Pathol. 2012 Jul;181(1):19-25. doi: 10.1016/j.ajpath.2012.03.036. Epub 2012 May 24.
69. Expression of CD25(high) regulatory T cells and PD-1 in gastric infiltrating CD4(+) T lymphocytes in patients with Helicobacter pylori infection. Wu YY, etal., Clin Vaccine Immunol. 2011 Jul;18(7):1198-201. doi: 10.1128/CVI.00422-10. Epub 2011 May 11.
70. Immune Checkpoint Receptors Tim-3 and PD-1 Regulate Monocyte and T Lymphocyte Function in Septic Patients. Xia Q, etal., Mediators Inflamm. 2018 Nov 22;2018:1632902. doi: 10.1155/2018/1632902. eCollection 2018.
71. Genetic variations of IL-28B and PD-1 are in association with the susceptibility and outcomes of HCV infection in Southeast China. Xiao W, etal., Infect Genet Evol. 2015 Jun;32:89-96. doi: 10.1016/j.meegid.2015.02.022. Epub 2015 Mar 5.
72. Increased expression of programmed death (PD)-1 and its ligand PD-L1 correlates with impaired cell-mediated immunity in high-risk human papillomavirus-related cervical intraepithelial neoplasia. Yang W, etal., Immunology. 2013 Aug;139(4):513-22. doi: 10.1111/imm.12101.
73. [Temporal expression of PD-1 and PD-L1 during the development of experimental periodontitis in rats and its implications]. Yang X, etal., Shanghai Kou Qiang Yi Xue. 2019 Dec;28(6):591-596.
74. Control of pathogenic effector T-cell activities in situ by PD-L1 expression on respiratory inflammatory dendritic cells during respiratory syncytial virus infection. Yao S, etal., Mucosal Immunol. 2015 Jul;8(4):746-59. doi: 10.1038/mi.2014.106. Epub 2014 Dec 3.
75. Upregulation of circulating PD-L1/PD-1 is associated with poor post-cryoablation prognosis in patients with HBV-related hepatocellular carcinoma. Zeng Z, etal., PLoS One. 2011;6(9):e23621. doi: 10.1371/journal.pone.0023621. Epub 2011 Sep 1.
76. PD-1 deletion restores susceptibility to experimental autoimmune encephalomyelitis in miR-155-deficient mice. Zhang J and Braun MY, Int Immunol. 2014 Jul;26(7):407-15. doi: 10.1093/intimm/dxu043. Epub 2014 Mar 19.
77. Predictive Value of Soluble Programmed Death-1 for Severe Sepsis and Septic Shock During the First Week in an Intensive Care Unit. Zhao Y, etal., Shock. 2019 Mar;51(3):289-297. doi: 10.1097/SHK.0000000000001171.
78. Association between hepatitis B viral burden in chronic infection and a functional single nucleotide polymorphism of the PDCD1 gene. Zheng L, etal., J Clin Immunol. 2010 Nov;30(6):855-60. doi: 10.1007/s10875-010-9450-1. Epub 2010 Aug 11.
79. Blockade of PD-1 Signaling Enhances Th2 Cell Responses and Aggravates Liver Immunopathology in Mice with Schistosomiasis japonica. Zhou S, etal., PLoS Negl Trop Dis. 2016 Oct 28;10(10):e0005094. doi: 10.1371/journal.pntd.0005094. eCollection 2016 Oct.
80. Relationship between programmed cell death-1 polymorphisms and clearance of hepatitis B virus. Ülger Y, etal., Int J Immunogenet. 2015 Jun;42(3):133-9. doi: 10.1111/iji.12187. Epub 2015 Mar 4.
Additional References at PubMed
PMID:10485649   PMID:11209085   PMID:15568026   PMID:23583643   PMID:23636058   PMID:25281059   PMID:25902191   PMID:28196545   PMID:28892130   PMID:30695785   PMID:34170847   PMID:34847253  


