Table 1 Summary of genes involved in starch metabolism
Gene information | Number of haplotypes | |||||||||
|---|---|---|---|---|---|---|---|---|---|---|
Gene ID | Description | Chromosome | Start | End | Altus | Atlantic | Avenger | Colomba | Castle Russet | Spunta |
Soltu.DM.01G008290.1 | Triose-phosphate/phosphate translocator-like (TPT-like) | chr01 | 10,708,501 | 10,718,106 | 4 | 4 | 4 | 4 | 3 | 2 |
Soltu.DM.01G012610.1 | Phosphoglucoisomerase-like 2 (PGI-like2) | chr01 | 23,288,582 | 23,289,601 | 3 | 3 | 4 | 4 | 4 | 3 |
Soltu.DM.01G022570.2 | Beta-amylase 9 (BAM9) | chr01 | 60,987,038 | 60,990,400 | 4 | 3 | 3 | 3 | 3 | 3 |
Soltu.DM.01G024440.1 | ADP-glucose pyrophosphorylase large subunit 1 (AGPL1) | chr01 | 63,686,919 | 63,691,316 | 4 | 2 | 4 | 4 | 3 | 2 |
Soltu.DM.01G028790.1 | UDP-glucose pyrophosphorylase 1 (UGPase1) | chr01 | 68,549,182 | 68,561,301 | 4 | 3 | 4 | 3 | 3 | 4 |
Soltu.DM.01G033560.1 | Beta-amylase 7 (BAM7) | chr01 | 73,206,343 | 73,213,592 | 3 | 4 | 3 | 3 | 2 | 3 |
Soltu.DM.01G045740.1 | Inorganic pyrophosphatase (PPase) | chr01 | 83,484,092 | 83,488,381 | 2 | 4 | 3 | 3 | 3 | 4 |
Soltu.DM.01G049590.2 | ADP-glucose pyrophosphorylase large subunit 3 (AGPL3) | chr01 | 86,376,380 | 86,381,406 | 4 | 2 | 3 | 3 | 2 | 4 |
Soltu.DM.02G000530.1 | Disproportionating enzyme 2 (DPE2) | chr02 | 5,127,210 | 5,136,783 | 3 | 3 | 4 | 2 | 2 | 4 |
Soltu.DM.02G009320.1 | Alpha-amylase 3-like (AMY3-like) | chr02 | 24,230,843 | 24,247,840 | 4 | 3 | 4 | 4 | 1 | 3 |
Soltu.DM.02G014060.1 | Starch Synthase IV (SS4) | chr02 | 28,677,633 | 28,687,809 | 3 | 4 | 4 | 3 | 3 | 4 |
Soltu.DM.02G017070.1 | Alpha-glucan phosphorylase 2b (PHO2b) | chr02 | 31,566,378 | 31,580,504 | 4 | 4 | 3 | 3 | 2 | 3 |
Soltu.DM.02G020170.2 | Starch Synthase III (SS3) | chr02 | 34,367,686 | 34,383,334 | 4 | 4 | 3 | 4 | 3 | 3 |
Soltu.DM.02G020800.2 | Sucrose Synthase 7 (SuSy7) | chr02 | 34,941,207 | 34,945,820 | 3 | 4 | 4 | 3 | 3 | 2 |
Soltu.DM.02G026040.1 | Glucose transporter (GLT1) | chr02 | 39,127,419 | 39,137,166 | 4 | 3 | 2 | 2 | 2 | 3 |
Soltu.DM.02G027020.1 | Starch Synthase V (SS5) | chr02 | 39,843,381 | 39,853,760 | 4 | 4 | 4 | 2 | 3 | 3 |
Soltu.DM.02G031690.1 | Starch Synthase II (SS2) | chr02 | 43,711,583 | 43,718,240 | 2 | 4 | 4 | 1 | 3 | 4 |
Soltu.DM.03G007710.1# | Alpha-glucan phosphorylase 1a (PHO1a) | chr03 | 16,812,806 | 16,815,457 | 2 | 3 | 3 | 1 | 3 | 2 |
