AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1346570

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1346570 MtrunA17_Chr3g0101111 98.438 128 2 0 1 128 169 296 7.76e-90 262
Msa1346570 MtrunA17_Chr3g0101091 98.438 128 2 0 1 128 169 296 1.78e-89 261
Msa1346570 MtrunA17_Chr3g0101081 98.438 128 2 0 1 128 169 296 1.78e-89 261
Msa1346570 MtrunA17_Chr7g0225201 91.473 129 11 0 1 129 170 298 1.12e-82 244
Msa1346570 MtrunA17_Chr3g0132681 89.683 126 13 0 1 126 170 295 4.39e-79 234
Msa1346570 MtrunA17_Chr5g0445271 85.345 116 17 0 1 116 170 285 1.46e-71 216
Msa1346570 MtrunA17_Chr5g0447731 76.423 123 29 0 1 123 166 288 3.76e-68 207
Msa1346570 MtrunA17_Chr7g0273851 68.548 124 36 2 1 122 167 289 8.20e-50 168
Msa1346570 MtrunA17_Chr1g0190951 66.935 124 38 2 1 122 167 289 6.86e-49 166
Msa1346570 MtrunA17_Chr7g0244601 59.836 122 49 0 1 122 171 292 6.07e-47 159
Msa1346570 MtrunA17_Chr1g0205471 66.935 124 37 3 1 122 167 288 7.10e-47 160
Msa1346570 MtrunA17_Chr5g0432541 63.793 116 42 0 1 116 170 285 6.38e-46 156
Msa1346570 MtrunA17_Chr3g0129771 62.393 117 43 1 1 117 176 291 7.29e-45 154
Msa1346570 MtrunA17_Chr8g0384001 60.870 115 44 1 1 115 171 284 1.44e-43 150
Msa1346570 MtrunA17_Chr8g0346511 69.828 116 34 1 1 116 181 295 4.79e-42 146
Msa1346570 MtrunA17_Chr3g0116811 66.379 116 39 0 1 116 169 284 4.63e-41 143
Msa1346570 MtrunA17_Chr6g0455931 66.379 116 39 0 1 116 172 287 5.87e-41 143
Msa1346570 MtrunA17_Chr3g0119911 67.241 116 37 1 1 116 163 277 1.43e-40 142
Msa1346570 MtrunA17_Chr4g0013051 63.115 122 45 0 1 122 167 288 1.84e-40 142
Msa1346570 MtrunA17_Chr3g0130151 36.364 121 73 3 1 118 383 502 2.61e-17 76.6
Msa1346570 MtrunA17_Chr1g0202831 40.336 119 65 4 1 115 550 666 5.01e-17 75.9
Msa1346570 MtrunA17_Chr8g0384301 35.537 121 74 3 1 118 438 557 6.16e-15 70.1
Msa1346570 MtrunA17_Chr8g0386981 35.593 118 72 3 1 115 547 663 1.76e-14 68.6
Msa1346570 MtrunA17_Chr4g0025041 37.190 121 70 5 2 119 135 252 8.64e-14 66.6
Msa1346570 MtrunA17_Chr4g0041201 34.959 123 72 4 1 121 684 800 1.62e-13 65.9
Msa1346570 MtrunA17_Chr4g0051191 36.667 120 69 5 1 116 301 417 1.70e-13 65.9
Msa1346570 MtrunA17_Chr2g0310781 37.168 113 66 3 2 110 993 1104 2.75e-13 65.5
Msa1346570 MtrunA17_Chr2g0299991 31.724 145 75 6 1 125 206 346 2.82e-13 65.1
Msa1346570 MtrunA17_Chr5g0424501 35.294 119 70 4 1 115 329 444 4.52e-13 64.7
Msa1346570 MtrunA17_Chr8g0375141 35.938 128 69 6 1 120 181 303 5.50e-13 64.3
