AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene60611

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60611.t1 MTR_3g110048 82.390 159 27 1 1 159 1 158 1.05e-91 263
MS.gene60611.t1 MTR_7g021400 88.679 159 15 1 1 159 1 156 1.63e-91 263
MS.gene60611.t1 MTR_7g094150 88.050 159 16 1 1 159 1 156 4.94e-90 259
MS.gene60611.t1 MTR_4g032400 81.132 159 26 2 2 159 8 163 6.07e-87 251
MS.gene60611.t1 MTR_5g022710 85.350 157 20 1 3 159 2 155 9.13e-87 251
MS.gene60611.t1 MTR_5g022730 85.350 157 20 1 3 159 2 155 1.24e-86 250
MS.gene60611.t1 MTR_7g094170 85.535 159 20 1 1 159 1 156 2.99e-86 249
MS.gene60611.t1 MTR_7g094120 77.500 160 31 2 2 159 3 159 5.24e-85 246
MS.gene60611.t1 MTR_7g021380 84.277 159 22 1 1 159 1 156 5.00e-83 241
MS.gene60611.t1 MTR_4g032450 71.875 160 41 2 1 159 19 175 1.33e-79 233
MS.gene60611.t1 MTR_7g094280 74.534 161 36 3 1 159 1 158 7.55e-78 228
MS.gene60611.t1 MTR_8g056060 70.440 159 45 1 1 159 1 157 6.23e-74 218
MS.gene60611.t1 MTR_8g468480 68.354 158 46 2 3 159 2 156 4.04e-72 214
MS.gene60611.t1 MTR_4g032500 67.296 159 42 2 2 159 3 152 1.05e-70 210
MS.gene60611.t1 MTR_4g032510 68.125 160 40 3 2 159 3 153 6.04e-70 208
MS.gene60611.t1 MTR_5g085030 66.242 157 49 2 3 158 2 155 1.24e-69 207
MS.gene60611.t1 MTR_7g094310 70.186 161 33 4 1 159 1 148 2.22e-69 206
MS.gene60611.t1 MTR_4g032460 70.253 158 37 2 3 159 2 150 2.10e-68 204
MS.gene60611.t1 MTR_4g033455 63.057 157 55 1 3 159 7 160 1.30e-67 202
MS.gene60611.t1 MTR_4g017860 57.436 195 43 4 5 159 26 220 3.64e-65 198
MS.gene60611.t1 MTR_4g033460 63.636 143 49 1 3 145 7 146 9.14e-61 188
MS.gene60611.t1 MTR_4g033460 64.583 96 23 2 41 136 161 245 2.41e-31 113
MS.gene60611.t1 MTR_1g099870 86.538 104 13 1 56 159 1 103 3.06e-60 182
MS.gene60611.t1 MTR_4g021390 62.025 158 54 2 2 159 4 155 1.70e-59 182
MS.gene60611.t1 MTR_5g082340 61.392 158 46 3 3 159 2 145 8.05e-58 177
MS.gene60611.t1 MTR_8g089730 70.635 126 17 1 34 159 1 106 2.92e-50 157
MS.gene60611.t1 MTR_4g032420 61.538 130 32 3 31 159 38 150 8.04e-48 152
MS.gene60611.t1 MTR_7g094320 53.125 160 31 2 1 159 1 117 4.50e-44 141
MS.gene60611.t1 MTR_7g006370 58.333 144 48 3 2 145 4 135 6.00e-44 142
MS.gene60611.t1 MTR_7g094410 54.487 156 32 3 1 117 1 156 1.59e-41 137
MS.gene60611.t1 MTR_4g131980 63.115 122 36 3 3 122 2 116 1.06e-40 134
MS.gene60611.t1 MTR_4g032470 46.980 149 32 2 12 159 32 134 2.01e-38 127
MS.gene60611.t1 MTR_4g127240 64.151 106 29 3 40 143 26 124 1.81e-37 125
MS.gene60611.t1 MTR_7g094350 43.617 188 55 4 1 138 1 187 1.54e-36 125
