Table 2 Functional categories (putative functions) of proteins deduced from the obtained cDNAs (116 unigenes) after subtraction of waxy rice ( GM077 ) with its wild-type (BP034)
Clone ID | Number of clones | Top-matched molecule in Genbank on Blastx (accession number) | Top-matched molecule in Genbank on Blastx (species) | Protein name and/or putative function | e-Value | COGs |
|---|---|---|---|---|---|---|
INFORMATION STORAGE AND PROCESSING (13) | ||||||
[J] Translation, ribosomal structure and biogenesis (3) | ||||||
D06 | 1 | P49608.1 | Cucurbita maxima | Aconitate hydratase, cytoplasmic | 7.00E-52 | KOG0452 |
C46 | 6 | ACM79935.1 | Populus deltoides | Eukaryotic translation, initiation factor 5A | 7.00E-14 | KOG3271 |
2B05 | 1 | NP_001148134.1 | Zea mays | Arginyl-tRNA synthetase | 7.00E-62 | KOG4426 |
[A] RNA processing and modification (NONE) | ||||||
[K] Transcription (5) | ||||||
B34 | 6 | ACG28870.1 | Zea mays | Transcription factor BTF3 | 3.00E-40 | KOG2240 |
E14 | 2 | BAD08114.1 | Oryza sativa | Putative SET domain protein SDG117 | 1.00E-34 | KOG1082 |
A62 | 8 | NP_001054968.1 | Oryza sativa | RNA polymerase I-associated factor PAF67 | 1.00E-39 | KOG3677 |
C11 | 1 | NP_001060344.1 | Oryza sativa | Myb-related protein B (B-Myb) | 7.00E-86 | KOG0048 |
B30 | 1 | EEE62186.1 | Oryza sativa | Hypothetical protein OsJ_16973 | 7.00E-50 | KOG1878 |
A47 | 2 | EEE62186.1 | Oryza sativa | Hypothetical protein OsJ_16973 | 1.00E-59 | KOG1878 |
[L] Replication, recombination and repair (1) | ||||||
C54 | 5 | EEE66658.1 | Oryza sativa | Hypothetical protein OsJ_23285 | 3.00E-50 | KOG4585 |
[B] Chromatin structure and dynamics (3) | ||||||
C41 | 3 | NP_569031.1 | Arabidopsis thaliana | Transducin family protein / WD-40 repeat family protein | 1.00E-59 | KOG1446 |
B86 | 2 | NP_001047885.1 | Oryza sativa | Nuclear protein SET domain containing protein | 7.00E-121 | KOG1082 |
A76 | 1 | CAL54140.1 | Ostreococcus tauri | Histones H3 and H4 (ISS) | 3.00E-15 | KOG1745 |
CELLULAR PROCESSES AND SIGNALING (21) | ||||||
[D] Cell cycle control, cell division, chromosome partitioning (2) | ||||||
D22 | 1 | ABG65960.1 | Oryza sativa | PAP/25A associated domain containing protein, expressed (Nucleotidyltransferase domain) | 7.00E-17 | KOG2277 |
D27 | 1 | AAY23369.1 | Oryza sativa | Retinoblastoma-related protein 2 | 4.00E-35 | KOG1010 |
[Y] Nuclear structure (NONE) | ||||||
[V] Defense mechanisms (NONE) | ||||||
[T] Signal transduction mechanisms (3) | ||||||
B00 | 2 | NP_194324.2 | Arabidopsis thaliana | Epsin N-terminal homology (ENTH) domain-containing protein | 1.00E-08 | KOG0251 |
D66 | 1 | NP_001056986.1 | Oryza sativa | Hypothetical protein(Two-component response regulator ARR14) | 5.00E-35 | COG0745 |