Msa1346570 MtrunA17_Chr5g0406251 29.825 114 77 3 1 112 430 542 8.15e-13 63.9
Msa1346570 MtrunA17_Chr4g0052981 34.014 147 74 7 1 129 142 283 9.44e-13 63.5
Msa1346570 MtrunA17_Chr3g0133541 33.594 128 73 4 1 119 447 571 5.68e-12 61.6
Msa1346570 MtrunA17_Chr3g0115171 36.066 122 67 5 1 116 420 536 1.07e-11 60.8
Msa1346570 MtrunA17_Chr4g0025671 33.898 118 74 3 1 116 147 262 1.18e-11 60.5
Msa1346570 MtrunA17_Chr5g0424581 33.613 119 72 4 1 115 262 377 2.40e-11 59.7
Msa1346570 MtrunA17_Chr1g0185221 33.621 116 73 3 1 114 143 256 2.52e-11 59.7
Msa1346570 MtrunA17_Chr7g0260191 33.621 116 73 3 1 114 143 256 2.74e-11 59.7
Msa1346570 MtrunA17_Chr4g0052961 34.375 128 71 6 1 120 179 301 3.32e-11 59.3
Msa1346570 MtrunA17_Chr1g0173921 31.356 118 77 3 1 116 143 258 3.35e-11 59.3
Msa1346570 MtrunA17_Chr1g0179331 34.211 114 71 4 1 111 694 806 5.15e-11 58.9
Msa1346570 MtrunA17_Chr4g0070851 29.412 136 82 5 1 122 206 341 6.23e-11 58.5
Msa1346570 MtrunA17_Chr4g0000431 33.071 127 72 5 1 116 161 285 6.77e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1346570 AT5G55560.1 79.832 119 24 0 1 119 174 292 2.12e-68 208
Msa1346570 AT3G48260.2 64.655 116 41 0 1 116 70 185 9.88e-50 164
Msa1346570 AT3G48260.1 64.655 116 41 0 1 116 165 280 4.85e-49 164
Msa1346570 AT3G04910.3 67.742 124 37 2 1 122 41 163 7.47e-49 164
Msa1346570 AT3G04910.2 67.742 124 37 2 1 122 144 266 1.66e-48 164
Msa1346570 AT3G04910.1 67.742 124 37 2 1 122 167 289 2.40e-48 164
Msa1346570 AT1G49160.7 64.957 117 40 1 1 117 44 159 2.30e-46 155
Msa1346570 AT1G49160.6 64.957 117 40 1 1 117 44 159 2.30e-46 155
Msa1346570 AT1G49160.4 64.957 117 40 1 1 117 44 159 2.30e-46 155
Msa1346570 AT3G18750.4 64.655 116 40 1 1 116 153 267 3.50e-46 157
Msa1346570 AT3G18750.1 64.655 116 40 1 1 116 171 285 5.70e-46 156
Msa1346570 AT3G18750.3 64.655 116 40 1 1 116 171 285 5.70e-46 156
Msa1346570 AT3G18750.5 64.655 116 40 1 1 116 171 285 5.70e-46 156
Msa1346570 AT1G49160.1 64.957 117 40 1 1 117 153 268 8.77e-46 155
Msa1346570 AT1G49160.2 64.957 117 40 1 1 117 171 286 1.49e-45 155
Msa1346570 AT1G49160.3 64.957 117 40 1 1 117 218 333 1.71e-45 154
Msa1346570 AT1G49160.5 64.957 117 40 1 1 117 218 333 3.59e-45 155
Msa1346570 AT5G58350.1 60.345 116 46 0 1 116 162 277 4.08e-45 154
Msa1346570 AT5G28080.4 63.793 116 41 1 1 116 82 196 5.73e-45 151
Msa1346570 AT5G28080.3 63.793 116 41 1 1 116 82 196 5.73e-45 151