MS.gene60611.t1 MTR_7g094360 47.674 172 40 5 1 122 1 172 4.15e-36 124
MS.gene60611.t1 MTR_8g056090 50.000 158 45 6 1 157 1 125 4.97e-35 119
MS.gene60611.t1 MTR_4g119422 46.000 150 71 2 2 149 227 368 2.33e-32 118
MS.gene60611.t1 MTR_1g112590 36.709 158 81 3 8 149 1 155 1.85e-27 100
MS.gene60611.t1 MTR_7g071200 69.565 69 20 1 92 159 4 72 1.98e-27 97.8
MS.gene60611.t1 MTR_2g066010 40.909 154 76 5 8 158 20 161 2.58e-27 101
MS.gene60611.t1 MTR_2g065720 39.130 161 83 5 1 158 30 178 2.25e-26 99.4
MS.gene60611.t1 MTR_4g032520 42.466 146 39 4 30 157 2 120 4.30e-25 94.0
MS.gene60611.t1 MTR_4g032540 63.492 63 22 1 93 154 70 132 6.34e-22 85.9
MS.gene60611.t1 MTR_5g096950 36.478 159 83 4 1 158 1 142 8.94e-22 85.9
MS.gene60611.t1 MTR_2g018980 33.987 153 85 4 8 159 3 140 8.56e-21 83.2
MS.gene60611.t1 MTR_6g053620 41.748 103 52 2 47 149 61 155 4.56e-19 82.4
MS.gene60611.t1 MTR_6g053620 41.748 103 52 2 47 149 61 155 4.98e-19 82.4
MS.gene60611.t1 MTR_2g100830 34.014 147 80 5 10 149 13 149 1.91e-17 77.8
MS.gene60611.t1 MTR_8g007195 35.211 142 79 3 10 146 13 146 2.21e-17 77.4
MS.gene60611.t1 MTR_1g042510 32.075 159 67 4 8 149 1 135 2.47e-17 77.0
MS.gene60611.t1 MTR_7g077810 34.899 149 80 5 8 149 18 156 2.59e-17 77.4
MS.gene60611.t1 MTR_8g030670 36.792 106 59 1 47 152 62 159 2.21e-16 75.1
MS.gene60611.t1 MTR_2g100825 32.653 147 85 4 8 149 11 148 4.64e-16 73.9
MS.gene60611.t1 MTR_8g007185 30.872 149 89 4 8 150 11 151 5.24e-16 73.6
MS.gene60611.t1 MTR_8g007205 30.872 149 89 4 8 150 11 151 8.62e-16 72.8
MS.gene60611.t1 MTR_1g112570 33.803 142 66 5 8 131 1 132 1.61e-15 72.0
MS.gene60611.t1 MTR_5g078680 30.435 161 71 4 8 151 1 137 7.65e-15 70.1
MS.gene60611.t1 MTR_4g131910 39.130 115 57 2 5 115 133 238 4.31e-14 67.8
MS.gene60611.t1 MTR_7g036780 30.714 140 82 4 5 138 6 136 4.96e-13 64.7
MS.gene60611.t1 MTR_3g061700 34.043 94 54 2 53 146 1 86 1.05e-11 60.5
MS.gene60611.t1 MTR_8g007220 35.000 100 57 1 47 146 55 146 3.89e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene60611.t1 AT1G20140 68.712 163 47 1 1 159 1 163 1.15e-78 231
MS.gene60611.t1 AT1G75950 74.843 159 37 1 4 159 2 160 2.61e-76 224
MS.gene60611.t1 AT5G42190 71.176 170 36 1 3 159 2 171 7.02e-76 224
MS.gene60611.t1 AT2G25700 66.258 163 51 1 1 159 1 163 6.54e-75 221
MS.gene60611.t1 AT4G34470 66.879 157 45 2 4 159 2 152 1.07e-70 210
MS.gene60611.t1 AT4G34210 66.879 157 45 2 4 159 2 152 1.74e-70 209
MS.gene60611.t1 AT3G21860 66.026 156 48 1 4 159 2 152 7.89e-67 200
MS.gene60611.t1 AT3G21850 64.968 157 49 2 4 159 2 153 1.18e-66 200