E43 | 31 | NP_001148041.1 | Zea mays | CBL-interacting serine/threonine-protein kinase 15 | 1.00E-82 | KOG0583 |
[M] Cell wall/membrane/envelope biogenesis (3) | ||||||
F70 | 1 | AAO72599.1 | Oryza sativa | Putative 2-dehydro-3-deoxyphosphooctonate aldolase | 9.00E-66 | COG2877 |
E73 | 1 | AAT80327.1 | Hordeum vulgare | UDP-D-glucuronate decarboxylase | 2.00E-36 | KOG1429 |
A21 | 5 | AAT80327.1 | Hordeum vulgare | UDP-D-glucuronate decarboxylase | 3.00E-17 | KOG1429 |
[N] Cell motility (NONE) | ||||||
[Z] Cytoskeleton (2) | ||||||
B38 | 6 | NP_563908.1 | Arabidopsis thaliana | ARK3(ARMADILLO REPEAT KINESIN 3); ATP binding/ binding/microtubule motor | 1.00E-18 | KOG0240 |
C80 | 11 | NP_171697.3 | Arabidopsis thaliana | Armadillo/ß-catenin repeat family protein/kinesin motor family protein | 3.00E-86 | KOG0240 |
[W] Extracellular structures (NONE) | ||||||
[U] Intracellular trafficking, secretion, and vesicular transport (4) | ||||||
F48 | 1 | ABA95598.1 | Oryza sativa | Clathrin heavy chain, putative, expressed | 5.00E-08 | KOG0985 |
D80 | 1 | ABF95668.1 | Oryza sativa | Serologically defined breastcancer antigen NY-BR-84, putative, expressed | 2.00E-69 | KOG2667 |
F23 | 1 | ACG31280.1 | Zea mays | ADP-ribosylation factor 1 | 9.00E-18 | KOG0070 |
E39 | 1 | NP_001150650.1 | Zea mays | Serologically defined breast cancer antigen NY-BR-84 | 6.00E-32 | KOG2667 |
[O] Posttranslational modification, protein turnover, chaperones (7) | ||||||
B28 | 1 | AAK51086.1 | Avicennia marina | Mitochondrial processing peptidase | 2.00E-50 | KOG0960 |
A32 | 1 | BAB78487.1 | Oryza sativa | 26S proteasome regulatory particle non-ATPase subunit8 | 1.00E-21 | KOG1556 |
C67 | 2 | BAF00213.1 | Arabidopsis thaliana | Polyubiquitin 4 UBQ4 | 5.00E-31 | KOG0001 |
B58 | 1 | NP_001054802.1 | Oryza sativa | Zn-finger, RING domain containing protein | 5.00E-57 | KOG0800 |
04C04 | 1 | ACG31834.1 | Zea mays | Peptidyl-prolyl cis-trans isomerase NIMA-interacting 4 | 7.00E-38 | KOG3258 |
D56 | 3 | NP_001147507.1 | Zea mays | ATP-dependent Clp protease ATP-binding subunit clpX | 8.00E-08 | KOG0745 |
D60 | 1 | NP_001149461.1 | Zea mays | Pyrrolidone carboxyl peptidase | 9.00E-44 | KOG4755 |
METABOLISM (23) | ||||||
[C] Energy production and conversion (5) | ||||||
D01 | 10 | AF162665_1 | Oryza sativa | Aldehyde dehydrogenase | 5.00E-61 | KOG2450 |
E05 | 3 | BAB44155.1 | Bruguiera, gymnorhiza | Hydroxypyruvate reductase | 8.00E-29 | KOG0069 |
C01 | 1 | NP_176968.1 | Arabidopsis, thaliana | HPR; glycerate dehydrogenase/poly(U) binding | 2.00E-29 | KOG0069 |
D14 | 25 | ABB47885.1 | Oryza sativa | Electron transfer flavoprotein- ubiquinone oxidoreductase, mitochondrial precursor, putative, expressed | 7.00E-95 | KOG2415 |