Soltu.DM.03G007720.1# | Alpha-glucan phosphorylase 1a (PHO1a) | chr03 | 16,821,960 | 16,826,524 | 2 | 3 | 3 | 1 | 3 | 2 |
Soltu.DM.03G007760.1# | Alpha-glucan phosphorylase 1a (PHO1a) | chr03 | 16,844,962 | 16,849,934 | 2 | 4 | 3 | 1 | 3 | 2 |
Soltu.DM.03G008980.1 | Vacuolar Glucose Transporter 3-like (VGT3-like) | chr03 | 22,446,339 | 22,451,156 | 2 | 3 | 4 | 1 | 3 | 2 |
Soltu.DM.03G013410.1 | Alpha-amylase 1.2 (AMY1.2) | chr03 | 35,837,209 | 35,840,386 | 3 | 4 | 3 | 3 | 3 | 4 |
Soltu.DM.03G016410.1 | Phosphoglucomutase 1 (PGM1) | chr03 | 40,597,232 | 40,603,913 | 4 | 4 | 3 | 1 | 3 | 4 |
Soltu.DM.03G016420.1 | Phosphoglucomutase 1 (PGM1) | chr03 | 40,607,920 | 40,613,538 | 4 | 4 | 3 | 1 | 2 | 2 |
Soltu.DM.03G019120.1 | Sucrose Synthase 6 (SuSy6) | chr03 | 43,855,702 | 43,859,908 | 2 | 4 | 4 | 3 | 3 | 4 |
Soltu.DM.03G022350.3 | Starch Synthase I (SS1) | chr03 | 47,124,469 | 47,133,578 | 3 | 2 | 3 | 3 | 4 | 4 |
Soltu.DM.03G024560.1 | Phosphoglucan phosphatase (SEX4) | chr03 | 49,749,724 | 49,759,630 | 3 | 3 | 3 | 3 | 2 | 4 |
Soltu.DM.03G034530.1 | ATP-ADP antiporter 1 (NTT1) | chr03 | 57,928,152 | 57,931,886 | 4 | 3 | 3 | 3 | 3 | 3 |
Soltu.DM.04G015010.1 | Phosphoglucomutase 2.1 (PGM2.1) | chr04 | 24,544,911 | 24,553,865 | 3 | 3 | 3 | 3 | 4 | 4 |
Soltu.DM.04G022990.1 | Disproportionating enzyme 1 (DPE1) | chr04 | 52,145,325 | 52,152,692 | 2 | 3 | 3 | 2 | 2 | 2 |
Soltu.DM.04G025730.2 | Maltose excess 1 (MEX1) | chr04 | 56,008,096 | 56,013,296 | 3 | 3 | 2 | 2 | 3 | 3 |
Soltu.DM.04G030730.1 | Phosphoglucoisomerase (PGI) | chr04 | 62,172,118 | 62,197,558 | 3 | 4 | 3 | 3 | 4 | 4 |
Soltu.DM.04G033700.1 | Alpha-amylase 1.1 (AMY1.1) | chr04 | 65,328,724 | 65,330,894 | 4 | 2 | 3 | 2 | 3 | 4 |
Soltu.DM.04G037250.1 | Alpha-amylase 2 (AMY2) | chr04 | 68,257,647 | 68,262,571 | 4 | 3 | 3 | 3 | 3 | 4 |
Soltu.DM.04G037620.2 | Branching enzyme III (SBE3) | chr04 | 68,508,497 | 68,516,457 | 4 | 4 | 4 | 2 | 3 | 4 |
Soltu.DM.05G000570.1 | Alpha-glucan phosphorylase 1b (PHO1b) | chr05 | 446,581 | 452,742 | 2 | 4 | 4 | 4 | 2 | 3 |
Soltu.DM.05G006330.1 | Alpha-amylase 3 (AMY3) | chr05 | 6,037,246 | 6,053,915 | 2 | 3 | 4 | 3 | 4 | 3 |
Soltu.DM.05G009520.2 | Glucan water dikinase (GWD) | chr05 | 9,901,255 | 9,916,669 | 3 | 4 | 3 | 2 | 4 | 3 |
Soltu.DM.05G013630.1 | Putative Phosphoglucomutase (pPGM) | chr05 | 20,203,159 | 20,205,773 | 4 | 4 | 2 | 3 | 3 | 4 |
Soltu.DM.05G013640.1 | Putative Phosphoglucomutase (pPGM) | chr05 | 20,206,673 | 20,212,607 | 4 | 4 | 2 | 3 | 2 | 3 |
