Cd28 (Cd28 molecule) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Cd28 (Cd28 molecule) Rattus norvegicus
Analyze
Symbol: Cd28
Name: Cd28 molecule
RGD ID: 2299
Description: Enables identical protein binding activity. Involved in T cell costimulation. Predicted to be located in cell surface and immunological synapse. Predicted to be part of protein complex involved in cell adhesion. Predicted to be active in external side of plasma membrane. Used to study lymphopenia. Human ortholog(s) of this gene implicated in immunodeficiency 123; multiple sclerosis; and type 1 diabetes mellitus. Orthologous to human CD28 (CD28 molecule); PARTICIPATES IN allograft rejection pathway; autoimmune thyroiditis pathway; graft-versus-host disease pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2-amino-2-deoxy-D-glucopyranose; aldehydo-D-glucosamine.
Type: protein-coding (Ensembl: lncRNA)
RefSeq Status: PROVISIONAL
Previously known as: CD28 antigen; CD28RNA; T-cell-specific surface glycoprotein CD28
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Candidate Gene For: Tspe1
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8969,660,316 - 69,689,192 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl969,545,326 - 69,689,192 (+)EnsemblGRCr8
mRatBN7.2962,166,324 - 62,194,674 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl962,166,192 - 62,194,685 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx970,668,268 - 70,693,746 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0975,783,858 - 75,809,336 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0974,102,440 - 74,127,918 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0967,546,408 - 67,573,858 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl967,546,408 - 67,571,871 (+)Ensemblrn6Rnor6.0
Rnor_5.0967,358,994 - 67,386,424 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4959,342,273 - 59,367,743 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera959,589,124 - 59,614,592 (+)NCBICelera
RGSC_v3.1959,489,254 - 59,514,725 (+)NCBI
RH 3.4 Map9504.6RGD
Cytogenetic Map9q32NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dibromophenyl 2,4,5-tribromophenyl ether  (ISO)
2-amino-2-deoxy-D-glucopyranose  (EXP)
2-aminoethoxydiphenylborane  (ISO)
3,7-dihydropurine-6-thione  (ISO)
acetohydrazide  (ISO)
acrolein  (ISO)
actinomycin D  (ISO)
aflatoxin B1  (ISO)
aldehydo-D-glucosamine  (EXP)
alpha-Zearalanol  (EXP)
ammonium chloride  (EXP)
amphetamine  (EXP)
arsenous acid  (ISO)
atrazine  (EXP,ISO)
Azoxymethane  (ISO)
benzo[a]pyrene  (ISO)
beta-D-glucosamine  (EXP)
bis(2-chloroethyl) sulfide  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
buta-1,3-diene  (ISO)
calcidiol  (ISO)
calcitriol  (ISO)
calcium atom  (ISO)
calcium(0)  (ISO)
carbon nanotube  (ISO)
carboxy-PTIO  (ISO)
chloroprene  (ISO)
cyclophosphamide  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
Dibutyl phosphate  (ISO)
diclofenac  (ISO)
diethylstilbestrol  (ISO)
Diisodecyl phthalate  (ISO)
dimethylarsinic acid  (ISO)
dioxygen  (ISO)
diquat  (ISO)
endosulfan  (EXP)
fenvalerate  (EXP)
fingolimod hydrochloride  (ISO)
fulvestrant  (ISO)
gentamycin  (EXP)
hydrazine  (ISO)
ketoconazole  (ISO)
lipopolysaccharide  (ISO)
magnesium dichloride  (ISO)
manganese(II) chloride  (ISO)
mercaptopurine  (ISO)
mercury dichloride  (ISO)
methotrexate  (ISO)
methylarsonic acid  (ISO)
mifepristone  (ISO)
nickel atom  (ISO)
nitric oxide  (ISO)
ozone  (ISO)
paracetamol  (ISO)
phorbol 13-acetate 12-myristate  (ISO)
pirinixic acid  (ISO)