Msa1346570 AT5G28080.5 63.793 116 41 1 1 116 82 196 5.73e-45 151
Msa1346570 AT5G28080.6 63.793 116 41 1 1 116 82 196 5.73e-45 151
Msa1346570 AT5G28080.7 63.793 116 41 1 1 116 82 196 5.73e-45 151
Msa1346570 AT3G51630.1 64.655 116 41 0 1 116 168 283 6.32e-45 153
Msa1346570 AT3G51630.2 64.655 116 41 0 1 116 168 283 6.32e-45 153
Msa1346570 AT3G22420.1 61.864 118 44 1 1 118 167 283 1.15e-44 153
Msa1346570 AT3G22420.5 61.864 118 44 1 1 118 167 283 1.38e-44 153
Msa1346570 AT3G22420.4 61.864 118 44 1 1 118 238 354 1.40e-44 153
Msa1346570 AT5G28080.8 63.793 116 41 1 1 116 131 245 1.48e-44 150
Msa1346570 AT3G22420.3 61.864 118 44 1 1 118 238 354 1.84e-44 153
Msa1346570 AT5G28080.2 63.793 116 41 1 1 116 168 282 2.40e-44 151
Msa1346570 AT1G64630.1 67.241 116 37 1 1 116 159 273 3.58e-41 143
Msa1346570 AT5G41990.1 65.517 116 39 1 1 116 172 286 1.74e-40 142
Msa1346570 AT3G22420.6 48.993 149 45 1 1 118 167 315 5.62e-40 140
Msa1346570 AT3G22420.2 48.993 149 45 1 1 118 167 315 6.94e-40 140
Msa1346570 AT5G28080.1 61.798 89 34 0 28 116 1 89 4.58e-32 115
Msa1346570 AT1G53570.7 36.975 119 71 3 1 116 353 470 2.27e-17 77.4
Msa1346570 AT1G53570.6 36.975 119 71 3 1 116 353 470 2.31e-17 77.4
Msa1346570 AT1G53570.1 36.975 119 71 3 1 116 353 470 2.85e-17 77.0
Msa1346570 AT1G53570.4 36.975 119 71 3 1 116 353 470 2.91e-17 77.0
Msa1346570 AT1G53570.2 36.975 119 71 3 1 116 353 470 2.91e-17 77.0
Msa1346570 AT1G53570.3 36.975 119 71 3 1 116 353 470 2.91e-17 77.0
Msa1346570 AT4G08500.1 39.167 120 65 5 1 115 470 586 1.12e-15 72.4
Msa1346570 AT1G53570.5 35.833 120 66 4 7 116 326 444 8.46e-15 70.1
Msa1346570 AT2G31010.1 35.772 123 71 4 1 121 656 772 1.09e-13 67.0
Msa1346570 AT2G31010.2 35.772 123 71 4 1 121 656 772 1.09e-13 67.0
Msa1346570 AT1G63700.1 34.426 122 76 3 1 119 539 659 1.49e-13 66.6
Msa1346570 AT1G63700.2 34.426 122 76 3 1 119 539 659 1.49e-13 66.6
Msa1346570 AT4G08480.1 37.398 123 63 5 1 115 638 754 2.34e-13 65.9
Msa1346570 AT3G20860.1 34.454 119 74 3 1 117 142 258 5.49e-13 64.7
Msa1346570 AT5G55090.1 36.000 125 75 5 1 122 140 262 1.14e-12 63.9
Msa1346570 AT5G55090.2 36.508 126 75 5 2 124 203 326 5.05e-12 62.0
Msa1346570 AT4G12020.4 35.200 125 64 6 1 117 1755 1870 6.29e-12 62.0
Msa1346570 AT4G12020.5 35.200 125 64 6 1 117 1688 1803 6.40e-12 62.0
Msa1346570 AT4G12020.2 35.200 125 64 6 1 117 1763 1878 6.53e-12 62.0
Msa1346570 AT1G79640.6 32.283 127 73 5 1 116 150 274 9.01e-12 61.2