D33 | 2 | NP_001149476.1 | Zea mays | Vacuolar ATP synthase subunit F | 2.00E-25 | KOG3432 |
[G] Carbohydrate transport and metabolism (8) | ||||||
F66 | 1 | AAA82047.1 | Oryza sativa | Glyceraldehyde-3-phosphate dehydrogenase | 2.00E-48 | KOG0657 |
A15 | 1 | AAO27794.1 | Gossypium hirsutum | Glycosyl hydrolase (sugar binding domain) | 6.00E-30 | KOG2230 |
E47 | 22 | ABG22500.1 | Oryza sativa | Glycosyl hydrolases family 38 protein, expressed | 5.00E-48 | KOG1959 |
A64 | 1 | ACG45298.1 | Zea mays | Nucleotide-sugar transporter/ sugar porter | 2.00E-52 | KOG2234 |
A74 | 1 | ACJ86329.1 | Oryza sativa | ADP-glucose pyrophosphorylase small subunit | 0.00E+00 | COG0448 |
E73 | 1 | AAT80327.1 | Hordeum vulgare | UDP-D-glucuronate decarboxylase | 2.00E-36 | KOG1429 |
A21 | 5 | AAT80327.1 | Hordeum vulgare | UDP-D-glucuronate decarboxylase | 3.00E-17 | KOG1429 |
2B03 | 1 | BAC75533.1 | Oryza sativa | Isoamylase | 7.00E-66 | GKOG0470 |
[E] Amino acid transport and metabolism (3) | ||||||
E28 | 1 | P37833.1 | Oryza sativa | Aspartate aminotransferase, cytoplasmic | 4.00E-23 | KOG1411 |
E42 | 5 | ACG39804.1 | Zea mays | Histidinol-phosphate aminotransferase | 2.00E-76 | KOG0633 |
F16 | 1 | NP_001147070.1 | Zea mays | Nicalin | 4.00E-16 | KOG2526 |
[F] Nucleotide transport and metabolism (NONE) | ||||||
[H] Coenzyme transport and metabolism (1) | ||||||
F89 | 1 | ACG34051.1 | Zea mays | Farnesyl pyrophosphate synthetase | 5.00E-07 | KOG0711 |
[I] Lipid transport and metabolism (NONE) | ||||||
[P] Inorganic ion transport and metabolism (2) | ||||||
F76 | 1 | AAP31024.1 | Oryza sativa | Zinc transporter | 7.00E-31 | KOG1482 |
04F04 | 1 | NP_001149686.1 | Zea mays | Carbonic anhydrase | 3.00E-13 | KOG1578 |
[Q] Secondary metabolites biosynthesis, transport and catabolism (4) | ||||||
D58 | 56 | AAB19117.1 | Oryza sativa | Class III ADH enzyme | 2.00E-98 | KOG0022 |
A41 | 1 | NP_176471.1 | Arabidopsis thaliana | LDL1 (LSD1-LIKE1); amine oxidase/ electron carrier/ oxidoreductase | 1.00E-38 | KOG0029 |
E72 | 9 | ACM17649.1 | Oryza rufipogon | Alcohol dehydrogenase family-2 | 3.00E-25 | KOG0022 |
C77 | 4 | BAE00046.1 | Oryza sativa | Alcohol dehydrogenase | 4.00E-140 | KOG0022 |
POORLY CHARACTERIZED (9) | ||||||
[R] General function prediction only (6) | ||||||
C74 | 1 | BAB69445.1 | Oryza sativa | Hypothetical protein | 4.00E-19 | KOG1901 |
A46 | 2 | BAD82577.1 | Oryza sativa | PHD finger protein-like | 8.00E-13 | KOG1246 |
D20 | 1 | BAD11341.1 | Oryza sativa | BRI1-KD interacting protein 113 (RNA recognition motif) | 1.00E-51 | KOG0118 |
F31 | 1 | ABC94598.1 | Oryza sativa | NBS-LRR type R protein, Nbs2-Pi2 | 1.00E-80 | KOG0619 |
C50 | 8 | NP_001043287.1 | Oryza sativa | Zn-finger-like, PHD finger domain containing protein | 4.00E-79 | KOG1246 |
