Table 1.
List of BAC clones analyzed in BAC-FISH and their assignment to linkage groups
| BAC clone | Contig | BAC-FISH | Genetic markers, accession | Linkage group |
BAC-end annotation |
|
|---|---|---|---|---|---|---|
| 3′end | 5′end | |||||
| 003M07 |
- |
repetitive |
- |
- |
Ty1/Copia |
Ty1/Copia |
| 004G15 |
- |
single locus |
004G15_3 [Genbank:GF111994] |
5 |
gene |
- |
| 008K19 |
- |
repetitive |
- |
- |
- |
- |
| 009I22 |
- |
repetitive |
- |
- |
gene |
(TA)n, (TAA)n |
| 019P14 |
3 |
repetitive |
- |
- |
- |
- |
| 024B01 |
- |
repetitive |
- |
- |
Ty1/Copia |
- |
| 032A19 |
7 |
repetitive |
- |
- |
gene |
gene |
| 032O04 |
9 |
repetitive |
- |
- |
Ty1/Copia |
- |
| 036J18 |
12 |
repetitive |
- |
- |
Ty1/Copia |
Ty1/Copia |
| 044M22 |
3 |
repetitive |
- |
- |
- |
Ty1/Copia |
| 048B06 |
- |
repetitive |
- |
- |
Ty3/Gypsy |
Ty3/Gypsy |
| 050C12 |
8 |
repetitive |
- |
- |
gene, Ty1/Copia |
Ty3/Gypsy |
| 055L12 |
5 |
repetitive |
055L12_13 [Genbank:GF111997] |
6 |
Ty1/Copia |
- |
| 057J20 |
- |
single locus |
057J20_5 [Genbank:GF111995] |
3 |
- |
- |
| 057K22 |
- |
single locus |
057K22_3F2 [Genbank:GF112002] |
10* |
- |
- |
| 058D20 |
- |
repetitive |
- |
- |
- |
- |
| 063F11 |
- |
repetitive |
- |
- |
- |
- |
| 064L14 |
5 |
repetitive |
- |
- |
gene |
- |
| 065K14 |
- |
repetitive |
- |
- |
- |
- |
| 067H16 |
- |
repetitive |
067H16_41 [Genbank:GF111998], 067H16_43 [Genbank:GF111999] |
6 |
Ty1/Copia |
- |
| 074I10 |
- |
single locus |
074I10_3_1 [Genbank:GF112001], 074I10_3_2 [Genbank:GF112000] |
3, 7* |
Ty1/Copia |
Ty3/Gypsy, (TA)n |
| 075A18 |
- |
repetitive |
- |
- |
Ty1/Copia |
Ty1/Copia |
| 076K16 |
4 |
single locus |
076K16_3F3 [Genbank:1243111], 076K16_5 [Genbank:GF112014] |
6* |
- |
gene |
| 077C13 |
- |
single locus |
077C13_3 [Genbank:GF112003] |
10* |
- |
Ty1/Copia |
| 077C14 |
4 |
repetitive |
- |
- |
- |
- |
| 078H13 |
18 |
repetitive |
- |
- |
- |
Ty3/Gypsy |
| 079I08 |
1 |
repetitive |
- |
- |
Ty1/Copia |
- |
| 080B11 |
- |
single locus |
080B11_3 [Genbank:GF111996] |
6* |
- |
- |
| 083C06 |
12 |
single locus |
- |
20* |
gene |
Ty1/Copia |
| 083N13 |
13 |
repetitive |
- |
- |
gene |
- |
| 085B02 |
- |
repetitive |
- |
- |
gene |
gene |
| 086G16 |
- |
repetitive |
- |
- |
- |
- |
| 088J02 |
- |
repetitive |
- |
- |
Ty1/Copia |
gene |
| 095H17 |
- |
repetitive |
- |
- |
- |
MuDR |
| 095I10 |
- |
repetitive |
- |
- |
RC/Helitron |
gene |
| 096J11 |
- |
repetitive |
- |
- |
- |
- |
| 096K01 | - | repetitive | - | - | - | Ty3/Gypsy |
* linkage group assignment confirmed by BAC-FISH with two clones.