Table 1 Comparison of STR motif distributions among chicken and avian/mammalian promoters
From: Abundance, arrangement, and function of sequence motifs in the chicken promoters
| Â | Promoter | Genome* | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Â | Chicken | Duck | Zebra finch | Mouse | Human | Chicken | ||||||
Assembly | galGal4 | BGI_duck_1.0 | taeGut3.2.4 | mm10 | hg19 | galGal3 | ||||||
Motif | Count | Freq. | Count | Freq. | Count | Freq. | Count | Freq. | Count | Freq. | Count | Freq. |
AC | 405 | (25.9) | 433 | (31.5) | 378 | (23.2) | 6006 | (40.0) | 3189 | (35.6) | 97994 | (26.1) |
AT | 276 | (17.6) | 294 | (21.4) | 270 | (16.6) | 739 | (4.9) | 887 | (9.9) | 52845 | (14.1) |
AG | 174 | (11.1) | 174 | (12.7) | 186 | (11.4) | 2572 | (17.1) | 1356 | (15.1) | 98988 | (26.4) |
AGG | 131 | (8.4) | 98 | (7.1) | 170 | (10.4) | 426 | (2.8) | 192 | (2.1) | 13509 | (3.6) |
AAT | 68 | (4.3) | 61 | (4.4) | 40 | (2.5) | 264 | (1.8) | 413 | (4.6) | 18974 | (5.1) |
CCG | 66 | (4.2) | 1 | (0.1) | 87 | (5.3) | 200 | (1.3) | 462 | (5.2) | 722 | (0.2) |
AAC | 46 | (2.9) | 38 | (2.8) | 16 | (1.0) | 356 | (2.4) | 283 | (3.2) | 13218 | (3.5) |
AGC | 40 | (2.6) | 26 | (1.9) | 72 | (4.4) | 73 | (0.5) | 67 | (0.7) | 31737 | (8.5) |
AAAT | 30 | (1.9) | 49 | (3.6) | 21 | (1.3) | 432 | (2.9) | 393 | (4.4) | 6017 | (1.6) |
AAAG | 26 | (1.7) | 21 | (1.5) | 10 | (0.6) | 583 | (3.9) | 223 | (2.5) | 2769 | (0.7) |
CG | 26 | (1.7) | 0 | (-) | 36 | (2.2) | 177 | (1.2) | 207 | (2.3) | 687 | (0.2) |
ATCCC | 18 | (1.2) | 6 | (0.4) | 14 | (0.9) | 1 | (0.0) | 0 | (-) | ND | |
AAAC | 17 | (1.1) | 33 | (2.4) | 14 | (0.9) | 563 | (3.7) | 183 | (2.0) | 6290 | (1.7) |
AAGG | 15 | (1.0) | 11 | (0.8) | 13 | (0.8) | 274 | (1.8) | 122 | (1.4) | 1094 | (0.3) |
AAG | 13 | (0.8) | 9 | (0.7) | 5 | (0.3) | 246 | (1.6) | 75 | (0.8) | 15000 | (4.0) |
ACC | 13 | (0.8) | 8 | (0.6) | 8 | (0.5) | 150 | (1.0) | 224 | (2.5) | 8154 | (2.2) |
AGAGG | 13 | (0.8) | 5 | (0.4) | 7 | (0.4) | 54 | (0.4) | 0 | (-) | ND | |
ATCC | 12 | (0.8) | 5 | (0.4) | 32 | (2.0) | 41 | (0.3) | 29 | (0.3) | 436 | (0.1) |
ACGGC | 12 | (0.8) | 0 | (-) | 12 | (0.7) | 0 | (-) | 0 | (-) | ND | |
AAGGG | 11 | (0.7) | 22 | (1.6) | 6 | (0.4) | 23 | (0.2) | 4 | (0.0) | ND | |
STR/seq** | 0.114 | 0.101 | 0.104 | 0.555 | 0.231 | – | ||||||
vs.chicken promoter | Â | Â | Â | Â | Â | Â | Â | Â | Â | Â | ||
Correlation | r | – | 0.985 | 0.984 | 0.852 | 0.912 | 0.841 | |||||
Kendall | τ | – | 0.595 | 0.738 | 0.581 | 0.656 | 0.487 | |||||
|  | p | – | < 0.001 | < 0.0001 | < 0.001 | < 0.0001 | < 0.05 | |||||