Msa1346570 AT1G79640.5 32.283 127 73 5 1 116 153 277 9.77e-12 61.2
Msa1346570 AT1G79640.1 32.283 127 73 5 1 116 150 274 9.96e-12 61.2
Msa1346570 AT1G79640.2 32.283 127 73 5 1 116 150 274 1.01e-11 61.2
Msa1346570 AT1G79640.4 32.283 127 73 5 1 116 150 274 1.01e-11 61.2
Msa1346570 AT1G79640.3 32.283 127 73 5 1 116 150 274 1.01e-11 61.2
Msa1346570 AT1G54510.4 34.746 118 69 4 1 114 143 256 1.34e-11 60.8
Msa1346570 AT1G54510.2 34.746 118 69 4 1 114 143 256 1.34e-11 60.8
Msa1346570 AT1G54510.1 34.746 118 69 4 1 114 143 256 1.34e-11 60.8
Msa1346570 AT1G54510.3 34.746 118 69 4 1 114 143 256 1.34e-11 60.8
Msa1346570 AT1G72180.1 32.609 138 70 7 2 120 829 962 1.83e-11 60.5
Msa1346570 AT2G17700.1 30.702 114 76 3 1 112 421 533 2.14e-11 60.1
Msa1346570 AT2G24360.1 31.579 114 75 3 1 112 270 382 2.29e-11 60.1
Msa1346570 AT4G08470.3 35.833 120 69 5 1 115 358 474 2.42e-11 60.1
Msa1346570 AT4G08470.1 35.833 120 69 5 1 115 440 556 2.53e-11 60.1
Msa1346570 AT4G29810.1 30.000 130 82 4 1 121 206 335 2.75e-11 59.7
Msa1346570 AT3G63280.4 33.051 118 71 4 1 114 197 310 2.79e-11 60.1
Msa1346570 AT4G29810.2 29.771 131 83 4 1 122 215 345 2.87e-11 59.7
Msa1346570 AT1G53165.3 31.967 122 77 4 1 118 150 269 3.98e-11 59.3
Msa1346570 AT3G63280.2 33.051 118 71 4 1 114 143 256 4.02e-11 59.3
Msa1346570 AT3G63280.3 33.051 118 71 4 1 114 143 256 4.02e-11 59.3
Msa1346570 AT3G63280.1 33.051 118 71 4 1 114 143 256 4.02e-11 59.3
Msa1346570 AT1G53165.2 31.967 122 77 4 1 118 150 269 4.25e-11 59.3
Msa1346570 AT1G53165.1 31.967 122 77 4 1 118 150 269 4.38e-11 59.3
Msa1346570 AT2G30360.1 29.508 122 77 5 1 116 159 277 4.58e-11 59.3
Msa1346570 AT5G28290.1 31.667 120 74 4 1 116 143 258 5.61e-11 58.9
Msa1346570 AT5G28290.2 31.667 120 74 4 1 116 143 258 5.61e-11 58.9
Msa1346570 AT5G28290.3 31.667 120 74 4 1 116 143 258 5.92e-11 58.9
Msa1346570 AT1G16270.1 35.398 113 68 3 2 110 1011 1122 6.01e-11 58.9
Msa1346570 AT1G16270.2 35.398 113 68 3 2 110 1011 1122 6.01e-11 58.9
Msa1346570 AT1G16270.3 35.398 113 68 3 2 110 1011 1122 6.01e-11 58.9
Msa1346570 AT3G04810.2 33.051 118 75 3 1 116 143 258 7.86e-11 58.5
Msa1346570 AT3G04810.1 33.051 118 75 3 1 116 143 258 7.86e-11 58.5
Msa1346570 AT3G04810.3 33.051 118 75 3 1 116 143 258 7.86e-11 58.5
Msa1346570 AT4G35780.1 29.825 114 77 3 1 112 427 539 9.83e-11 58.2
Msa1346570 AT3G44200.2 33.051 118 75 3 1 116 147 262 9.91e-11 58.5
