Table 3 Putative gene functions of unique expression contigs in either cultivated or wild carrots
From: New insights into domestication of carrot from root transcriptome analyses
Putative functions | Contig ID | Length | Relative coverage1 | Significant alignments in NCBI nucleotide collection database2 | |||||
|---|---|---|---|---|---|---|---|---|---|
Cultivar | Wild | Accession | Score | E-value | Identities | Species | |||
26S ribosomal RNA | 190439 | 340 | 1.8 ± 0.5 | 0.0 ± 0.0 | AY189100.1 | 111 | 2.E-21 | 97% | Pimpinella saxifraga |
Alcohol dehydrogenase | 146464 | 107 | 4.9 ± 0.8 | 0.0 ± 0.0 | M86724.1 | 113 | 6.E-22 | 83% | Lycopersicon esculentum |
Light harvesting protein | 124533 | 392 | 33.4 ± 22.0 | 0.0 ± 0.0 | Z75663.1 | 545 | 3.E-152 | 90% | Apium graveolens |
132345 | 187 | 19.4 ± 8.9 | 0.0 ± 0.0 | 221 | 2.E-54 | 86% | |||
134075 | 113 | 182.1 ± 89.8 | 0.0 ± 0.0 | DQ392956.1 | 154 | 2.E-34 | 90% | Pachysandra terminalis | |
193833 | 365 | 38.9 ± 13.8 | 0.0 ± 0.0 | GQ999612.1 | 398 | 1.E-107 | 84% | Capsicum annuum | |
Dihydroflavonol 4-reductase (DFR2) | 82149 | 611 | 5.6 ± 1.7 | 0.0 ± 0.0 | AF184272.1 | 441 | 1.E-120 | 83% | Daucus carota |
168644 | 116 | 17.5 ± 3.3 | 0.0 ± 0.0 | 174 | 2.E-40 | 93% | |||
Glycine-rich protein | 134512 | 168 | 2.9 ± 1.1 | 0.0 ± 0.0 | X58146.1 | 104 | 3.E-19 | 98% | Daucus carota |
Peptidyl-prolyl cis-trans isomerase B | 187919 | 574 | 25.8 ± 8.0 | 0.0 ± 0.0 | XM_002511947.1 | 255 | 8.E-65 | 81% | Ricinus communis |
Phosphatidic acid phosphatase alpha | 117946 | 571 | 9.8 ± 3.6 | 0.0 ± 0.0 | EF076031.1 | 165 | 1.E-37 | 80% | Vigna unguiculata |
Phosphoribulokinase | 116742 | 1538 | 16.6 ± 10.2 | 0.0 ± 0.0 | XM_002326536.1 | 1207 | 0 | 81% | Populus trichocarpa |
Photosystem I reaction center subunit | 193998 | 320 | 21.4 ± 4.0 | 0.0 ± 0.0 | XM_002521115.1 | 214 | 3.E-52 | 83% | Ricinus communis |
194107 | 269 | 15.5 ± 7.9 | 0.0 ± 0.0 | M83119.1 | 284 | 2.E-73 | 83% | Flaveria trinervia | |
Plastid division regulator MinD mRNA | 208192 | 122 | 16.7 ± 5.3 | 0.0 ± 0.0 | DQ118107.1 | 143 | 4.E-31 | 86% | Populus tomentosa |
Ribosomal protein S3 | 170401 | 142 | 3.2 ± 1.2 | 0.0 ± 0.0 | GU351776.1 | 122 | 1.E-24 | 96% | Pittosporum tobira |
Tonoplast aquaporin 1;1 | 146558 | 118 | 23.5 ± 7.0 | 0.0 ± 0.0 | FJ861240.1 | 111 | 2.E-21 | 95% | Daucus carota |
Daucus carota major allergen isoform Dau c1.0201 | 186900 | 102 | 0.0 ± 0.0 | 52.1 ± 33.9 | AF456481.1 | 136 | 3.E-29 | 98% | Daucus carota |
207957 | 201 | 0.0 ± 0.0 | 209.8 ± 58.0 | 96.9 | 3.E-17 | 98% | |||
Phloem protein 2-2 | 159264 | 157 | 0.0 ± 0.0 | 28.1 ± 17.8 | AY114140.1 | 113 | 4.E-22 | 96% | Apium graveolens var. dulce |
Receptor protein kinase | 232664 | 128 | 0.0 ± 0.0 | 32.0 ± 9.2 | XM_002509756.1 | 127 | 2.E-26 | 82% | Ricinus communis |