AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040871

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040871 MtrunA17_Chr7g0275401 91.126 293 24 2 1 292 1 292 0.0 518
MsaG040871 MtrunA17_Chr7g0275891 65.337 326 75 5 1 291 1 323 1.08e-133 382
MsaG040871 MtrunA17_Chr1g0149841 76.834 259 60 0 1 259 1 259 2.93e-128 374
MsaG040871 MtrunA17_Chr1g0149851 60.294 340 86 4 1 291 1 340 1.70e-118 350
MsaG040871 MtrunA17_Chr3g0137101 55.063 316 112 4 2 288 5 319 2.48e-100 307
MsaG040871 MtrunA17_Chr1g0149831 73.469 196 49 1 64 259 1 193 1.13e-86 258
MsaG040871 MtrunA17_Chr2g0304841 51.429 280 123 5 3 272 16 292 8.07e-82 260
MsaG040871 MtrunA17_Chr1g0161431 49.064 267 119 4 4 260 10 269 4.31e-76 243
MsaG040871 MtrunA17_Chr2g0294911 47.222 288 142 4 1 286 25 304 1.04e-75 242
MsaG040871 MtrunA17_Chr4g0074411 53.252 246 112 2 5 250 18 260 1.37e-75 242
MsaG040871 MtrunA17_Chr4g0067981 48.507 268 132 2 2 267 28 291 1.43e-75 243
MsaG040871 MtrunA17_Chr4g0074401 50.988 253 114 3 3 250 15 262 5.22e-72 232
MsaG040871 MtrunA17_Chr3g0123131 48.302 265 120 3 4 255 12 272 3.97e-71 229
MsaG040871 MtrunA17_Chr8g0376881 49.814 269 110 5 3 255 23 282 6.11e-70 225
MsaG040871 MtrunA17_Chr3g0134461 48.333 240 71 2 2 240 5 192 3.26e-60 190
MsaG040871 MtrunA17_Chr4g0074421 52.151 186 84 2 55 240 2 182 9.93e-55 176
MsaG040871 MtrunA17_Chr4g0009851 39.024 246 122 5 5 250 11 228 2.55e-50 168
MsaG040871 MtrunA17_Chr4g0009901 38.956 249 124 5 2 250 7 227 1.15e-49 165
MsaG040871 MtrunA17_Chr3g0134481 64.341 129 46 0 1 129 4 132 1.09e-47 157
MsaG040871 MtrunA17_Chr4g0009981 36.816 201 100 2 50 250 2 175 4.78e-39 137
MsaG040871 MtrunA17_Chr6g0471041 35.510 245 128 5 4 247 13 228 7.61e-39 140
MsaG040871 MtrunA17_Chr8g0350761 30.315 254 157 7 8 243 20 271 1.47e-27 111
MsaG040871 MtrunA17_Chr8g0391911 30.924 249 144 7 5 240 9 242 1.73e-24 99.4
MsaG040871 MtrunA17_Chr4g0009991 37.500 144 62 4 97 240 1 116 2.07e-22 90.1
MsaG040871 MtrunA17_Chr6g0456631 36.434 129 79 2 1 127 5 132 1.10e-21 89.7
MsaG040871 MtrunA17_Chr4g0011071 30.675 163 86 3 52 214 36 171 3.74e-21 88.2
MsaG040871 MtrunA17_Chr6g0473731 34.146 164 87 4 85 248 10 152 4.08e-20 89.7
MsaG040871 MtrunA17_Chr8g0345901 34.615 130 82 1 6 132 33 162 4.45e-20 90.1
MsaG040871 MtrunA17_Chr8g0383961 35.484 124 80 0 4 127 13 136 5.53e-20 87.0
MsaG040871 MtrunA17_Chr3g0091641 29.891 184 118 2 6 178 21 204 9.80e-20 89.0