Msa1346570 AT3G44200.1 33.051 118 75 3 1 116 147 262 9.91e-11 58.5

Find 25 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTAGGCACCCCAGAATTTA+TGG 0.192542 tig0009063:-985 Msa1346570:CDS
AGCTCTGGTGCCATAAATTC+TGG 0.309061 tig0009063:+975 Msa1346570:intergenic
ACATTGTCACATTCACTATA+TGG 0.341582 tig0009063:+873 Msa1346570:intergenic
CATTCAGCGCATTCAGTCCT+AGG 0.410120 tig0009063:-1002 Msa1346570:CDS
CTTAGGATTGGCAGCAATTG+TGG 0.413446 tig0009063:-1033 Msa1346570:CDS
ATGGTAGACATATACTCATT+TGG 0.414002 tig0009063:-930 Msa1346570:CDS
TTTATCTTGTTCAAGGATTG+TGG 0.441740 tig0009063:+813 Msa1346570:intergenic
TGAAGAGAATTACACAGAAA+TGG 0.441894 tig0009063:-949 Msa1346570:CDS
TAGGTTAAGATTGGTGACTT+AGG 0.443630 tig0009063:-1050 Msa1346570:CDS
ATATACAAGAAGGTGACTTC+AGG 0.446476 tig0009063:-843 Msa1346570:CDS
TAATTCTCTTCATATAGCTC+TGG 0.465064 tig0009063:+960 Msa1346570:intergenic
GCTCTGGTGCCATAAATTCT+GGG 0.474120 tig0009063:+976 Msa1346570:intergenic
CCATAAATTCTGGGGTGCCT+AGG 0.475168 tig0009063:+985 Msa1346570:intergenic
TCGGCAGAAGGTCTAGCCCT+TGG 0.508329 tig0009063:+747 Msa1346570:intergenic
TTAGGATTGGCAGCAATTGT+GGG 0.511572 tig0009063:-1032 Msa1346570:CDS
TAAGATTGGTGACTTAGGAT+TGG 0.514717 tig0009063:-1045 Msa1346570:CDS
TTCTGCCGAGGAATTGCTAA+AGG 0.541311 tig0009063:-733 Msa1346570:CDS
TGGAATGTTAGTATTAGAGA+TGG 0.547641 tig0009063:-910 Msa1346570:CDS
TTTAGCAATTCCTCGGCAGA+AGG 0.557159 tig0009063:+735 Msa1346570:intergenic
GGGATCCTTTAGCAATTCCT+CGG 0.560144 tig0009063:+728 Msa1346570:intergenic
AAAAGTGTCTTGCTCAACCA+AGG 0.560730 tig0009063:-764 Msa1346570:CDS
TGTTGCAAAGATATACAAGA+AGG 0.609288 tig0009063:-853 Msa1346570:CDS
CTCTGGTGCCATAAATTCTG+GGG 0.627477 tig0009063:+977 Msa1346570:intergenic
AAAGTGTCTTGCTCAACCAA+GGG 0.661944 tig0009063:-763 Msa1346570:CDS
AAGGGCTAGACCTTCTGCCG+AGG 0.666215 tig0009063:-745 Msa1346570:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TACTCTACATCATCAAAAAA+GGG + tig0009063:1022-1041 Msa1346570:intergenic 25.0%
TAATTCTCTTCATATAGCTC+TGG + tig0009063:770-789 Msa1346570:intergenic 30.0%
TGAAGAGAATTACACAGAAA+TGG - tig0009063:778-797 Msa1346570:CDS 30.0%
ATGGTAGACATATACTCATT+TGG - tig0009063:797-816 Msa1346570:CDS 30.0%
TGGAATGTTAGTATTAGAGA+TGG - tig0009063:817-836 Msa1346570:CDS 30.0%
ACATTGTCACATTCACTATA+TGG + tig0009063:857-876 Msa1346570:intergenic 30.0%
TGTTGCAAAGATATACAAGA+AGG - tig0009063:874-893 Msa1346570:CDS 30.0%
TTTATCTTGTTCAAGGATTG+TGG + tig0009063:917-936 Msa1346570:intergenic 30.0%