Genomics

Comparative Map Data
Pdcd1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr89101,866,124 - 101,879,278 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl9101,866,126 - 101,879,270 (-)EnsemblGRCr8
mRatBN7.2994,418,786 - 94,431,945 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl994,418,791 - 94,431,937 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx9102,854,260 - 102,867,404 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.09107,989,476 - 108,002,637 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.09106,346,469 - 106,359,638 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.09101,305,742 - 101,319,937 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl9101,307,764 - 101,319,845 (-)Ensemblrn6Rnor6.0
Rnor_6.0 Ensembl9101,025,313 - 101,038,625 (-)Ensemblrn6Rnor6.0
Rnor_5.09100,676,274 - 100,690,991 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4993,172,543 - 93,185,687 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera991,952,891 - 91,966,035 (-)NCBICelera
Cytogenetic Map9q36NCBI
PDCD1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382241,849,884 - 241,858,894 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2241,849,884 - 241,858,894 (-)Ensemblhg38GRCh38
GRCh372242,792,036 - 242,801,046 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362242,440,711 - 242,449,731 (-)NCBIBuild 36Build 36hg18NCBI36
Celera2236,456,683 - 236,465,707 (-)NCBICelera
Cytogenetic Map2q37.3NCBI
HuRef2234,541,510 - 234,550,535 (-)NCBIHuRef
CHM1_12242,797,131 - 242,806,156 (-)NCBICHM1_1
T2T-CHM13v2.02242,351,431 - 242,360,440 (-)NCBIT2T-CHM13v2.0
Pdcd1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39193,966,027 - 93,980,278 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl193,966,027 - 93,980,278 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38194,038,305 - 94,052,553 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl194,038,305 - 94,052,553 (-)Ensemblmm10GRCm38
MGSCv37195,934,882 - 95,949,130 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36195,868,711 - 95,882,959 (-)NCBIMGSCv36mm8
Celera196,903,284 - 96,917,529 (-)NCBICelera
Cytogenetic Map1DNCBI
cM Map147.47NCBI
Pdcd1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495554249,259 - 58,823 (+)Ensembl
ChiLan1.0NW_00495554249,290 - 57,747 (+)NCBIChiLan1.0ChiLan1.0
PDCD1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213144,543,641 - 144,553,063 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B144,558,538 - 144,568,773 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v012130,849,353 - 130,858,776 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PDCD1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12551,606,559 - 51,618,903 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2551,608,173 - 51,618,723 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2551,830,362 - 51,840,346 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02551,809,256 - 51,820,132 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2551,809,263 - 51,823,016 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12551,659,966 - 51,669,894 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02551,399,146 - 51,409,148 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02551,676,302 - 51,686,322 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Pdcd1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303193,055,706 - 193,066,914 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936745152,612 - 161,587 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936745152,571 - 163,712 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PDCD1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15140,336,258 - 140,347,478 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.115140,337,353 - 140,347,493 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PDCD1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.110127,877,383 - 127,886,234 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl10127,878,554 - 127,886,088 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604071,433,325 - 71,442,153 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Pdcd1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248475,732,767 - 5,742,269 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248475,732,922 - 5,741,908 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Pdcd1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v14165,806,356 - 165,819,479 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Pdcd1
137 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:167
Count of miRNA genes:119
Interacting mature miRNAs:132
Transcripts:ENSRNOT00000025743, ENSRNOT00000074915
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.


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1582203Gluco19Glucose level QTL 193.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)963376862108376862Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)965657365108376720Rat
724547Cm21Cardiac mass QTL 212.7heart mass (VT:0007028)calculated heart weight (CMO:0000073)986720043110356905Rat
2303178Bp334Blood pressure QTL 3343.70.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)986720043121768150Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)964220169109220169Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)964220169109220169Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)944458256121768150Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)964220169109220169Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)968875497121768150Rat
1354626Bvd1Brain ventricular dilatation QTL 13.730.001brain ventricle morphology trait (VT:0000822)hydrocephalus severity score (CMO:0001881)983161999118999486Rat
4889852Pur26Proteinuria QTL 26150.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)985262459109044727Rat
7794784Mcs31Mammary carcinoma susceptibility QTL 312.98mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)985262459118999486Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)948718864108376862Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)964220169109220169Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
22 3 16 91 63 63 22 96 22 12 239 145 9 56 48 73 41 9 9