MsaG040871 MtrunA17_Chr3g0127941 27.749 191 115 3 9 177 56 245 1.04e-19 89.4
MsaG040871 MtrunA17_Chr1g0181811 36.066 122 75 2 9 127 85 206 3.46e-18 84.7
MsaG040871 MtrunA17_Chr4g0061021 32.031 128 84 1 6 130 30 157 1.97e-17 82.4
MsaG040871 MtrunA17_Chr4g0030271 35.246 122 76 1 9 127 89 210 2.89e-17 82.0
MsaG040871 MtrunA17_Chr5g0423031 37.624 101 58 2 2 102 7 102 2.17e-16 75.5
MsaG040871 MtrunA17_Chr7g0276361 33.077 130 78 2 9 132 14 140 1.06e-15 77.0
MsaG040871 MtrunA17_Chr4g0031961 46.591 88 45 1 162 247 100 187 4.62e-15 74.3
MsaG040871 MtrunA17_Chr7g0274471 64.815 54 18 1 191 243 218 271 1.30e-14 73.6
MsaG040871 MtrunA17_Chr1g0190301 58.621 58 23 1 187 243 171 228 3.27e-14 72.4
MsaG040871 MtrunA17_Chr7g0255711 53.448 58 27 0 190 247 90 147 1.82e-13 69.3
MsaG040871 MtrunA17_Chr2g0290991 46.154 78 40 2 187 262 35 112 2.78e-13 68.9
MsaG040871 MtrunA17_Chr4g0059571 32.308 130 76 2 9 126 26 155 6.88e-13 66.6
MsaG040871 MtrunA17_Chr7g0261911 55.172 58 25 1 187 243 258 315 7.53e-13 68.6
MsaG040871 MtrunA17_Chr1g0175091 51.613 62 29 1 184 244 251 312 1.11e-12 67.8
MsaG040871 MtrunA17_Chr1g0197171 52.542 59 27 1 187 244 40 98 1.72e-12 66.6
MsaG040871 MtrunA17_Chr5g0409731 42.529 87 39 3 191 266 25 111 2.25e-12 66.2
MsaG040871 MtrunA17_Chr7g0258551 57.407 54 22 1 191 243 212 265 8.54e-12 65.1
MsaG040871 MtrunA17_Chr4g0040481 36.145 83 43 1 186 268 153 225 9.87e-12 65.1
MsaG040871 MtrunA17_Chr6g0461641 50.909 55 26 1 191 244 42 96 1.28e-11 64.7
MsaG040871 MtrunA17_Chr8g0352871 29.286 140 79 3 9 128 9 148 1.40e-11 62.0
MsaG040871 MtrunA17_Chr8g0379121 54.386 57 25 1 190 245 110 166 1.41e-11 64.7
MsaG040871 MtrunA17_Chr2g0324891 36.047 86 45 1 186 271 156 231 1.44e-11 64.3
MsaG040871 MtrunA17_Chr7g0243081 52.632 57 26 1 190 245 70 126 1.87e-11 63.9
MsaG040871 MtrunA17_Chr4g0042451 47.273 55 28 1 191 244 17 71 2.07e-11 63.5
MsaG040871 MtrunA17_Chr2g0321461 50.909 55 26 1 191 244 45 99 2.27e-11 63.9
MsaG040871 MtrunA17_Chr5g0400241 50.909 55 27 0 190 244 310 364 3.10e-11 63.5
MsaG040871 MtrunA17_Chr5g0400241 33.333 126 78 3 4 127 13 134 3.96e-11 63.5
MsaG040871 MtrunA17_Chr4g0054981 50.909 55 27 0 190 244 309 363 3.22e-11 63.5
MsaG040871 MtrunA17_Chr4g0054981 31.200 125 82 2 4 127 13 134 8.25e-11 62.4
MsaG040871 MtrunA17_Chr5g0417521 47.273 55 28 1 191 244 15 69 5.44e-11 62.4
MsaG040871 MtrunA17_Chr1g0175071 50.820 61 29 1 187 246 173 233 6.83e-11 62.0
