Skip to main content

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
  1. 1Relative coverage = Mean coverage of a contig/Mean coverage of all contigs × 100% (Mean ± Standard Error %).
  2. 2Only the accessions with a score ≥96.9, E-value ≤3E-17, and Identities ≥80% are shown.