pravastatin  (EXP,ISO)
purine-6-thiol  (ISO)
reactive oxygen species  (ISO)
rimexolone  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
silicon dioxide  (ISO)
silver(1+) nitrate  (ISO)
sodium arsenate  (ISO)
sodium arsenite  (ISO)
sodium aurothiomalate  (ISO)
staurosporine  (ISO)
tebuconazole  (ISO)
thimerosal  (ISO)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trimellitic anhydride  (ISO)
triphenyl phosphate  (ISO)
zaragozic acid A  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Neonatal activation of CD28 signaling overcomes T cell anergy and prevents autoimmune diabetes by an IL-4-dependent mechanism. Arreaza GA, etal., J Clin Invest. 1997 Nov 1;100(9):2243-53.
2. Induction of autoimmunity in the absence of CD28 costimulation. Bachmaier K, etal., J Immunol. 1996 Aug 15;157(4):1752-7.
3. A role for dendritic cells in bleomycin-induced pulmonary fibrosis in mice? Bantsimba-Malanda C, etal., Am J Respir Crit Care Med. 2010 Aug 1;182(3):385-95. Epub 2010 Apr 15.
4. Phenotypic characterisation of T-lymphocytes in COPD: abnormal CD4+CD25+ regulatory T-lymphocyte response to tobacco smoking. Barcelo B, etal., Eur Respir J. 2008 Mar;31(3):555-62. Epub 2007 Dec 5.
5. Selective targeting of regulatory T cells with CD28 superagonists allows effective therapy of experimental autoimmune encephalomyelitis. Beyersdorf N, etal., J Exp Med. 2005 Aug 1;202(3):445-55.
6. Differences in allergen-induced T cell activation between allergic asthma and rhinitis: Role of CD28, ICOS and CTLA-4. Botturi K, etal., Respir Res. 2011 Feb 28;12:25.
7. A critical role for DAP10 and DAP12 in CD8+ T cell-mediated tissue damage in large granular lymphocyte leukemia. Chen X, etal., Blood. 2009 Apr 2;113(14):3226-34. Epub 2008 Dec 15.
8. Dendritic Cells and CD28 Costimulation Are Required To Sustain Virus-Specific CD8+ T Cell Responses during the Effector Phase In Vivo. Dolfi DV, etal., J Immunol. 2011 Apr 15;186(8):4599-608. Epub 2011 Mar 9.
9. Rapid recovery from T lymphopenia by CD28 superagonist therapy. Elflein K, etal., Blood. 2003 Sep 1;102(5):1764-70. Epub 2003 May 15.
10. CD28 exerts protective and detrimental effects in a pulmonary model of paracoccidioidomycosis. Felonato M, etal., Infect Immun. 2010 Nov;78(11):4922-35. Epub 2010 Aug 16.
11. 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.
12. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
13. Differential effect of CD28 versus B7 blockade on direct pathway of allorecognition and self-restricted responses. Haspot F, etal., Blood 2002 Mar 15;99(6):2228-34.
14. CD8+ T cell responses in bronchoalveolar lavage fluid and peripheral blood mononuclear cells of infants with severe primary respiratory syncytial virus infections. Heidema J, etal., J Immunol. 2007 Dec 15;179(12):8410-7.
15. T-cell activation profiles in different granulomatous interstitial lung diseases--a role for CD8+CD28(null) cells? Heron M, etal., Clin Exp Immunol. 2010 May;160(2):256-65. Epub 2009 Dec 17.
16. Association studies of CTLA-4, CD28, and ICOS gene polymorphisms with type 1 diabetes in the Japanese population. Ihara K, etal., Immunogenetics. 2001 Aug;53(6):447-54.
17. High-density rat radiation hybrid maps containing over 24,000 SSLPs, genes, and ESTs provide a direct link to the rat genome sequence. Kwitek AE, etal., Genome Res. 2004 Apr;14(4):750-7
18. T cell senescence and contraction of T cell repertoire diversity in patients with chronic obstructive pulmonary disease. Lambers C, etal., Clin Exp Immunol. 2009 Mar;155(3):466-75.