MsaG040871 MtrunA17_Chr7g0254981 38.298 94 51 3 191 280 50 140 6.92e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040871 AT4G31920.1 58.301 259 92 2 3 261 11 253 1.50e-90 280
MsaG040871 AT2G25180.1 57.088 261 106 3 3 262 11 266 6.53e-88 274
MsaG040871 AT3G16857.1 46.102 295 116 6 5 267 33 316 3.62e-74 240
MsaG040871 AT3G16857.2 46.102 295 116 6 5 267 33 316 7.73e-74 239
MsaG040871 AT5G58080.1 48.754 281 116 5 3 272 12 275 1.30e-70 229
MsaG040871 AT2G01760.1 48.031 254 125 3 1 247 3 256 2.91e-69 219
MsaG040871 AT1G67710.1 50.000 254 114 4 7 253 9 256 1.22e-68 222
MsaG040871 AT2G01760.2 42.662 293 132 5 1 258 3 294 3.95e-63 204
MsaG040871 AT3G16857.3 45.136 257 98 6 43 267 1 246 2.81e-59 199
MsaG040871 AT5G49240.1 37.815 238 143 4 5 240 38 272 2.28e-45 155
MsaG040871 AT1G67710.2 48.731 197 88 4 64 253 1 191 3.01e-44 156
MsaG040871 AT3G62670.1 38.554 249 124 8 24 260 54 285 2.03e-43 153
MsaG040871 AT2G01760.3 46.073 191 96 3 64 247 1 191 3.16e-43 150
MsaG040871 AT1G49190.1 30.128 312 169 6 4 286 29 320 4.04e-39 142
MsaG040871 AT1G67710.3 42.938 177 88 4 84 253 12 182 8.19e-30 117
MsaG040871 AT5G07210.2 28.996 269 155 6 9 247 16 278 1.38e-29 118
MsaG040871 AT2G27070.1 30.108 279 146 7 7 247 14 281 1.55e-28 115
MsaG040871 AT5G07210.1 27.798 277 156 7 9 247 16 286 4.54e-27 110
MsaG040871 AT1G49190.2 28.879 232 142 6 4 212 29 260 4.10e-23 99.4
MsaG040871 AT2G46790.1 37.398 123 72 2 9 127 37 158 1.29e-21 94.7
MsaG040871 AT2G46790.3 37.398 123 72 2 9 127 37 158 1.51e-21 94.4
MsaG040871 AT5G24470.1 34.646 127 78 2 6 128 47 172 3.07e-20 90.9
MsaG040871 AT5G61380.1 34.375 128 81 1 6 130 16 143 1.30e-19 89.4
MsaG040871 AT5G60100.7 37.705 122 73 1 9 127 64 185 1.23e-18 85.9
MsaG040871 AT5G60100.6 37.705 122 73 1 9 127 64 185 1.23e-18 85.9
MsaG040871 AT5G60100.4 37.705 122 73 1 9 127 64 185 1.23e-18 85.9
MsaG040871 AT5G60100.5 37.705 122 73 1 9 127 64 185 1.50e-18 85.9
MsaG040871 AT5G60100.3 37.705 122 73 1 9 127 64 185 1.50e-18 85.9
MsaG040871 AT5G60100.1 37.705 122 73 1 9 127 64 185 1.50e-18 85.9
MsaG040871 AT5G60100.2 37.705 122 73 1 9 127 64 185 2.10e-18 85.5
MsaG040871 AT5G02810.1 35.246 122 76 1 9 127 78 199 1.40e-17 83.2
MsaG040871 AT5G59570.2 47.436 78 41 0 170 247 120 197 1.63e-16 78.6
MsaG040871 AT5G59570.1 47.436 78 41 0 170 247 120 197 1.63e-16 78.6
MsaG040871 AT3G46640.2 55.172 58 26 0 190 247 143 200 2.50e-14 72.4
MsaG040871 AT3G46640.1 55.172 58 26 0 190 247 143 200 2.50e-14 72.4
MsaG040871 AT3G46640.3 55.172 58 26 0 190 247 143 200 2.88e-14 72.4