D53 | 1 | EEE55043.1 | Oryza sativa | Hypothetical protein OsJ_02730 | 1.00E-114 | KOG0431 |
D42 | 3 | EEE55043.1 | Oryza sativa | Hypothetical protein | 8.00E-93 | KOG0431 |
[S] Function unknown (2) | ||||||
F54 | 1 | NP_568713.1 | Arabidopsis thaliana | Emb1879 (embryo defective 1879) | 3.00E-47 | KOG4249 |
C18 | 1 | NP_001147117.1 | Zea mays | Nucleotide binding protein (WD40 domain) | 8.00E-32 | KOG0772 |
NO RELATED COG (3 BeTs) (26) | ||||||
A44 | 11 | BAD11344.1 | Oryza sativa | BRI1-KD interacting protein 116 | 3.00E-36 | NO RELATED |
C21 | 2 | ACN85167.1 | Oryza nivara | MYB-CC type transfactor | 5.00E-66 | |
C27 | 1 | ABA95230.1 | Oryza sativa | Retrotransposon protein, putative | 9.00E-17 | |
F81 | 1 | Q01881.2 | Oryza sativa | Seed allergenic protein RA5 | 3.00E-08 | |
F15 | 1 | AAP54389.2 | Oryza sativa | Ulp1 protease family, C-terminal catalytic domain containing protein | 7.00E-14 | |
F32 | 1 | NP_001052330.1 | Oryza sativa | Hypothetical protein | 7.00E-10 | |
A07 | 2 | NP_001054936.1 | Oryza sativa | Hypothetical protein | 1.00E-07 | |
F39 | 1 | NP_001058150.1 | Oryza sativa | Hypothetical protein | 1.00E-41 | |
A43 | 1 | NP_001066171.1 | Oryza sativa | Conserved hypothetical protein | 4.00E-07 | |
E29 | 21 | EAZ06308.1 | Oryza sativa | Hypothetical protein OsI_28542 | 8.00E-81 | |
C62 | 3 | ABR25963.1 | Oryza sativa | DnaJ heat shock protein | 1.00E-12 | |
C35 | 9 | ACA04850.1 | Picea abies | Senescence-associated protein | 8.00E-37 | |
B45 | 1 | EEC77808.1 | Oryza sativa | Hypothetical protein OsI_16996 | 5.00E-04 | |
C48 | 1 | EEC81525.1 | Oryza sativa | Hypothetical protein OsI_24919 | 1.00E-09 | |
D54 | 2 | EEE68920.1 | Oryza sativa | Hypothetical protein OsJ_27784 | 2.00E-100 | |
D79 | 1 | NP_001149805.1 | Zea mays | CUE domain containing protein | 4.00E-06 | |
D25 | 1 | NP_001060116.1 | Oryza sativa | WRKY transcription factor 34 | 2.00E-72 | |
04C03 | 2 | BAH91806.1 | Oryza sativa | Conserved hypothetical protein | 1.00E-04 | |
2B02 | 1 | EAZ06308.1 | Oryza sativa | Hypothetical protein OsI_28542 | 5.00E-54 | |
E36 | 2 | CAA59142.1 | Oryza sativa | Prolamin | 4.00E-31 | |
B11 | 10 | AAK13589.1 | Oryza sativa | rRNA intron-encoded homing endonuclease | 4.00E-27 | |
C25 | 1 | CAA38212.1 | Oryza sativa | Glutelin | 7.00E-49 | |
A55 | 1 | AAM92796.1 | Oryza sativa | Gypothetical protein | 8.00E-37 | |
B53 | 2 | NP_001055525.1 | Oryza sativa | Ubiquitin-associated domain containing protein | 9.00E-54 | |
F77 | 1 | EEE63701.1 | Oryza sativa | Hypothetical protein OsJ_18519 (Ubiquitin Associated domain) | 4.00E-65 | |
D23 | 1 | BAD38184.1 | Oryza sativa | C2 domain-containing protein-like | 3.00E-86 | |
NO SIMILARITY FOUND (BLAST) (26) | ||||||