19. [Effects of Tongbi Mixture 2 on expressions of CD28 and CD152 and content of tumor necrosis factor-alpha in peripheral blood in rats with collagen-induced arthritis] Liu H, etal., Zhong Xi Yi Jie He Xue Bao. 2008 Jul;6(7):744-7.
20. Immunological aspects of chronic fatigue syndrome. Lorusso L, etal., Autoimmun Rev. 2009 Feb;8(4):287-91. Epub 2008 Sep 16.
21. The Th2-response in mercuric chloride-induced autoimmunity requires continuing costimulation via CD28. Macphee IA, etal., Clin Exp Immunol 2002 Sep;129(3):405-10.
22. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
23. A CD28 superagonistic antibody elicits 2 functionally distinct waves of T cell activation in rats. Muller N, etal., J Clin Invest. 2008 Apr;118(4):1405-16.
24. Better-surviving liver grafts by the injection of anti-CD2 antibody: the important roles of host CD8+ and CD2+CD28+ T cells in chronic graft rejection and beta type platelet-derived growth factor receptor (PDGFR-beta) expression on apoptotic liver grafts. Nakatsuji T Tohoku J Exp Med. 1999 Mar;187(3):215-25.
25. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
26. CD40 and CD80/86 act synergistically to regulate inflammation and mortality in polymicrobial sepsis. Nolan A, etal., Am J Respir Crit Care Med. 2008 Feb 1;177(3):301-8. Epub 2007 Nov 7.
27. [Surface expression of costimulatory molecules CD28/CTLA-4 on peripheral blood T lymphocytes in the course of type 1 diabetes mellitus in children and adolescents] Pawlowski P, etal., Endokrynol Diabetol Chor Przemiany Materii Wieku Rozw. 2004;10(2):81-5.
28. Low dose streptozotocin-induced diabetes in rat insulin promoter-mCD80-transgenic mice is T cell autoantigen-specific and CD28 dependent. Pechhold K, etal., J Immunol. 2001 Feb 15;166(4):2531-9.
29. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
30. GOA pipeline RGD automated data pipeline
31. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
32. Translocation of CD28 to lipid rafts and costimulation of IL-2. Sadra A, etal., Proc Natl Acad Sci U S A 2004 Aug 3;101(31):11422-7. Epub 2004 Jul 27.
33. Treatment and prevention of experimental autoimmune neuritis with superagonistic CD28-specific monoclonal antibodies. Schmidt J, etal., J Neuroimmunol. 2003 Jul;140(1-2):143-52.
34. Cellular distribution and costimulatory function of rat CD28. Regulated expression during thymocyte maturation and induction of cyclosporin A sensitivity of costimulated T cell responses by phorbol ester. Tacke M, etal., J Immunol. 1995 May 15;154(10):5121-7.
35. Association of common T cell activation gene polymorphisms with multiple sclerosis in Australian patients. Teutsch SM, etal., J Neuroimmunol 2004 Mar;148(1-2):218-30.
36. Treatment and prevention of experimental autoimmune myocarditis with CD28 superagonists. Wang S, etal., Cardiology. 2010;115(2):107-13. doi: 10.1159/000256660. Epub 2009 Nov 10.
Additional References at PubMed
PMID:1309509   PMID:3159820   PMID:3875683   PMID:7544393   PMID:7688139   PMID:7790813   PMID:8125140   PMID:8617933   PMID:9368605   PMID:10429671   PMID:10791997   PMID:11390434  
PMID:12707299   PMID:12777399   PMID:12867038   PMID:12874832   PMID:12925852   PMID:14973438   PMID:15067037   PMID:15240667   PMID:15491677   PMID:16809611   PMID:18089392   PMID:18337562  
PMID:18408588   PMID:18641304   PMID:18727698   PMID:19641626   PMID:19811406   PMID:21245484   PMID:21487638   PMID:21745657   PMID:22564625   PMID:23589618   PMID:23793062   PMID:23817958  
PMID:24043548  