MS.gene60611.t1 AT3G60010 65.605 157 48 2 5 159 2 154 2.36e-66 199
MS.gene60611.t1 AT2G03170 62.420 157 49 3 4 159 2 149 6.54e-63 190
MS.gene60611.t1 AT2G03190 56.024 166 63 2 4 159 2 167 1.99e-60 185
MS.gene60611.t1 AT3G25650 59.639 166 57 4 4 159 2 167 4.93e-58 179
MS.gene60611.t1 AT3G21830 58.333 156 60 1 4 159 2 152 5.15e-57 175
MS.gene60611.t1 AT3G60020 54.037 161 59 3 5 159 2 153 7.66e-56 172
MS.gene60611.t1 AT2G03160 50.794 189 60 4 4 159 2 190 1.50e-55 173
MS.gene60611.t1 AT2G20160 55.769 156 60 2 4 158 2 149 2.38e-54 169
MS.gene60611.t1 AT1G10230 54.487 156 69 2 4 158 2 156 1.96e-50 159
MS.gene60611.t1 AT3G21840 57.851 121 46 1 4 124 2 117 2.66e-38 127
MS.gene60611.t1 AT3G53060 62.069 87 23 2 31 116 3 80 2.19e-29 103
MS.gene60611.t1 AT3G61415 33.784 148 83 5 8 149 18 156 3.49e-16 74.7
MS.gene60611.t1 AT3G61415 33.108 148 84 5 8 149 18 156 3.77e-16 74.3
MS.gene60611.t1 AT2G45950 32.653 147 86 4 8 149 18 156 5.78e-16 73.9
MS.gene60611.t1 AT2G45950 32.653 147 86 4 8 149 18 156 5.78e-16 73.9
MS.gene60611.t1 AT2G45950 32.653 147 86 4 8 149 18 156 5.78e-16 73.9
MS.gene60611.t1 AT2G45950 32.653 147 86 4 8 149 18 156 6.11e-16 73.9
MS.gene60611.t1 AT2G45950 32.653 147 86 4 8 149 18 156 6.11e-16 73.9

Find 34 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAACGTCACCGGAAAGATTT+TGG 0.171709 1.2:+69589288 MS.gene60611:CDS
CACCAACGCCAAAATCTTTC+CGG 0.277362 1.2:-69589296 None:intergenic
TTTCCGGTGACGTTCTGAAC+AGG 0.365312 1.2:-69589280 None:intergenic
CTTGAATATCAAGAGCTTGC+TGG 0.389953 1.2:+69589465 MS.gene60611:CDS
CGAACTTCTTCTTCTTCCTC+CGG 0.391676 1.2:-69589577 None:intergenic
CTGAACAGGGATTGCGTTGT+CGG 0.392077 1.2:-69589266 None:intergenic
ACTCTTGAGAGTGATCTTCT+TGG 0.430026 1.2:-69589161 None:intergenic
AAGTTCGCAGGGAAAATCAA+TGG 0.466084 1.2:+69589593 MS.gene60611:CDS
TGATCATGTCCGCCACAGTC+TGG 0.477072 1.2:-69589498 None:intergenic
AGGAAGAAGAAGAAGTTCGC+AGG 0.487924 1.2:+69589581 MS.gene60611:CDS
CTTGAGAGTGATCTTCTTGG+TGG 0.489776 1.2:-69589158 None:intergenic
AAAGTCTTTCGAATTTCCTC+CGG 0.494201 1.2:-69589532 None:intergenic
CATGTCCGCCACAGTCTGGC+AGG 0.505580 1.2:-69589494 None:intergenic
AACCTTCGAGGTTTCCGAGA+TGG 0.514089 1.2:+69589195 MS.gene60611:CDS
ATCCCTGTTCAGAACGTCAC+CGG 0.528056 1.2:+69589277 MS.gene60611:CDS
AGTTCGCAGGGAAAATCAAT+GGG 0.535037 1.2:+69589594 MS.gene60611:CDS
TTCCGACGGCGAAACCTTCG+AGG 0.536569 1.2:+69589183 MS.gene60611:CDS
AGTAGTTTGCAGCAAGAATG+AGG 0.540783 1.2:-69589444 None:intergenic
GACGATCAAGCATATGATTG+AGG 0.544875 1.2:+69589234 MS.gene60611:CDS