Soltu.DM.05G018750.1 | Glucose-6-phosphate/phosphate translocator 2.1 (GPT2.1) | chr05 | 45,902,088 | 45,905,436 | 3 | 4 | 3 | 3 | 2 | 3 |
Soltu.DM.05G024440.1 | UDP-glucose pyrophosphorylase 1 (UGPase1) | chr05 | 52,978,332 | 52,986,180 | 4 | 4 | 4 | 4 | 3 | 3 |
Soltu.DM.06G000410.2 | Isoamylase 3 (ISA3) | chr06 | 700,273 | 715,327 | 2 | 4 | 4 | 2 | 3 | 4 |
Soltu.DM.06G010090.1 | UDP-glucose pyrophosphorylase3 (UGPase3) | chr06 | 30,638,103 | 30,649,525 | 3 | 4 | 4 | 3 | 4 | 4 |
Soltu.DM.06G010900.1 | Phosphoglucan phosphatase (like SEX four 2, LSF2) | chr06 | 32,685,220 | 32,688,115 | 4 | 3 | 3 | 3 | 2 | 3 |
Soltu.DM.07G005540.1 | Isoamylase 1.1 (ISA1.1) | chr07 | 7,354,469 | 7,370,232 | 4 | 4 | 4 | 4 | 4 | 3 |
Soltu.DM.07G010140.1 | ADP-glucose pyrophosphorylase large subunit 2 (AGPL2) | chr07 | 28,459,732 | 28,465,251 | 3 | 3 | 2 | 3 | 3 | 3 |
Soltu.DM.07G013360.1 | Sucrose Synthase 1 (SuSy1) | chr07 | 42,392,785 | 42,396,434 | 4 | 3 | 3 | 3 | 4 | 3 |
Soltu.DM.07G013370.8 | Sucrose Synthase 2 (SuSy2) | chr07 | 42,423,839 | 42,428,022 | 4 | 3 | 3 | 3 | 3 | 2 |
Soltu.DM.07G013620.1 | Starch Synthase VI (SS6) | chr07 | 42,699,355 | 42,708,860 | 4 | 4 | 3 | 3 | 4 | 2 |
Soltu.DM.07G013630.1 | Starch Synthase VI (SS6) | chr07 | 42,712,584 | 42,720,966 | 3 | 3 | 3 | 4 | 4 | 3 |
Soltu.DM.07G017870.1 | Glucose-6-phosphate/phosphate translocator 2.2 (GPT2.2) | chr07 | 48,392,736 | 48,395,736 | 2 | 4 | 3 | 3 | 3 | 3 |
Soltu.DM.07G018100.2 | Beta-amylase 6.1 (BAM6.1) | chr07 | 48,609,121 | 48,613,209 | 2 | 4 | 3 | 3 | 3 | 2 |
Soltu.DM.07G018130.1 | Beta-amylase 6.2 (BAM6.2) | chr07 | 48,660,084 | 48,661,302 | 1 | 1 | 1 | 1 | 2 | 1 |
Soltu.DM.07G018140.1 | Beta-amylase 6.3 (BAM6.3) | chr07 | 48,675,418 | 48,676,516 | 1 | 1 | 1 | 1 | 2 | 1 |
Soltu.DM.07G022290.1 | ADP-glucose pyrophosphorylase small subunit 1.1 (AGPS1.1) | chr07 | 52,424,941 | 52,430,371 | 2 | 4 | 2 | 3 | 3 | 2 |
Soltu.DM.07G025710.1 | Branching enzyme I.2 (SBE1.2) | chr07 | 55,386,292 | 55,405,743 | 2 | 3 | 3 | 2 | 3 | 3 |
Soltu.DM.07G025810.1 | Glucose-6-phosphate/phosphate translocator 1.1 (GPT1.1) | chr07 | 55,457,471 | 55,462,445 | 2 | 4 | 2 | 2 | 3 | 2 |
Soltu.DM.07G026510.1 | Branching enzyme I.1 (SBE1.1) | chr07 | 55,936,361 | 55,953,226 | 2 | 2 | 3 | 2 | 4 | 3 |
Soltu.DM.08G001120.1 | Beta-amylase 3.2 (BAM3.2) | chr08 | 1,618,565 | 1,622,209 | 3 | 3 | 4 | 3 | 3 | 4 |
