AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG034306

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034306 MtrunA17_Chr6g0484271 97.211 251 4 1 1 251 25 272 0.0 512
MsaG034306 MtrunA17_Chr7g0234761 60.909 110 43 0 105 214 288 397 1.51e-37 137
MsaG034306 MtrunA17_Chr8g0339091 62.136 103 39 0 112 214 269 371 5.52e-36 133
MsaG034306 MtrunA17_Chr5g0415291 55.963 109 41 1 105 206 76 184 6.42e-35 125
MsaG034306 MtrunA17_Chr3g0131771 64.894 94 32 1 125 217 138 231 8.41e-35 127
MsaG034306 MtrunA17_Chr8g0365941 58.559 111 44 1 103 213 276 384 4.06e-34 127
MsaG034306 MtrunA17_Chr5g0421111 59.633 109 42 1 106 214 339 445 5.12e-34 128
MsaG034306 MtrunA17_Chr4g0035101 71.951 82 23 0 130 211 139 220 1.03e-33 124
MsaG034306 MtrunA17_Chr3g0144641 45.752 153 70 2 76 217 122 272 1.60e-33 125
MsaG034306 MtrunA17_Chr8g0363921 41.146 192 70 6 68 220 60 247 1.75e-33 122
MsaG034306 MtrunA17_Chr8g0385911 62.766 94 34 1 125 217 136 229 1.89e-33 123
MsaG034306 MtrunA17_Chr1g0152131 60.000 100 39 1 115 213 240 339 9.30e-33 123
MsaG034306 MtrunA17_Chr1g0174161 67.500 80 26 0 132 211 158 237 1.85e-31 118
MsaG034306 MtrunA17_Chr7g0258161 67.500 80 26 0 132 211 171 250 1.08e-30 116
MsaG034306 MtrunA17_Chr4g0074161 62.121 66 24 1 134 199 206 270 1.10e-17 81.6
MsaG034306 MtrunA17_Chr1g0190731 59.091 66 26 1 134 199 193 257 7.68e-17 79.0
MsaG034306 MtrunA17_Chr1g0182791 45.570 79 42 1 121 199 304 381 2.35e-14 72.0
MsaG034306 MtrunA17_Chr5g0393721 43.529 85 47 1 114 198 204 287 1.67e-13 68.9
MsaG034306 MtrunA17_Chr1g0153241 44.304 79 43 1 122 200 73 150 1.87e-13 68.2
MsaG034306 MtrunA17_Chr4g0014771 49.231 65 33 0 134 198 118 182 3.78e-13 66.2
MsaG034306 MtrunA17_Chr1g0152651 50.769 65 31 1 134 198 274 337 6.23e-13 67.8
MsaG034306 MtrunA17_Chr4g0032951 49.231 65 33 0 134 198 355 419 7.80e-13 67.4
MsaG034306 MtrunA17_Chr3g0134741 44.318 88 44 2 111 198 210 292 2.42e-12 65.5
MsaG034306 MtrunA17_Chr1g0184841 57.576 66 27 1 134 199 120 184 2.68e-12 65.1
MsaG034306 MtrunA17_Chr2g0329041 46.032 63 34 0 134 196 332 394 1.38e-11 63.9
MsaG034306 MtrunA17_Chr7g0258181 46.269 67 36 0 134 200 243 309 1.75e-11 63.2
MsaG034306 MtrunA17_Chr1g0193321 45.312 64 34 1 136 199 464 526 1.77e-11 63.9
MsaG034306 MtrunA17_Chr7g0262691 43.038 79 43 2 121 199 240 316 3.58e-11 62.8
MsaG034306 MtrunA17_Chr3g0095391 35.345 116 54 3 82 197 277 371 5.55e-11 62.0