CGATTCAAGTGCAACCATCT+CGG 0.546935 1.2:-69589209 None:intergenic
CTGTGGCGGACATGATCAAA+GGG 0.560086 1.2:+69589503 MS.gene60611:CDS
TTCCGGTGACGTTCTGAACA+GGG 0.562132 1.2:-69589279 None:intergenic
GGAAGAAGAAGAAGTTCGCA+GGG 0.572097 1.2:+69589582 MS.gene60611:CDS
ACTGTGGCGGACATGATCAA+AGG 0.579676 1.2:+69589502 MS.gene60611:CDS
AACCTCGAAGGTTTCGCCGT+CGG 0.594282 1.2:-69589185 None:intergenic
ATCACTCTCAAGAGTTCCGA+CGG 0.610136 1.2:+69589169 MS.gene60611:CDS
TATCATAAATGATTTCACTC+CGG 0.615392 1.2:+69589558 MS.gene60611:CDS
AACCATCTCGGAAACCTCGA+AGG 0.627410 1.2:-69589197 None:intergenic
ATGGGATGCTGAATTTGTGA+AGG 0.630247 1.2:+69589399 MS.gene60611:CDS
GGATCTTACCTGCCAGACTG+TGG 0.633239 1.2:+69589486 MS.gene60611:CDS
CATAAATGATTTCACTCCGG+AGG 0.633995 1.2:+69589561 MS.gene60611:CDS
TCTTACCTGCCAGACTGTGG+CGG 0.662768 1.2:+69589489 MS.gene60611:CDS
CATGATCAAAGGGAAGACAC+CGG 0.704151 1.2:+69589513 MS.gene60611:CDS
GATCAAAGGGAAGACACCGG+AGG 0.733400 1.2:+69589516 MS.gene60611:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGAAGACGAACTTAAAAAAT+GGG + chr1.2:69589381-69589400 MS.gene60611:CDS 25.0%
! TATCATAAATGATTTCACTC+CGG + chr1.2:69589558-69589577 MS.gene60611:CDS 25.0%
CAGAAGACGAACTTAAAAAA+TGG + chr1.2:69589380-69589399 MS.gene60611:CDS 30.0%
!!! TTTTTAAGTTCGTCTTCTGA+AGG - chr1.2:69589379-69589398 None:intergenic 30.0%
AAAGTCTTTCGAATTTCCTC+CGG - chr1.2:69589535-69589554 None:intergenic 35.0%
!! GTCTTCTGAAGGTTTTTCAT+CGG - chr1.2:69589368-69589387 None:intergenic 35.0%
AAGTTCGCAGGGAAAATCAA+TGG + chr1.2:69589593-69589612 MS.gene60611:CDS 40.0%
ACTCTTGAGAGTGATCTTCT+TGG - chr1.2:69589164-69589183 None:intergenic 40.0%
AGTTCGCAGGGAAAATCAAT+GGG + chr1.2:69589594-69589613 MS.gene60611:CDS 40.0%
ATGGGATGCTGAATTTGTGA+AGG + chr1.2:69589399-69589418 MS.gene60611:CDS 40.0%
CATAAATGATTTCACTCCGG+AGG + chr1.2:69589561-69589580 MS.gene60611:CDS 40.0%
CTTGAATATCAAGAGCTTGC+TGG + chr1.2:69589465-69589484 MS.gene60611:CDS 40.0%
GACGATCAAGCATATGATTG+AGG + chr1.2:69589234-69589253 MS.gene60611:CDS 40.0%
! AGTAGTTTGCAGCAAGAATG+AGG - chr1.2:69589447-69589466 None:intergenic 40.0%
AGGAAGAAGAAGAAGTTCGC+AGG + chr1.2:69589581-69589600 MS.gene60611:CDS 45.0%
ATCACTCTCAAGAGTTCCGA+CGG + chr1.2:69589169-69589188 MS.gene60611:CDS 45.0%
CACCAACGCCAAAATCTTTC+CGG - chr1.2:69589299-69589318 None:intergenic 45.0%
CATGATCAAAGGGAAGACAC+CGG + chr1.2:69589513-69589532 MS.gene60611:CDS 45.0%
CGAACTTCTTCTTCTTCCTC+CGG - chr1.2:69589580-69589599 None:intergenic 45.0%