Soltu.DM.08G003130.1 | Beta-amylase 2 (BAM2) | chr08 | 4,084,723 | 4,094,664 | 4 | 4 | 3 | 3 | 3 | 2 |
Soltu.DM.08G006240.1 | ADP-glucose pyrophosphorylase small subunit 2 (AGPS2) | chr08 | 8,843,996 | 8,847,025 | 4 | 4 | 3 | 4 | 3 | 3 |
Soltu.DM.08G023420.1 | Beta-amylase 3.1 (BAM3.1) | chr08 | 53,049,020 | 53,052,674 | 3 | 4 | 4 | 4 | 4 | 3 |
Soltu.DM.08G029750.1 | Beta-amylase 4 (BAM4) | chr08 | 58,749,933 | 58,756,635 | 3 | 3 | 4 | 2 | 4 | 2 |
Soltu.DM.08G030230.3 | Granule bound starch synthase 1 (GBSS1) | chr08 | 59,143,807 | 59,147,539 | 4 | 3 | 4 | 4 | 4 | 3 |
Soltu.DM.09G004100.1 | Branching enzyme II (SBE2) | chr09 | 3,535,898 | 3,555,467 | 3 | 4 | 4 | 2 | 4 | 4 |
Soltu.DM.09G011580.1 | Alpha-glucan phosphorylase 2a (PHO2a) | chr09 | 20,467,173 | 20,479,953 | 4 | 4 | 3 | 3 | 3 | 2 |
Soltu.DM.09G019230.1 | Isoamylase 2 (ISA2) | chr09 | 53,267,937 | 53,271,759 | 2 | 3 | 4 | 3 | 3 | 4 |
Soltu.DM.09G027770.1 | Beta-amylase 1 (BAM1) | chr09 | 63,673,425 | 63,676,408 | 3 | 4 | 4 | 2 | 3 | 2 |
Soltu.DM.09G030970.1 | Phosphoglucan water dikinase (PWD) | chr09 | 66,767,299 | 66,779,235 | 2 | 3 | 4 | 2 | 3 | 3 |
Soltu.DM.09G031820.1 | Sucrose Synthase 3 (SuSy3) | chr09 | 67,526,937 | 67,534,221 | 4 | 3 | 4 | 2 | 4 | 3 |
Soltu.DM.10G004860.3 | Triose-phosphate/phosphate translocator (TPT) | chr10 | 4,225,775 | 4,230,495 | 2 | 4 | 3 | 3 | 2 | 1 |
Soltu.DM.10G007060.1 | Isoamylase 1.2 (ISA1.2) | chr10 | 7,897,543 | 7,899,618 | 1 | 2 | 2 | 3 | 2 | 2 |
Soltu.DM.10G013240.1 | Inorganic pyrophosphatase-like (PPase-like) | chr10 | 38,286,777 | 38,293,554 | 1 | 2 | 4 | 2 | 2 | 1 |
Soltu.DM.11G001030.1 | UDP-glucose pyrophosphorylase 2 (UGPase2) | chr11 | 1,109,263 | 1,115,893 | 3 | 3 | 4 | 3 | 3 | 4 |
Soltu.DM.11G004600.1 | Limit dextrinase (LDE) | chr11 | 4,596,995 | 4,611,918 | 4 | 4 | 3 | 4 | 4 | 4 |
Soltu.DM.11G004900.2 | Phosphoglucan phosphatase (SEX4-like) | chr11 | 5,006,751 | 5,013,766 | 4 | 4 | 4 | 4 | 3 | 4 |
Soltu.DM.12G010800.1 | ATP-ADP antiporter 2 (NTT2) | chr12 | 10,748,355 | 10,752,085 | 2 | 3 | 4 | 4 | 4 | 4 |
Soltu.DM.12G016610.4 | Phosphoglucan phosphatase (like SEX four 1, LSF1) | chr12 | 32,942,348 | 32,949,965 | 3 | 3 | 4 | 3 | 3 | 3 |
Soltu.DM.12G026390.1 | Sucrose Synthase 4 (SuSy4) | chr12 | 56,336,213 | 56,342,227 | 4 | 2 | 2 | 4 | 2 | 3 |
Soltu.DM.12G028820.2 | ADP-glucose pyrophosphorylase small subunit 1.2 (AGPS1.2) | chr12 | 58,423,903 | 58,431,045 | 4 | 3 | 3 | 3 | 4 | 3 |