TABLE 3.
List of mapped scaffolds/contigs (Sc/Co) containing sequences of homologs of Arabidopsis genes regulating various traits.
|
Arabidopsis thaliana |
Lepidium |
||||||
| Sc/Co containing | Position of the | Gene sequence | No. of SNPs | Position of the | |||
| Gene | homolog of | Linkage | Sc/Co in the | portion in | in the Sc/Co | first and last | |
| name | Chromosome | the gene | group | LG (cM) | the Sc/Co | ||
| SNPs in the Sc/Co | |||||||
| NAC012 | 1 | scaffold27952 | 1 | 14.35 | 1–1,106 | 0 | – |
| AGO1 | 1 | scaffold29006/scaffold7267/scaffold29563 | 1 | 14.35/15.45/15.45 | 1–2,474/3,674–3,890/1–1,700 | 0/1c/1d | –/3,742/122 |
| TAG1 | 2 | scaffold22710 | 3 | 3.75 | 11,738–11,987 | 0 | – |
| FAE1 | 4 | scaffold2900 | 3 | 19.16 | 10,838–3,988 | 1c | 3301 |
| ABI3 | 3 | scaffold5739 | 3 | 40.40 | 21–2,277 | 0 | – |
| AGL6 | 2 | scaffold22580 | 4 | 2.20 | 4–542 | 0 | – |
| SOC1 | 2 | scaffold22580 | 4 | 2.20 | 2,437–5,736 | 0 | – |
| ER | 2 | c1439524/scaffold34525 | 4 | 59.04 | 3–2,003/35,191–35,721 | 1c/1a | 413/14,570 |
| FUSCA3 | 3 | scaffold34520 | 5 | 14.98–15.12 | 1–2,200 | 3a | 59,689–11,892 |
| GTR1 | 3 | scaffold5096 | 5 | 66.30–67.26 | 152,442–155,021 | 6a | 169,395–61,600 |
| FER | 3 | scaffold5167 | 5 | 79.52–84.80 | 109,573–112,918 | 20a | 61,206–365,527 |
| WRI1 | 3 | scaffold15935 | 5 | 89.86–90.73 | 84,778–88,945 | 13a | 8,891–218,544 |
| ADPG1 | 3 | scaffold7650 (scaffold7649) | 5 | 99.26 | 1,511–4,569 | 0 | – |
| IND | 4 | scaffold27982 | 6 | 0.0–1.11 | 29,166–29,781 | 24a | 210,061–271,934 |
| KNAT1e | 4 | scaffold1526/scaffold28185 | 6 | 38.07/38.21 | 4,390–8,095/38,107–41,130 | 0 | – |
| ALC | 5 | scaffold13810 | 6 | 96.08 | 3,292–4,327 | 0 | – |
| AP2 | 4 | scaffold31739/scaffold31828 | 7 | 3.40/6.45 | 91–2,006/91–2,035 | 0 | – |
| VRN2 | 4 | scaffold3823/scaffold3822 | 7 | 48.45/48.59 | 134–2,662/134–1,931 | 0 | – |
| FUL | 5 | scaffold2744 | 8 | 42.77–45.69 | 3,336–12,103 | 6a | 26,158–150,835 |
| GTR2 | 5 | c1485122 | 8 | 52.33 | 26,258–29,163 | 0 | – |
| ATG5 | 3 | scaffold17926 | 8 | 60.82 | 55,570–59,477 | 1a | 115,257 |
| FLC | 5 | scaffold34410 | 8 | 79.39–79.66 | 74,767–79,629 | 6a | 32,287–73,222 |
| TFL1 | 5 | scaffold12832 | 8 | 88.94–94.26 | 109,716–110,791 | 26a | 442,896–63,934 |
| RPL | 5 | scaffold11723 | 8 | 96.08–96.61 | 116,530–119,818 | 5b | 118,215–86,600 |
aThe SNP(s) is/are outside the gene sequence.bTwo of the five SNPs (117224 and 118215) are within the coding sequence of the gene.cThe SNP is in the coding sequence of the gene.dThe SNP is within the gene sequence but outside the coding sequence.eThe two scaffolds have overlapping sequence and hence refer to the same gene sequence. These scaffolds/contigs covered 38–99% of the full gene sequences with sequence identify varying from 73 to 87%. These scaffolds/contigs covered 33–100% of the coding sequences with sequence identify varying from 76 to 96%.