MsaG040871 AT2G40970.1 53.448 58 27 0 190 247 104 161 4.21e-14 70.9
MsaG040871 AT5G44190.1 44.304 79 34 1 190 268 146 214 5.11e-14 72.0
MsaG040871 AT5G44190.2 44.304 79 34 1 190 268 146 214 5.46e-14 71.6
MsaG040871 AT3G10760.1 53.448 58 27 0 190 247 104 161 1.26e-13 70.5
MsaG040871 AT5G05090.1 53.448 58 27 0 190 247 80 137 1.49e-13 69.7
MsaG040871 AT3G13040.3 53.846 65 29 1 181 244 231 295 8.42e-13 68.6
MsaG040871 AT3G13040.1 53.846 65 29 1 181 244 231 295 8.42e-13 68.6
MsaG040871 AT3G13040.2 53.846 65 29 1 181 244 231 295 8.42e-13 68.6
MsaG040871 AT5G45580.2 49.254 67 33 1 179 244 11 77 3.61e-12 65.9
MsaG040871 AT5G45580.1 54.545 55 24 1 191 244 7 61 4.87e-12 65.1
MsaG040871 AT4G13640.2 41.379 87 48 2 187 270 33 119 5.03e-12 65.5
MsaG040871 AT4G13640.1 41.379 87 48 2 187 270 33 119 5.16e-12 65.5
MsaG040871 AT1G69580.1 52.727 55 25 1 191 244 34 88 6.03e-12 65.9
MsaG040871 AT1G69580.2 52.727 55 25 1 191 244 34 88 6.18e-12 65.5
MsaG040871 AT3G24120.1 40.230 87 49 2 187 270 37 123 1.14e-11 64.7
MsaG040871 AT3G24120.2 40.230 87 49 2 187 270 37 123 1.23e-11 64.3
MsaG040871 AT3G57040.2 27.684 177 102 4 9 159 9 185 1.25e-11 63.5
MsaG040871 AT3G57040.1 27.684 177 102 4 9 159 9 185 1.25e-11 63.5
MsaG040871 AT2G01060.1 41.000 100 50 4 182 272 4 103 1.29e-11 64.3
MsaG040871 AT3G04030.1 50.909 55 26 1 191 244 45 99 1.45e-11 64.7
MsaG040871 AT3G04030.3 50.909 55 26 1 191 244 45 99 1.59e-11 64.7
MsaG040871 AT3G12730.1 45.070 71 37 2 187 255 19 89 1.85e-11 63.2
MsaG040871 AT2G20570.1 34.426 122 61 3 150 271 121 223 1.99e-11 64.3
MsaG040871 AT3G04030.2 48.148 54 28 0 191 244 45 98 3.56e-11 63.5
MsaG040871 AT5G18240.2 50.909 55 26 1 191 244 45 99 5.09e-11 63.2
MsaG040871 AT5G18240.3 50.909 55 26 1 191 244 45 99 5.09e-11 63.2
MsaG040871 AT5G18240.1 50.909 55 26 1 191 244 45 99 5.41e-11 63.2
MsaG040871 AT5G18240.4 50.909 55 26 1 191 244 45 99 5.41e-11 63.2
MsaG040871 AT5G18240.5 50.909 55 26 1 191 244 45 99 5.43e-11 63.2
MsaG040871 AT2G20570.2 40.789 76 35 1 196 271 174 239 7.84e-11 62.8

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGAACTTGTCTCAAGATTT+TGG 0.120883 7:-104736709 MsaT040871.1:CDS
CTTGTCGCGGTTAACAAATT+TGG 0.304801 7:-104735546 MsaT040871.1:CDS
CCATTTCCACTATCAGAATT+AGG 0.317534 7:+104735744 None:intergenic
TGAAAGAGGTGAAGATGATT+TGG 0.332494 7:-104735818 MsaT040871.1:CDS
ATGAATGATGAGTTTCGAAT+TGG 0.346923 7:-104736759 MsaT040871.1:CDS
TTCACCTCTTTCAATTGAAC+AGG 0.352913 7:+104735828 None:intergenic
TGAGCTTGTTGGACTTGAAA+TGG 0.372169 7:-104736026 MsaT040871.1:CDS
TTTAAGCTTCTTGAGCTTGT+TGG 0.375182 7:-104736037 MsaT040871.1:CDS
CAACGAAATCGAGGCTTCTT+CGG 0.398280 7:+104735594 None:intergenic
CCTAATTCTGATAGTGGAAA+TGG 0.401332 7:-104735744 MsaT040871.1:CDS
CCTCCTAGTGTCAATATACA+TGG 0.410772 7:-104734826 MsaT040871.1:CDS
ATTGCTTTCATAACCAGCTT+AGG 0.420417 7:+104735882 None:intergenic
AGTTGAAAAGTAGTAGTTAT+GGG 0.440897 7:-104734915 MsaT040871.1:CDS
AAACTTGTGGTGTAAGTCAT+TGG 0.441523 7:+104735569 None:intergenic
TTCAGTGCTATTCGTGCACT+TGG 0.445352 7:+104736130 None:intergenic
CGAGGCTTCTTCGGCGCAGT+TGG 0.453906 7:+104735603 None:intergenic
TATGAACATTACTCATTACT+AGG 0.460796 7:+104736077 None:intergenic
AGCTTAAATCCATCCATGTC+TGG 0.471845 7:+104736052 None:intergenic
AAGTTGAAAAGTAGTAGTTA+TGG 0.482179 7:-104734916 MsaT040871.1:CDS
TGAAAATGATGATCCTAAGC+TGG 0.496842 7:-104735895 MsaT040871.1:CDS
ACATGTGGCCAGCCATCTCC+AGG 0.523004 7:-104735196 MsaT040871.1:intron
TTGCATAACTTACTTATGAC+AGG 0.526242 7:+104735998 None:intergenic
TAAGAATGAAGATGATGTTG+AGG 0.533063 7:-104735658 MsaT040871.1:CDS
CTCCACGAAGAAAACTTACA+AGG 0.534436 7:+104734777 None:intergenic
GATGTGCCTAATTCTGATAG+TGG 0.537306 7:-104735750 MsaT040871.1:CDS
CGAAGAAGCCTCGATTTCGT+TGG 0.556982 7:-104735593 MsaT040871.1:CDS
TATTCGTGCACTTGGAGCAG+TGG 0.566879 7:+104736138 None:intergenic
GTTCATATGCCAGACATGGA+TGG 0.584384 7:-104736061 MsaT040871.1:CDS
TAGTGTCAATATACATGGGT+TGG 0.589409 7:-104734821 MsaT040871.1:CDS
GAAACCTGTTCAATTGAAAG+AGG 0.592307 7:-104735832 MsaT040871.1:CDS
GTTATGAAAGCAATTGATCT+CGG 0.596446 7:-104735873 MsaT040871.1:CDS
GAGTATGATCATGAAAATGA+TGG 0.597211 7:-104735627 MsaT040871.1:CDS
TAGCCACCATATTAGCTCGA+TGG 0.616049 7:+104734887 None:intergenic
CGAGCTAATATGGTGGCTAG+TGG 0.620369 7:-104734883 MsaT040871.1:CDS
AAATCTTACAAAGGAACATG+TGG 0.625593 7:-104735211 MsaT040871.1:CDS
ATAACTTACTTATGACAGGT+AGG 0.629417 7:+104736002 None:intergenic
CTCCTAGTGTCAATATACAT+GGG 0.630450 7:-104734825 MsaT040871.1:CDS
CCATGTATATTGACACTAGG+AGG 0.632916 7:+104734826 None:intergenic
GAATGTTGAAAATCTTACAA+AGG 0.637383 7:-104735220 MsaT040871.1:CDS
ACACCACAAGTTTCTTGTCG+CGG 0.645407 7:-104735559 MsaT040871.1:CDS
CTCGAAAGGTGTCAATACCA+TGG 0.650196 7:-104736678 MsaT040871.1:intron
TCATTGGACCAACGAAATCG+AGG 0.660616 7:+104735585 None:intergenic
TAATGTTCATATGCCAGACA+TGG 0.666265 7:-104736065 MsaT040871.1:CDS