MsaG034306 MtrunA17_Chr5g0402031 53.571 56 25 1 145 200 116 170 8.54e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034306 AT1G73830.1 52.632 247 80 10 21 251 36 261 6.16e-65 203
MsaG034306 AT1G73830.2 52.632 247 79 11 21 251 36 260 7.47e-63 197
MsaG034306 AT1G18400.1 78.704 108 23 0 131 238 142 249 1.63e-59 189
MsaG034306 AT1G18400.2 84.615 91 14 0 131 221 142 232 2.56e-53 173
MsaG034306 AT1G25330.1 64.407 118 41 1 124 240 94 211 1.78e-47 157
MsaG034306 AT5G50915.3 62.264 106 39 1 113 217 115 220 4.60e-39 137
MsaG034306 AT5G50915.4 62.264 106 39 1 113 217 115 220 4.60e-39 137
MsaG034306 AT5G50915.1 62.264 106 39 1 113 217 115 220 8.46e-39 137
MsaG034306 AT5G50915.2 62.264 106 39 1 113 217 115 220 8.46e-39 137
MsaG034306 AT3G07340.2 58.197 122 45 1 96 211 214 335 3.81e-37 135
MsaG034306 AT3G07340.1 58.197 122 45 1 96 211 214 335 4.31e-37 136
MsaG034306 AT5G48560.2 70.115 87 25 1 126 211 293 379 1.04e-34 129
MsaG034306 AT5G48560.1 70.115 87 25 1 126 211 293 379 1.71e-34 129
MsaG034306 AT1G26260.3 69.880 83 25 0 132 214 170 252 3.60e-34 125
MsaG034306 AT1G26260.5 69.880 83 25 0 132 214 199 281 8.56e-34 125
MsaG034306 AT1G26260.4 69.880 83 25 0 132 214 221 303 1.03e-33 125
MsaG034306 AT1G26260.1 69.880 83 25 0 132 214 221 303 1.03e-33 125
MsaG034306 AT1G26260.6 69.880 83 25 0 132 214 221 303 1.03e-33 125
MsaG034306 AT1G26260.2 69.880 83 25 0 132 214 221 303 1.03e-33 125
MsaG034306 AT1G68920.3 71.951 82 23 0 132 213 300 381 1.56e-33 127
MsaG034306 AT3G23690.1 65.517 87 30 0 126 212 183 269 1.68e-33 125
MsaG034306 AT1G68920.1 71.951 82 23 0 132 213 301 382 1.68e-33 126
MsaG034306 AT1G68920.4 71.951 82 23 0 132 213 301 382 1.68e-33 126
MsaG034306 AT1G68920.2 71.951 82 23 0 132 213 301 382 1.68e-33 126
MsaG034306 AT1G59640.1 67.901 81 26 0 126 206 128 208 2.31e-33 122
MsaG034306 AT4G34530.1 62.105 95 34 1 123 217 161 253 1.16e-32 122
MsaG034306 AT4G36540.2 61.386 101 36 2 122 221 128 226 3.57e-32 120
MsaG034306 AT4G36540.1 61.386 101 36 2 122 221 128 226 3.68e-32 120
MsaG034306 AT3G57800.2 63.736 91 33 0 124 214 194 284 5.57e-32 120
MsaG034306 AT1G59640.2 64.444 90 27 1 122 206 119 208 6.16e-32 120
MsaG034306 AT5G62610.2 69.737 76 23 0 126 201 145 220 7.55e-32 118
MsaG034306 AT5G62610.1 69.737 76 23 0 126 201 145 220 7.55e-32 118
MsaG034306 AT1G10120.2 60.825 97 36 1 119 215 191 285 1.58e-31 119
MsaG034306 AT1G10120.1 60.825 97 36 1 119 215 191 285 1.58e-31 119
MsaG034306 AT2G42300.4 66.250 80 27 0 132 211 183 262 1.10e-30 115
MsaG034306 AT2G42300.1 49.593 123 52 3 132 249 183 300 3.31e-30 115