Sequence


Ensembl Acc Id: ENSRNOT00000025743   ⟹   ENSRNOP00000025743
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl9101,866,126 - 101,879,270 (-)Ensembl
mRatBN7.2 Ensembl994,418,791 - 94,431,937 (-)Ensembl
Rnor_6.0 Ensembl9101,025,313 - 101,038,625 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000074915   ⟹   ENSRNOP00000067189
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl9101,307,764 - 101,319,845 (-)Ensembl
RefSeq Acc Id: NM_001106927   ⟹   NP_001100397
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,866,126 - 101,879,270 (-)NCBI
mRatBN7.2994,418,791 - 94,431,937 (-)NCBI
Rnor_6.09101,306,765 - 101,319,909 (-)NCBI
Rnor_5.09100,676,274 - 100,690,991 (-)NCBI
RGSC_v3.4993,172,543 - 93,185,687 (-)RGD
Celera991,952,891 - 91,966,035 (-)RGD
Sequence:
RefSeq Acc Id: XM_006245524   ⟹   XP_006245586
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,866,124 - 101,879,278 (-)NCBI
mRatBN7.2994,418,786 - 94,431,945 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008767396   ⟹   XP_008765618
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,866,124 - 101,879,278 (-)NCBI
mRatBN7.2994,418,786 - 94,431,945 (-)NCBI
Sequence:
RefSeq Acc Id: XM_017596858   ⟹   XP_017452347
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr89101,866,124 - 101,879,278 (-)NCBI
mRatBN7.2994,418,786 - 94,431,945 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001100397 (Get FASTA)   NCBI Sequence Viewer  
  XP_006245586 (Get FASTA)   NCBI Sequence Viewer  
  XP_008765618 (Get FASTA)   NCBI Sequence Viewer  
  XP_017452347 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL91893 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000025743
  ENSRNOP00000025743.3
RefSeq Acc Id: NP_001100397   ⟸   NM_001106927
- Peptide Label: precursor
- UniProtKB: D3ZIN8 (UniProtKB/TrEMBL),   A6JR44 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000067189   ⟸   ENSRNOT00000074915
RefSeq Acc Id: XP_017452347   ⟸   XM_017596858
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_008765618   ⟸   XM_008767396
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_006245586   ⟸   XM_006245524
- Peptide Label: isoform X1
- Sequence:
Ensembl Acc Id: ENSRNOP00000025743   ⟸   ENSRNOT00000025743
Protein Domains
Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZIN8-F1-model_v2 AlphaFold D3ZIN8 1-287 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311658 AgrOrtholog
BioCyc Gene G2FUF-26625 BioCyc
Ensembl Genes ENSRNOG00000019043 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOG00000049797 Ensembl
Ensembl Transcript ENSRNOT00000025743 ENTREZGENE
  ENSRNOT00000025743.6 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
  Ig_sub UniProtKB/TrEMBL
  Ig_V-set UniProtKB/TrEMBL
  PDCD1 UniProtKB/TrEMBL
KEGG Report rno:301626 UniProtKB/TrEMBL
NCBI Gene 301626 ENTREZGENE
PANTHER PROGRAMMED CELL DEATH PROTEIN 1 UniProtKB/TrEMBL
  PTHR15264 UniProtKB/TrEMBL
Pfam V-set UniProtKB/TrEMBL
PhenoGen Pdcd1 PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
RatGTEx ENSRNOG00000019043 RatGTEx
  ENSRNOG00000049797 RatGTEx
SMART IGv UniProtKB/TrEMBL
  SM00409 UniProtKB/TrEMBL
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt A6JR44 ENTREZGENE, UniProtKB/TrEMBL
  D3ZIN8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2014-11-05 Pdcd1  programmed cell death 1  LOC102550808  programmed cell death protein 1-like  Data merged from RGD:7721299 737654 APPROVED
2013-12-18 LOC102550808  programmed cell death protein 1-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 Pdcd1  programmed cell death 1   Pdcd1_predicted  programmed cell death 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Pdcd1_predicted  programmed cell death 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED