|
Project Documentation & Protocols: Maize Gene Discovery Project: Microarrays: Controls
Contents: Index | Progress | Controls | Libraries | Arrays | Data | Protocols | Ordering | Links | FAQs
Controls from several different sources will be used on the Maize Gene Discovery Microarrays. Sequences were either
contributed by members of this group and colleagues,
selected from our maize EST libraries because they have sequence homology to known 'house-keeping' or common genes or
acquired from a 'Plant Core Control Kit' being assembled by members of Dr. Pam Green's lab at Michigan State University (MSU).
Controls contributed by members of the Maize Gene Discovery Group include maize genes with known functions key to future experiments including MuDR genes, as well as transgenes, and contamination controls. 'Plant Core Control Kits' being developed at Michigan State University will likely be composed of genes from several different plant species. However, maize sequences have been contributed by the Maize Gene Discovery Project including several MuDR clones, Ac transposase, RuBISCO, ubiquitin, actin, EF1a, TUFA, PS1, HMG1, and Glutamine synthase. Some sequences from this kit have already been provided to us. Additionally we include several sequences of human DNA with low homology to maize genes as spiking controls.
Contributed sequences were prepared by isolating plasmids from overnight bacterial cultures (alkaline lysis) and then sequenced for validation. PCR reactions were performed in multiple 75 ul reactions and analyzed by gel electrophoresis. PCR products were 'cleaned-up' using MultiScreen PCR Clean-up Plates (Millipore).
If you need more information on any of the control genes, please contact the lab of origin.
| Plate Location | Gene Name | Plasmid Name | Vector | PCR Primers | PCR Product Size | Lab of Origin | Arrays Printed On |
| a1 | Multi-drug resistance protein EST 11 | MRP11 | pSPOR1 | "T7,T3" | 0.7 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| b1 | Multi-drug resistance protein 40 5' UTR | MRP40 | pSPOR1 | "T7,T3" | 1.2 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| c1 | Multi-drug resistance protein EST 15 | MRP15 | pSPOR1 | "T7,T3" | 1 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| d1 | Multi-drug resistance protein EST 23 | MRP23 | pSPOR1 | "T7,T3" | 0.95 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| e1 | Multi-drug resistance protein 29 3' UTR | MRP29 | pSPOR1 | "T7,T3" | 0.8 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| f1 | Multi-drug resistance protein EST 33 | MRP33 | pSPOR1 | "T7,T3" | 0.65 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| g1 | Multi-drug resistance protein EST 47 | MRP47 | pSPOR1 | "T7,T3" | 0.65 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| h1 | Multi-drug resistance protein EST 89 | MRP89 | pSPOR1 | "T7,T3" | 0.8 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| a2 | Multi-drug resistance protein EST 46 | MRP46 | pGM-T | "T7,SP6" | 1 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| b2 | Full length mudrB gene + TIR region | PTIR/B | pUC19 | "M13F, M13R" | 1.2 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| c2 | Full length mudrB gene | PB | pUC19 | "M13F, M13R" | 0.73 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| d2 | MudR region 1-560 | PTIR/A | pUC19 | "M13F, M13R" | 0.57 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| e2 | MudrA cDNA (MuDR pos.450-1430) | PAE1/2 | pUC19 | "M13F, M13R" | 0.84 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| f2 | MudrA cDNA (MuDR pos.224-1430) | PAUTR/E1/2 | pUC19 | "M13F, M13R" | 0.95 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| g2 | MudrA cDNA (MuDR pos 1411- 2167) | PAE2 | pUC19 | "M13F, M13R" | 0.78 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| h2 | MudrA cDNA (MuDR pos. 2876-3140) | PAE3 | pUC19 | "M13F, M13R" | 0.28 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| a3 | (Gene MuDR) Mu* | VC14 | pBluescript SK+ | "T7, T3" | 1.1 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| b3 | (Gene MuRA) MuRA 3' Bam/EcoRI cDNA | VC16 | pBluescript SK+ | "T7, T3" | 0.47 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| c3 | (Gene MuRA) MuRA 3' Bam/HindIII cDNA | VC17 | pBluescript SK+ | "T7, T3" | 0.62 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| d3 | (Gene MuRA) MuRA HindIII 5' mid cDNA | VC19 | pBluescript SK+ | "T7, T3" | 0.8 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| e3 | 3' EcoRI/PstI fragment of C1 cDNA | C13'R/P | pBluescript SK+ | "T7, T3" | 0.375 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| f3 | 434 bp of a1 cDNA | VC1 | pBluescript SK+ | "T7, T3" | 0.43 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| g3 | a1 cDNA | VC2 | pBluescript SK+ | "T7, T3" | 1.3 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| h3 | a1 3' cDNA | VC3 | pBluescript SK+ | "T7, T3" | 0.45 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| a4 | 610 bp of B1 cDNA | VC11 | pBluescript SK+ | "T7, T3" | 0.6 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| b4 | 662 bp of c2 cDNA | VC12 | pBluescript SK+ | "T7, T3" | 0.65 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| c4 | 435-1816 bp of C2 cDNA | VC7 | pBluescript SK+ | "T7, T3" | 0.45 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| d4 | a1 mid2-4c | VC4 | pBluescript SK+ | "T7, T3" | 0.4 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| e4 | MudrA | VC15 | pBluescript SK+ | "T7, T3" | 0.5 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| f4 | PL1 Jh7(p) | VC10 | pBluescript SK+ | "T7, T3" | 0.5 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| g4 | bronze1 (bz1 ex2 (5')) | VC6 | pBluescript SK+ | "T7, T3" | 0.35 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| h4 | KN1 cDNA | ks3'Kpn | pBluescript SK+ | "T7, T3" | 0.7 | Hake lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| a5 | 0.8kb KIN cDNA | 87 EcoR1-XhoI | pBluescript SK+ | "T7, T3" | 1 | Hake lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| b5 | 1.0 kb Knox1 gene cDNA | pEV131 | pBluescript SK+ | "T7, T3" | 1.2 | Hake lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| c5 | 1.0 kb Knox2 gene cDNA | pEV4D | pBluescript SK+ | "T7, T3" | 1.2 | Hake lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| d5 | 1.0 kb Knox 5 gene genomic | b15-1 | pBluescript SK+ | "T7, T3" | 1.2 | Hake lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| e5 | 0.8 kb Knox 6 gene cDNA | EC2-3 | pBluescript SK+ | "T7, T3" | 0.95 | Hake lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| f5 | 0.7 kb Knox7 gene cDNA | EC2-4 | pBluescript SK+ | "T7, T3" | 0.9 | Hake lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| g5 | 0.4 kb Knox 8 gene cDNA | 17A1 | pBluescript SK+ | "T7, T3" | 0.4 | Hake lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| h5 | Maize GST1 cDNA | PBS-GSTI | pBluescript SK+ | "T7, T3" | 1.2 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| a6 | Maize GSTIII cDNA | PBSGSTIII | pBluescript SK+ | "T7, T3" | 1.2 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| b6 | Prolamine binding factor cDNA 300 bp AC#U82230 | PBF | pAD-Gal4-2.1 | "605F, 605R" | 0.5 | Schmidt lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| c6 | 1100 bp of B32 | B32 | pAD-Gal4-2.1 | "605F, 605R" | 1.2 | Schmidt lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| d6 | 420 bp of O2 | O2 | pAD-Gal4-2.1 | "605F, 605R" | 0.6 | Schmidt lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| e6 | Elongation Factorr 1A | 605077A07 | pAD-Gal4-2.1 | "605F, 605R" | 1.3 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| f6 | Elongation Facrot 1A | 605057B12 | pAD-Gal4-2.1 | "605F, 605R" | 0.4 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| g6 | Elongation Facrot 1A | 605017C01 | pAD-Gal4-2.1 | "605F, 605R" | 1.6 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| h6 | Tubulin alpha 1/2/3 chain | 605072H11 | pAD-Gal4-2.1 | "605F, 605R" | 1 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| a7 | Tubulin alpha 1/2 chain | 605032H06 | pAD-Gal4-2.1 | "605F, 605R" | 1.5 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| b7 | Tubulin alpha 1/2 chain | 605054G06 | pAD-Gal4-2.1 | "605F, 605R" | 1.6 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| c7 | Tubulin alpha 3 chain | 605028B02 | pAD-Gal4-2.1 | "605F, 605R" | 1.5 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| d7 | Arath act 1/7 actin 11 | 605053G09 | pAD-Gal4-2.1 | "605F, 605R" | 1.5 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| e7 | Actin 11 | 605017E10 | pAD-Gal4-2.1 | "605F, 605R" | "1.5, 0.7" | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| f7 | Vacuolar ATPase 69 Kda subunit (A) | 605077C08 | pAD-Gal4-2.1 | "605F, 605R" | 1.7 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| g7 | Histone H1 homolog | 605054D10 | pAD-Gal4-2.1 | "605F, 605R" | 0.7 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| h7 | Histone H2A homolog | 605058D08 | pAD-Gal4-2.1 | "605F, 605R" | 0.8 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| a8 | Histone H2A homolog | 605065C09 | pAD-Gal4-2.1 | "605F, 605R" | 0.8 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| b8 | Histone H2A homolog | 605088B07 | pAD-Gal4-2.1 | "605F, 605R" | 0.7 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| c8 | Histone H4 | 605004D02 | pAD-Gal4-2.1 | "605F, 605R" | 0.7 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| d8 | Rubisco subunit binding protein B subunit | 606002C02 | pBK-CMV | "T7, T3" | 1.5 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| e8 | Rubisco subunit binding protein B subunit | 605088A02 | pAD-Gal4-2.1 | "605F, 605R" | "1.7,1" | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| f8 | Rubisco smaller subunit | 707012E03 | pGAD10 | "707F,707R" | 1.2 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| g8 | Rubisco smaller subunit | 707050B11 | pGAD10 | "707F,707R" | 1 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| h8 | Rubisco larger subunit | 687006H08 | pBluescript SK- | "T7, T3" | 1.5 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| a9 | Photosystem II 10 Kda polypeptide precursor | 707001E07 | pGAD10 | "707F,707R" | 0.9 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| b9 | Photosystem II | 603025F08 | pBluescript SK+ | "T7, T3" | 0.8 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| c9 | Photosystem II | 603006B05 | pBluescript SK+ | "T7, T3" | 0.8 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| d9 | Photosystem I | 486072A01 | pBluescript SK- | "T7, T3" | 1.5 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| e9 | Photosystem I | 687068B01 | pBluescript SK- | "T7, T3" | 1.6 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| f9 | HMG1/2 like protein | 606045H01 | pBK-CMV | "T7, T3" | 1 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| g9 | HMG1/2 like protein | 606055D02 | pBK-CMV | "T7, T3" | 1 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| h9 | MNBB DNA binding protein | 605070E11 | pAD-Gal4-2.1 | "605F, 605R" | 1.1 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| a10 | MNBB DNA binding protein | 618049A09 | pAD-Gal4-2.1 | "605F, 605R" | 0.5 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| b10 | Elongation factor TU | 687044D07 | pBluescript SK- | "T7, T3" | 1.7 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| c10 | Elongation factor TU | 605019C05 | pAD-Gal4-2.1 | "605F, 605R" | 1 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| d10 | Elongation factor TU | 605010F02 | pAD-Gal4-2.1 | "605F, 605R" | 0.7 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| e10 | Elongation factor TU | 605065A08 | pAD-Gal4-2.1 | "605F, 605R" | 1.5 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| f10 | Glutamine synthase | 603006F12 | pBluescript SK+ | "T7, T3" | 1 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| g10 | Glutamine synthase | 603029G03 | pBluescript SK+ | "T7, T3" | 1.7 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| h10 | Ubiquitin 2 975bp | VC18 | pBluescript SK+ | "T7, T3" | 1.2 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| a11 | Ubiquitin 2 skubiquii cDNA | VC9 | pBluescript SK+ | "T7, T3" | 0.4 | Chandler lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| b11 | BAR gene | KS+BAR | pBluescript SK+ | "T7, T3" | 0.8 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| c11 | BAR gene | PGSABAR | pBluescript SK+ | "T7, T3" | 1.5 | Jorgenson lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| d11 | Luciferase gene | PJD281 | pUC18 | "M13F, M13R" | 2 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| e11 | B-glucoronidase | PJD327 | pUC18 | "M13F, M13R" | 2 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| f11 | NPTIII | KS+KMIII | pBluescript SK+ | "T7, T3" | 1.2 | Walbot lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| g11 | "Human control, used as RT spikeing control" | PHUM1 | pT7T3 | "T7, T3" | 0.9 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| h11 | "Human control, used as RT spikeing control" | PHUM2 | pT7T3 | "T7, T3" | 0.9 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| a12 | "Human control, used as RT spikeing control" | PHUM4 | pT7T3 | "T7, T3" | 0.8 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| b12 | "Human control, used as RT spikeing control" | PHUM5 | pT7T3 | "T7, T3" | 0.8 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| c12 | "Human control, used as RT spikeing control" | PHUM6 | pT7T3 | "T7, T3" | 0.6 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| d12 | "Human control, used as RT spikeing control" | PHUM7 | pT7T3 | "T7, T3" | 0.4 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
| e12 | "Human control, used as RT spikeing control" | PHUM8 | pT7T3 | "T7, T3" | 0.6 | Galbraith lab | "605.03,605.04,605-05,606.01,614.01,614-02,486-01,UG1-1" |
Return to Documentation Index | Return to Maize Gene Discovery Project index | Return to Homepage
|