MsaG034306 AT2G18300.1 55.455 110 41 1 102 203 145 254 1.35e-29 114
MsaG034306 AT2G18300.2 55.455 110 41 1 102 203 145 254 1.36e-29 114
MsaG034306 AT2G18300.3 55.455 110 41 1 102 203 145 254 2.69e-29 113
MsaG034306 AT3G57800.1 42.029 138 33 1 124 214 194 331 3.51e-23 97.8
MsaG034306 AT2G24260.2 54.321 81 35 2 134 213 35 114 7.17e-18 80.5
MsaG034306 AT4G30980.1 62.121 66 24 1 134 199 130 194 1.44e-17 80.9
MsaG034306 AT4G30980.2 62.121 66 24 1 134 199 178 242 1.71e-17 81.3
MsaG034306 AT5G58010.1 54.545 77 34 1 123 199 88 163 2.73e-17 79.7
MsaG034306 AT2G24260.1 54.321 81 35 2 134 213 138 217 3.42e-17 80.1
MsaG034306 AT2G42300.5 75.610 41 10 0 132 172 183 223 3.00e-14 70.1
MsaG034306 AT2G42300.3 75.610 41 10 0 132 172 183 223 3.00e-14 70.1
MsaG034306 AT2G42300.2 75.610 41 10 0 132 172 183 223 4.01e-14 70.1
MsaG034306 AT1G09530.3 36.552 145 77 5 74 208 267 406 2.15e-13 69.7
MsaG034306 AT1G09530.2 36.552 145 77 5 74 208 267 406 2.15e-13 69.7
MsaG034306 AT1G09530.5 36.552 145 77 5 74 208 267 406 2.15e-13 69.7
MsaG034306 AT1G09530.1 36.552 145 77 5 74 208 267 406 2.15e-13 69.7
MsaG034306 AT1G09530.4 36.552 145 77 5 74 208 267 406 2.15e-13 69.7
MsaG034306 AT1G09530.6 36.552 145 77 5 74 208 267 406 2.15e-13 69.7
MsaG034306 AT2G20180.7 42.857 77 43 1 123 199 196 271 2.69e-13 69.3
MsaG034306 AT2G20180.1 42.857 77 43 1 123 199 196 271 2.69e-13 69.3
MsaG034306 AT2G20180.5 42.857 77 43 1 123 199 196 271 2.69e-13 69.3
MsaG034306 AT2G20180.4 42.857 77 43 1 123 199 267 342 2.82e-13 69.3
MsaG034306 AT2G20180.6 42.857 77 43 1 123 199 267 342 2.82e-13 69.3
MsaG034306 AT2G20180.2 42.857 77 43 1 123 199 267 342 2.82e-13 69.3
MsaG034306 AT2G20180.3 42.857 77 43 1 123 199 267 342 2.82e-13 69.3
MsaG034306 AT1G27740.1 32.258 155 81 5 67 198 77 230 5.00e-13 67.4
MsaG034306 AT4G33880.1 40.496 121 63 4 82 198 214 329 8.37e-13 67.4
MsaG034306 AT2G46970.1 40.964 83 43 2 122 199 206 287 1.53e-12 67.0
MsaG034306 AT2G46970.3 40.964 83 43 2 122 199 184 265 1.86e-12 66.6
MsaG034306 AT2G46970.2 40.964 83 43 2 122 199 175 256 1.96e-12 66.6
MsaG034306 AT2G20180.8 43.243 74 41 1 123 196 267 339 3.00e-12 65.9
MsaG034306 AT1G03040.2 49.383 81 39 2 134 213 139 218 7.73e-12 64.3
MsaG034306 AT1G03040.1 49.383 81 39 2 134 213 144 223 9.40e-12 64.3
MsaG034306 AT4G02590.3 56.061 66 28 1 134 199 83 147 1.22e-11 63.2
MsaG034306 AT4G02590.2 56.061 66 28 1 134 199 146 210 1.43e-11 63.5