Genomics

Comparative Map Data
Cd28
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8969,660,316 - 69,689,192 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl969,545,326 - 69,689,192 (+)EnsemblGRCr8
mRatBN7.2962,166,324 - 62,194,674 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl962,166,192 - 62,194,685 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx970,668,268 - 70,693,746 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0975,783,858 - 75,809,336 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0974,102,440 - 74,127,918 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0967,546,408 - 67,573,858 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl967,546,408 - 67,571,871 (+)Ensemblrn6Rnor6.0
Rnor_5.0967,358,994 - 67,386,424 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4959,342,273 - 59,367,743 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera959,589,124 - 59,614,592 (+)NCBICelera
RGSC_v3.1959,489,254 - 59,514,725 (+)NCBI
RH 3.4 Map9504.6RGD
Cytogenetic Map9q32NCBI
CD28
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382203,706,482 - 203,738,912 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2203,706,517 - 203,739,756 (+)Ensemblhg38GRCh38
GRCh372204,571,205 - 204,603,635 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362204,279,443 - 204,310,801 (+)NCBIBuild 36Build 36hg18NCBI36
Build 342204,396,703 - 204,428,062NCBI
Celera2198,326,049 - 198,357,410 (+)NCBICelera
Cytogenetic Map2q33.2NCBI
HuRef2196,418,462 - 196,450,899 (+)NCBIHuRef
CHM1_12204,577,787 - 204,610,219 (+)NCBICHM1_1
T2T-CHM13v2.02204,188,401 - 204,220,837 (+)NCBIT2T-CHM13v2.0
Cd28
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39160,785,547 - 60,812,521 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl160,755,959 - 60,812,518 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38160,746,388 - 60,773,359 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl160,716,800 - 60,773,359 (+)Ensemblmm10GRCm38
MGSCv37160,803,232 - 60,830,203 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36160,691,012 - 60,717,905 (+)NCBIMGSCv36mm8
Celera161,261,669 - 61,288,639 (+)NCBICelera
Cytogenetic Map1C2NCBI
cM Map130.52NCBI
Cd28
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495545711,162,282 - 11,192,991 (-)Ensembl
ChiLan1.0NW_00495545711,159,769 - 11,253,099 (-)NCBIChiLan1.0ChiLan1.0
CD28
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v213106,310,207 - 106,343,899 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12B106,325,199 - 106,358,891 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02B90,938,795 - 90,971,438 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12B209,076,388 - 209,111,213 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2B209,076,388 - 209,111,213 (+)EnsemblpanPan2panpan1.1
CD28
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13712,503,849 - 12,536,362 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3712,503,811 - 12,532,854 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha3713,387,259 - 13,416,196 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.03712,440,597 - 12,473,128 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3712,440,613 - 12,471,203 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13712,397,782 - 12,426,685 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03712,360,914 - 12,389,827 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03712,361,906 - 12,391,080 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cd28
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405303160,682,644 - 160,728,827 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936631335,411 - 363,407 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936631335,411 - 363,407 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CD28
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl15107,128,203 - 107,162,935 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.115107,128,103 - 107,155,431 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.215118,472,553 - 118,502,433 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CD28
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11089,471,710 - 89,505,152 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1089,471,730 - 89,500,387 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_023666040109,879,825 - 109,913,281 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cd28
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462476512,650,092 - 12,667,168 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Cd28
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v14134,828,884 - 134,854,658 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Cd28
218 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:75
Count of miRNA genes:62
Interacting mature miRNAs:70
Transcripts:ENSRNOT00000013701
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

