Table 1.
Bacterial artificial chromosome (BAC) and derived MUSB SSR marker names, and number of Unigenes predicted based on G. hirsutum Unigene NCBI database and genes predicated based on Augustus Gene Prediction Software of BAC clones on Upland cotton chromosomes 11 and 21.
| ID of BAC | Marker | Seq length bp | Contigs # | G. hirsutum unigene | Augustus prediction genes | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Total Uni-Genes | Genes matching with NR protein Blast | Unigenes associated with SRE | Transpo-sable elements | dna/rna polymerase proteins | Total Genes | Genes matching with NR protein Blast | Unigenes associated with SRE | Transpo-sable elements | dna/rna polymerase proteins | ||||
| Chr11 | |||||||||||||
| 28E08 | MUSB1000 | 117,929 | 5 | 97 | 72 | 13 | 14 | 28 | 20 | 13 | 8 | 3 | 3 |
| 28O10 | MUSB1015 | 135,685 | 10 | 98 | 19 | 1 | 1 | 15 | 12 | 10 | 3 | 3 | 3 |
| 26K03 | MUSB0953 | 136,740 | 4 | 42 | 27 | 1 | 10 | 15 | 13 | 10 | 4 | 5 | 1 |
| 24E04 | MUSB0641 | 107,318 | 1 | 27 | 16 | 0 | 7 | 0 | 18 | 15 | 0 | 7 | 1 |
| 40I16 | MUSB1278 | 89,982 | 5 | 32 | 15 | 1 | 1 | 12 | 7 | 6 | 3 | 3 | 0 |
| 34K01 | MUSB1163 | 136,264 | 13 | 66 | 26 | 2 | 9 | 14 | 17 | 13 | 5 | 6 | 2 |
| 29O06 | MUSB1035 | 111,818 | 5 | 10 | 4 | 0 | 1 | 0 | 16 | 15 | 2 | 11 | 1 |
| 33K23 | MUSB0827 | 105,004 | 5 | 61 | 39 | 3 | 1 | 36 | 10 | 9 | 3 | 3 | 4 |
| 18O18 | MUSB0404 | 75,523 | 10 | 8 | 2 | 2 | 0 | 0 | 14 | 14 | 7 | 7 | 0 |
| 31K15 | MUSB1076 | 113,182 | 9 | 26 | 18 | 18 | 0 | 0 | 19 | 19 | 8 | 8 | 0 |
| 1,129,445 | 67 | 467 | 238 | 41 | 44 | 120 | 146 | 124 | 43 | 56 | 15 | ||
| Chr21 | |||||||||||||
| AC193383* | NAU6334 NAU6598 NAU6673 NAU6301 | 107,036 | 3 | 9 | 8 | 8 | 0 | 0 | 16 | 14 | 13 | 0 | 0 |
| AC187848 | NAU2826 NAU6222 NAU6627 | 88,499 | 2 | 26 | 17 | 17 | 0 | 0 | 13 | 10 | 9 | 2 | 0 |
| 30E04 | MUSB0810 | 112,602 | 10 | 71 | 67 | 58 | 9 | 0 | 8 | 8 | 5 | 1 | 0 |
| AC187214 | NAU2110 NAU6178 NAU6444 | 99,687 | 2 | 10 | 6 | 6 | 0 | 0 | 8 | 5 | 1 | 3 | 0 |
| 32H19 | MUSB0823 | 87,789 | 2 | 19 | 6 | 6 | 0 | 0 | 3 | 2 | 1 | 0 | 0 |
| AC187470** | NAU6224 NAU6282 NAU1063 | 110,475 | 1 | 62 | 57 | 57 | 0 | 0 | 6 | 5 | 2 | 1 | 0 |
| AC202821 | NAU6146 NAU6677 | 88,339 | 7 | 14 | 8 | 8 | 0 | 0 | 6 | 4 | 3 | 1 | 0 |
| AC190836 | TMB1871 NAU6507 | 85,559 | 6 | 1 | 1 | 1 | 0 | 0 | 9 | 8 | 5 | 3 | 0 |
| AC202830 | NAU6520 NAU6697 NAU6530 NAU6658 NAU6675 NAU6593 | 101,659 | 4 | 32 | 31 | 31 | 0 | 0 | 13 | 12 | 11 | 1 | 0 |
| AC187810 | NAU6525 NAU6431 NAU6245 | 92,907 | 1 | 41 | 32 | 32 | 0 | 0 | 16 | 16 | 9 | 4 | 0 |
| 974,552 | 38 | 285 | 233 | 224 | 9 | 0 | 98 | 84 | 59 | 16 | 0 | ||