MsaG034306 AT4G02590.1 56.061 66 28 1 134 199 146 210 1.43e-11 63.5
MsaG034306 AT1G03040.3 49.383 81 39 2 134 213 144 223 1.59e-11 63.5
MsaG034306 AT4G00050.2 42.683 82 46 1 117 198 88 168 1.83e-11 63.2
MsaG034306 AT1G35460.1 44.776 67 37 0 132 198 179 245 2.40e-11 62.8
MsaG034306 AT4G28790.1 33.981 103 65 2 99 199 234 335 2.64e-11 63.5
MsaG034306 AT4G09180.1 45.455 66 36 0 133 198 183 248 2.77e-11 62.4
MsaG034306 AT4G28815.2 36.585 82 47 2 137 214 71 151 4.08e-11 61.6
MsaG034306 AT4G00050.1 45.333 75 40 1 124 198 197 270 4.19e-11 62.8
MsaG034306 AT4G28800.1 40.244 82 44 2 117 198 236 312 4.50e-11 62.8
MsaG034306 AT4G00050.3 45.333 75 40 1 124 198 197 270 4.98e-11 62.4
MsaG034306 AT2G43140.1 48.485 66 34 0 132 197 132 197 5.93e-11 60.8
MsaG034306 AT2G43140.2 50.000 64 32 0 134 197 231 294 9.35e-11 61.2

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATTCTCTTCCAAGTTTCT+TGG 0.225496 6:-110160156 None:intergenic
GTAGAAGAAATTTACAAGTT+TGG 0.242755 6:-110160358 None:intergenic
TATTGTTCCAGGATGTTATA+AGG 0.296431 6:+110161024 MsaT034306.1:CDS
AAGATGTTGTCACAAGAAAA+TGG 0.334761 6:-110160096 None:intergenic
TGCTTGCAAAATATTGTTCC+AGG 0.400546 6:+110161013 MsaT034306.1:CDS
ACTCCTGCAGTTTCTGAAAG+TGG 0.440216 6:+110160327 MsaT034306.1:CDS
GGAACTATTGAATCAATTCA+TGG 0.446503 6:+110160038 MsaT034306.1:CDS
ACATGTGTTTCCAAGAAACT+TGG 0.456545 6:+110160146 MsaT034306.1:CDS
CTTCCACTTTCAGAAACTGC+AGG 0.466079 6:-110160330 None:intergenic
TTGCTTGCTTTCAACCAACT+TGG 0.490280 6:+110162007 MsaT034306.1:CDS
TAGCAAGGTATAAGAGAGAA+GGG 0.498236 6:+110161974 MsaT034306.1:CDS
GAAAATAAAGTTCATCATGA+AGG 0.498927 6:+110160255 MsaT034306.1:CDS
TTGATTTGTGGCAGAGAGCA+AGG 0.504432 6:+110161932 MsaT034306.1:intron
TTTCAATGGTTGCAGACCAT+GGG 0.515237 6:+110161136 MsaT034306.1:intron
AGGTATAAGAGAGAAGGGTA+TGG 0.517402 6:+110161979 MsaT034306.1:CDS
TTAGCAAGGTATAAGAGAGA+AGG 0.520461 6:+110161973 MsaT034306.1:CDS
TGAAGTCAAAGTGGCCAAGT+TGG 0.520695 6:-110162021 None:intergenic
TAATTTCAGAGTGGTGGAAG+AGG 0.521842 6:+110160463 MsaT034306.1:intron
TATGATTAATTTCAGAGTGG+TGG 0.522541 6:+110160457 MsaT034306.1:intron
GACTGTGACTATCAGTAGCT+TGG 0.523846 6:-110160558 None:intergenic
TAGTCACAGTCTAGCAGAAA+GGG 0.525871 6:+110160570 MsaT034306.1:CDS
TATAAGAGAGAAGGGTATGG+AGG 0.527385 6:+110161982 MsaT034306.1:CDS
CATGGGAATGGCAGTAATGT+TGG 0.527745 6:+110161153 MsaT034306.1:CDS
ATATTAACCTTATAACATCC+TGG 0.539111 6:-110161031 None:intergenic
TTGTTGTTCAGGTTAGAAGA+GGG 0.558240 6:+110160969 MsaT034306.1:intron