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

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


QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2303170Bp332Blood pressure QTL 3323.730.027arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)9671488884474983Rat
631656Bp108Blood pressure QTL 1085.970.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)956047863101047863Rat
7411571Bw138Body weight QTL 13814.30.001body mass (VT:0001259)body weight gain (CMO:0000420)94002992585029925Rat
1582203Gluco19Glucose level QTL 193.30.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)963376862108376862Rat
8662828Vetf6Vascular elastic tissue fragility QTL 63.9artery integrity trait (VT:0010639)patent ductus arteriosus score (CMO:0002566)94445825699506504Rat
724515Uae16Urinary albumin excretion QTL 168urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)965657365108376720Rat
61450Ciaa3CIA Autoantibody QTL 36.5blood autoantibody amount (VT:0003725)calculated serum anti-type 2 collagen antibody titer (CMO:0001279)92956766474567664Rat
1598834Memor11Memory QTL 112.5exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)94445825685262605Rat
70186Niddm26Non-insulin dependent diabetes mellitus QTL 263.87blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)92956766483835942Rat
70218Cm28Cardiac mass QTL 288.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)94172029586720295Rat
724544Uae9Urinary albumin excretion QTL 94.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)964220169109220169Rat
2290450Scl57Serum cholesterol level QTL 574.15blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)944458256121768150Rat
1578760Cm53Cardiac mass QTL 533.30.0001heart mass (VT:0007028)heart wet weight (CMO:0000069)964220169109220169Rat
1581580Uae34Urinary albumin excretion QTL 34urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)964220169109220169Rat
1581517Bp284Blood pressure QTL 284arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)93922018684220186Rat
1300134Bp185Blood pressure QTL 1853.73arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)968875497121768150Rat
731164Uae25Urinary albumin excretion QTL 253.50.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)948718864108376862Rat
7411656Foco26Food consumption QTL 269.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)94002992585029925Rat
1598849Memor17Memory QTL 172.2exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)95746049778547958Rat
1578659Tspe1Trichinella spiralis expulsion QTL 14.8parasite quantity (VT:0010441)logarithm of the intestinal adult Trichinella spiralis count (CMO:0002024)96887549773185088Rat
4889943Bss90Bone structure and strength QTL 904.1tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)95450650499506504Rat
1578757Pur6Proteinuria QTL 63.30.005urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)964220169109220169Rat
1641894Alcrsp12Alcohol response QTL 12response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)93496059079960590Rat

Markers in Region
RH94659  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr8969,685,588 - 69,685,774 (+)Marker Load Pipeline
mRatBN7.2962,191,596 - 62,191,782 (+)MAPPERmRatBN7.2
Rnor_6.0967,571,681 - 67,571,866NCBIRnor6.0
Rnor_5.0967,384,268 - 67,384,453UniSTSRnor5.0
RGSC_v3.4959,367,553 - 59,367,738UniSTSRGSC3.4
Celera959,614,402 - 59,614,587UniSTS
RH 3.4 Map9504.6UniSTS
Cytogenetic Map9q31UniSTS


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
16 12 67 151 87 86 55 92 55 6 350 192 11 130 79 92 31 14 14