! AGCATCTTTTATCTTGTTCA+AGG + tig0009063:924-943 Msa1346570:intergenic 30.0%
GTACTCTACATCATCAAAAA+AGG + tig0009063:1023-1042 Msa1346570:intergenic 30.0%
! TAAGATTGGTGACTTAGGAT+TGG - tig0009063:682-701 Msa1346570:CDS 35.0%
ATATACAAGAAGGTGACTTC+AGG - tig0009063:884-903 Msa1346570:CDS 35.0%
! TTAGGATTGGCAGCAATTGT+GGG - tig0009063:695-714 Msa1346570:CDS 40.0%
!! AAAAGTGTCTTGCTCAACCA+AGG - tig0009063:963-982 Msa1346570:CDS 40.0%
! AAAGTGTCTTGCTCAACCAA+GGG - tig0009063:964-983 Msa1346570:CDS 40.0%
! CTTAGGATTGGCAGCAATTG+TGG - tig0009063:694-713 Msa1346570:CDS 45.0%
!! CTCTGGTGCCATAAATTCTG+GGG + tig0009063:753-772 Msa1346570:intergenic 45.0%
!! GCTCTGGTGCCATAAATTCT+GGG + tig0009063:754-773 Msa1346570:intergenic 45.0%
!! AGCTCTGGTGCCATAAATTC+TGG + tig0009063:755-774 Msa1346570:intergenic 45.0%
TTTAGCAATTCCTCGGCAGA+AGG + tig0009063:995-1014 Msa1346570:intergenic 45.0%
TTCTGCCGAGGAATTGCTAA+AGG - tig0009063:994-1013 Msa1346570:CDS 45.0%
GGGATCCTTTAGCAATTCCT+CGG + tig0009063:1002-1021 Msa1346570:intergenic 45.0%
CATTCAGCGCATTCAGTCCT+AGG - tig0009063:725-744 Msa1346570:CDS 50.0%
!! CCATAAATTCTGGGGTGCCT+AGG + tig0009063:745-764 Msa1346570:intergenic 50.0%
CCTAGGCACCCCAGAATTTA+TGG - tig0009063:742-761 Msa1346570:CDS 50.0%
TCGGCAGAAGGTCTAGCCCT+TGG + tig0009063:983-1002 Msa1346570:intergenic 60.0%
AAGGGCTAGACCTTCTGCCG+AGG - tig0009063:982-1001 Msa1346570:CDS 60.0%
Chromosome Type Strat End Strand Name
tig0009063 gene 680 1069 680 ID=Msa1346570;Name=Msa1346570
tig0009063 mRNA 680 1069 680 ID=Msa1346570-mRNA-1;Parent=Msa1346570;Name=Msa1346570-mRNA-1;_AED=0.21;_eAED=0.21;_QI=0|-1|0|1|-1|1|1|0|129
tig0009063 exon 680 1069 680 ID=Msa1346570-mRNA-1:exon:5551;Parent=Msa1346570-mRNA-1
tig0009063 CDS 680 1069 680 ID=Msa1346570-mRNA-1:cds;Parent=Msa1346570-mRNA-1
Gene Sequence

>Msa1346570

GTTAAGATTGGTGACTTAGGATTGGCAGCAATTGTGGGAAAGAATCATTCAGCGCATTCAGTCCTAGGCACCCCAGAATTTATGGCACCAGAGCTATATGAAGAGAATTACACAGAAATGGTAGACATATACTCATTTGGAATGTTAGTATTAGAGATGGTGACACTTGAAATTCCATATAGTGAATGTGACAATGTTGCAAAGATATACAAGAAGGTGACTTCAGGTGTGAGACCACAATCCTTGAACAAGATAAAAGATGCTGAAGTGAAGACTTTCATCGAAAAGTGTCTTGCTCAACCAAGGGCTAGACCTTCTGCCGAGGAATTGCTAAAGGATCCCTTTTTTGATGATGTAGAGTACGATGAAAACGACGATGTTGATGACTAA
Protein sequence

>Msa1346570

VKIGDLGLAAIVGKNHSAHSVLGTPEFMAPELYEENYTEMVDIYSFGMLVLEMVTLEIPYSECDNVAKIYKKVTSGVRPQSLNKIKDAEVKTFIEKCLAQPRARPSAEELLKDPFFDDVEYDENDDVDD*