CGATTCAAGTGCAACCATCT+CGG - chr1.2:69589212-69589231 None:intergenic 45.0%
CTTGAGAGTGATCTTCTTGG+TGG - chr1.2:69589161-69589180 None:intergenic 45.0%
GGAAGAAGAAGAAGTTCGCA+GGG + chr1.2:69589582-69589601 MS.gene60611:CDS 45.0%
! GAACGTCACCGGAAAGATTT+TGG + chr1.2:69589288-69589307 MS.gene60611:CDS 45.0%
AACCATCTCGGAAACCTCGA+AGG - chr1.2:69589200-69589219 None:intergenic 50.0%
AACCTTCGAGGTTTCCGAGA+TGG + chr1.2:69589195-69589214 MS.gene60611:CDS 50.0%
ATCCCTGTTCAGAACGTCAC+CGG + chr1.2:69589277-69589296 MS.gene60611:CDS 50.0%
CTGAACAGGGATTGCGTTGT+CGG - chr1.2:69589269-69589288 None:intergenic 50.0%
! TTCCGGTGACGTTCTGAACA+GGG - chr1.2:69589282-69589301 None:intergenic 50.0%
! TTTCCGGTGACGTTCTGAAC+AGG - chr1.2:69589283-69589302 None:intergenic 50.0%
!! ACTGTGGCGGACATGATCAA+AGG + chr1.2:69589502-69589521 MS.gene60611:CDS 50.0%
!! CACCGGAAAGATTTTGGCGT+TGG + chr1.2:69589294-69589313 MS.gene60611:CDS 50.0%
!! CTGTGGCGGACATGATCAAA+GGG + chr1.2:69589503-69589522 MS.gene60611:CDS 50.0%
AACCTCGAAGGTTTCGCCGT+CGG - chr1.2:69589188-69589207 None:intergenic 55.0%
GATCAAAGGGAAGACACCGG+AGG + chr1.2:69589516-69589535 MS.gene60611:CDS 55.0%
GGATCTTACCTGCCAGACTG+TGG + chr1.2:69589486-69589505 MS.gene60611:CDS 55.0%
TCTTACCTGCCAGACTGTGG+CGG + chr1.2:69589489-69589508 MS.gene60611:CDS 55.0%
TGATCATGTCCGCCACAGTC+TGG - chr1.2:69589501-69589520 None:intergenic 55.0%
TTCCGACGGCGAAACCTTCG+AGG + chr1.2:69589183-69589202 MS.gene60611:CDS 60.0%
CATGTCCGCCACAGTCTGGC+AGG - chr1.2:69589497-69589516 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 69589148 69589627 69589148 ID=MS.gene60611
chr1.2 mRNA 69589148 69589627 69589148 ID=MS.gene60611.t1;Parent=MS.gene60611
chr1.2 exon 69589148 69589627 69589148 ID=MS.gene60611.t1.exon1;Parent=MS.gene60611.t1
chr1.2 CDS 69589148 69589627 69589148 ID=cds.MS.gene60611.t1;Parent=MS.gene60611.t1
Gene Sequence

>MS.gene60611

ATGTCTTCAGCCACCAAGAAGATCACTCTCAAGAGTTCCGACGGCGAAACCTTCGAGGTTTCCGAGATGGTTGCACTTGAATCGCAGACGATCAAGCATATGATTGAGGACGATTGCGCCGACAACGCAATCCCTGTTCAGAACGTCACCGGAAAGATTTTGGCGTTGGTGATTGAATACTGTAAGAAACATGTCGATGTTGCTGCTGCTGCGAGTTCCGATGAAAAACCTTCAGAAGACGAACTTAAAAAATGGGATGCTGAATTTGTGAAGGTTGATAATGATACGCTTTTCGACCTCATTCTTGCTGCAAACTACTTGAATATCAAGAGCTTGCTGGATCTTACCTGCCAGACTGTGGCGGACATGATCAAAGGGAAGACACCGGAGGAAATTCGAAAGACTTTTAATATCATAAATGATTTCACTCCGGAGGAAGAAGAAGAAGTTCGCAGGGAAAATCAATGGGCATTTGAATGA
Protein sequence

>MS.gene60611.t1

MSSATKKITLKSSDGETFEVSEMVALESQTIKHMIEDDCADNAIPVQNVTGKILALVIEYCKKHVDVAAAASSDEKPSEDELKKWDAEFVKVDNDTLFDLILAANYLNIKSLLDLTCQTVADMIKGKTPEEIRKTFNIINDFTPEEEEEVRRENQWAFE