Sequence


Ensembl Acc Id: ENSRNOT00000013701   ⟹   ENSRNOP00000013701
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl962,166,194 - 62,191,787 (+)Ensembl
Rnor_6.0 Ensembl967,546,408 - 67,571,871 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000117401   ⟹   ENSRNOP00000087151
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl962,166,192 - 62,191,787 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000119892   ⟹   ENSRNOP00000076494
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl969,643,789 - 69,689,192 (+)Ensembl
mRatBN7.2 Ensembl962,166,194 - 62,194,685 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000122143
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl969,558,015 - 69,689,192 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000128750
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl969,545,326 - 69,689,192 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000141626
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl969,632,921 - 69,689,185 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000173453
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl969,554,725 - 69,689,185 (+)Ensembl
RefSeq Acc Id: NM_013121   ⟹   NP_037253
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8969,660,316 - 69,685,779 (+)NCBI
mRatBN7.2962,166,324 - 62,191,787 (+)NCBI
Rnor_6.0967,546,408 - 67,571,871 (+)NCBI
Rnor_5.0967,358,994 - 67,386,424 (+)NCBI
RGSC_v3.4959,342,273 - 59,367,743 (+)RGD
Celera959,589,124 - 59,614,592 (+)RGD
Sequence:
RefSeq Acc Id: XM_008767078   ⟹   XP_008765300
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8969,660,414 - 69,689,192 (+)NCBI
mRatBN7.2962,170,472 - 62,194,674 (+)NCBI
Rnor_6.0967,549,987 - 67,573,858 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_037253 (Get FASTA)   NCBI Sequence Viewer  
  XP_008765300 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA39003 (Get FASTA)   NCBI Sequence Viewer  
  EDL98926 (Get FASTA)   NCBI Sequence Viewer  
  P31042 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_037253   ⟸   NM_013121
- Peptide Label: precursor
- UniProtKB: P31042 (UniProtKB/Swiss-Prot),   A6IPD4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008765300   ⟸   XM_008767078
- Peptide Label: isoform X1
- UniProtKB: P31042 (UniProtKB/Swiss-Prot),   G3V7C2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000013701   ⟸   ENSRNOT00000013701
Ensembl Acc Id: ENSRNOP00000076494   ⟸   ENSRNOT00000119892
Ensembl Acc Id: ENSRNOP00000087151   ⟸   ENSRNOT00000117401
Protein Domains
Ig-like V-type   Immunoglobulin V-set

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P31042-F1-model_v2 AlphaFold P31042 1-218 view protein structure

Transcriptome

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

Promoters
RGD ID:13696707
Promoter ID:EPDNEW_R7232
Type:initiation region
Name:Cd28_1
Description:Cd28 molecule
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0967,546,375 - 67,546,435EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2299 AgrOrtholog
BioCyc Gene G2FUF-27371 BioCyc
Ensembl Genes ENSRNOG00000010283 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000119892 ENTREZGENE
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot
InterPro CD28 UniProtKB/Swiss-Prot
  CTLA4/CD28 UniProtKB/Swiss-Prot
  Ig-like_dom_sf UniProtKB/Swiss-Prot
  Ig-like_fold UniProtKB/Swiss-Prot
  Ig_V-set UniProtKB/Swiss-Prot
KEGG Report rno:25660 UniProtKB/Swiss-Prot
NCBI Gene 25660 ENTREZGENE
PANTHER PTHR11494 UniProtKB/Swiss-Prot
  T-CELL-SPECIFIC SURFACE GLYCOPROTEIN CD28 UniProtKB/Swiss-Prot
Pfam V-set_2 UniProtKB/Swiss-Prot
PhenoGen Cd28 PhenoGen
PRINTS CD28ANTIGEN UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000010283 RatGTEx
Superfamily-SCOP SSF48726 UniProtKB/Swiss-Prot
UniProt A6IPD4 ENTREZGENE, UniProtKB/TrEMBL
  CD28_RAT UniProtKB/Swiss-Prot
  G3V7C2 ENTREZGENE
  P31042 ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-06-27 Cd28  Cd28 molecule  Cd28  CD28 antigen  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2002-06-10 Cd28  CD28 antigen      Symbol and Name status set to approved 70586 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_function binds to B7-1 or B7-2 on Antigen Presenting Cells 634714
gene_process involved in initiation of the Th2-response; may be required to maintain basal IgE production during mercuric chloride (HgCl2)-induced autoimmunity 634715
gene_process costimulatory molecule for T-cell proliferation, particularly during T-cell mediated allograft responses 634714