TAACCGCGACAAGAAACTTG+TGG 0.669528 7:+104735556 None:intergenic
AACCCATGTATATTGACACT+AGG 0.674841 7:+104734823 None:intergenic
AAACCATCGAGCTAATATGG+TGG 0.705104 7:-104734890 MsaT040871.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 104734792 104736781 104734792 ID=MsaG040871
Chr7 mRNA 104734792 104736781 104734792 ID=MsaT040871.1;Parent=MsaG040871
Chr7 exon 104734792 104734950 104734792 ID=MsaT040871.1.exon5;Parent=MsaT040871.1
Chr7 CDS 104734792 104734950 104734792 ID=cds.MsaT040871.1;Parent=MsaT040871.1
Chr7 exon 104735197 104735273 104735197 ID=MsaT040871.1.exon4;Parent=MsaT040871.1
Chr7 CDS 104735197 104735273 104735197 ID=cds.MsaT040871.1;Parent=MsaT040871.1
Chr7 exon 104735538 104735924 104735538 ID=MsaT040871.1.exon3;Parent=MsaT040871.1
Chr7 CDS 104735538 104735924 104735538 ID=cds.MsaT040871.1;Parent=MsaT040871.1
Chr7 exon 104736011 104736163 104736011 ID=MsaT040871.1.exon2;Parent=MsaT040871.1
Chr7 CDS 104736011 104736163 104736011 ID=cds.MsaT040871.1;Parent=MsaT040871.1
Chr7 exon 104736679 104736781 104736679 ID=MsaT040871.1.exon1;Parent=MsaT040871.1
Chr7 CDS 104736679 104736781 104736679 ID=cds.MsaT040871.1;Parent=MsaT040871.1
Gene Sequence

>MsaT040871.1

ATGAATGATGAGTTTCGAATTGGAATGAATATTCTTGCTGTTGATGATGACAGAACTTGTCTCAAGATTTTGGAGAGACTTCTCGAAAGGTGTCAATACCATGTAACCACTGCTCCAAGTGCACGAATAGCACTGAATTTGTTAAGAGAAAACAAAAACAATTTTGACCTAGTAATGAGTAATGTTCATATGCCAGACATGGATGGATTTAAGCTTCTTGAGCTTGTTGGACTTGAAATGGACCTACCTGTCATAATGTTTTCTGAAAATGATGATCCTAAGCTGGTTATGAAAGCAATTGATCTCGGTGCTTGTGATTATCTGCTGAAACCTGTTCAATTGAAAGAGGTGAAGATGATTTGGCAACATGTAATCAGAAAGAAGAAAATTAGCAAAAGAAGCAATCACGATGTGCCTAATTCTGATAGTGGAAATGGAATAGATTCAACTGTGACAAAAAATTCTGATAAAATTGAAAAGCCATCTAGAAAAAGAAAGGATAAGAATGAAGATGATGTTGAGGAAGAGAATGAGTATGATCATGAAAATGATGGTCCAACTGCGCCGAAGAAGCCTCGATTTCGTTGGTCCAATGACTTACACCACAAGTTTCTTGTCGCGGTTAACAAATTTGGCGTTGAAAAGGCTAGGCCACAAAAGATTCTTAACTTGATGAATGTTGAAAATCTTACAAAGGAACATGTGGCCAGCCATCTCCAGAAATATAGACTAAAGTTGAAAAGTAGTAGTTATGGGAAAAACCATCGAGCTAATATGGTGGCTAGTGGTTCTGATACATCATCTCACTCAAGAATTGACACTCCTCCTAGTGTCAATATACATGGGTTGGCTACTCTTGATTTAAACAACTCCTTGTAA
Protein sequence

>MsaT040871.1

MNDEFRIGMNILAVDDDRTCLKILERLLERCQYHVTTAPSARIALNLLRENKNNFDLVMSNVHMPDMDGFKLLELVGLEMDLPVIMFSENDDPKLVMKAIDLGACDYLLKPVQLKEVKMIWQHVIRKKKISKRSNHDVPNSDSGNGIDSTVTKNSDKIEKPSRKRKDKNEDDVEEENEYDHENDGPTAPKKPRFRWSNDLHHKFLVAVNKFGVEKARPQKILNLMNVENLTKEHVASHLQKYRLKLKSSSYGKNHRANMVASGSDTSSHSRIDTPPSVNIHGLATLDLNNSL*