ATAGTCACAGTCTAGCAGAA+AGG 0.561228 6:+110160569 MsaT034306.1:CDS
ATCCAAAATTGAAGTCAAAG+TGG 0.565182 6:-110162030 None:intergenic
GCAGAGAGCAAGGGCATCTG+AGG 0.566936 6:+110161942 MsaT034306.1:intron
TGATTTGTGGCAGAGAGCAA+GGG 0.569667 6:+110161933 MsaT034306.1:intron
TTTGTTGTTCAGGTTAGAAG+AGG 0.588572 6:+110160968 MsaT034306.1:intron
ATGGTTGCAGACCATGGGAA+TGG 0.592994 6:+110161141 MsaT034306.1:intron
GTTCATGTTAGAGCAAGAAG+AGG 0.594328 6:+110160535 MsaT034306.1:CDS
CTGAGGCAAAAGAGTTAGCA+AGG 0.595828 6:+110161959 MsaT034306.1:CDS
AACAGAAGAAGAGAAAGCAA+AGG 0.600831 6:+110160507 MsaT034306.1:CDS
CAACATTACTGCCATTCCCA+TGG 0.603267 6:-110161152 None:intergenic
AGATGATCTAGAAACAATGC+AGG 0.618754 6:+110161413 MsaT034306.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 110160036 110162038 110160036 ID=MsaG034306
Chr6 mRNA 110160036 110162038 110160036 ID=MsaT034306.1;Parent=MsaG034306
Chr6 exon 110160036 110160365 110160036 ID=MsaT034306.1.exon1;Parent=MsaT034306.1
Chr6 CDS 110160036 110160365 110160036 ID=cds.MsaT034306.1;Parent=MsaT034306.1
Chr6 exon 110160472 110160591 110160472 ID=MsaT034306.1.exon2;Parent=MsaT034306.1
Chr6 CDS 110160472 110160591 110160472 ID=cds.MsaT034306.1;Parent=MsaT034306.1
Chr6 exon 110160980 110161045 110160980 ID=MsaT034306.1.exon3;Parent=MsaT034306.1
Chr6 CDS 110160980 110161045 110160980 ID=cds.MsaT034306.1;Parent=MsaT034306.1
Chr6 exon 110161151 110161219 110161151 ID=MsaT034306.1.exon4;Parent=MsaT034306.1
Chr6 CDS 110161151 110161219 110161151 ID=cds.MsaT034306.1;Parent=MsaT034306.1
Chr6 exon 110161357 110161434 110161357 ID=MsaT034306.1.exon5;Parent=MsaT034306.1
Chr6 CDS 110161357 110161434 110161357 ID=cds.MsaT034306.1;Parent=MsaT034306.1
Chr6 exon 110161946 110162038 110161946 ID=MsaT034306.1.exon6;Parent=MsaT034306.1
Chr6 CDS 110161946 110162038 110161946 ID=cds.MsaT034306.1;Parent=MsaT034306.1
Gene Sequence

>MsaT034306.1

ATGGAACTATTGAATCAATTCATGGAGAATTCAAACATGAACATGATGCATAATTTGATGCCATTTTCTTGTGACAACATCTTGGAACATCATCAACAACAAGAACAAGAACATGTGTTTCCAAGAAACTTGGAAGAGAATTTTCATGGTCTTGTCCATCATGTCAATAATCAAAATCACAATGCAGTTCAACTTTCACTTCCAACAATTTTCCAAGAAGAAAATAAAGTTCATCATGAAGGTAAAAAGAGAAAAATGATGGATTTTCAAGAGACTAGTTCTGGAAATTCAACTCCTGCAGTTTCTGAAAGTGGAAGCAAAACCAAACTTAGTGGTGGAAGAGGAAAAAGAGTGAAAAGCTATGAAACAGAAGAAGAGAAAGCAAAGGAAGTTGTTCATGTTAGAGCAAGAAGAGGCCAAGCTACTGATAGTCACAGTCTAGCAGAAAGGGTTAGAAGAGGGAAAATCAATGAAAAATTGAAGTGCTTGCAAAATATTGTTCCAGGATGTTATAAGACCATGGGAATGGCAGTAATGTTGGATGAAATCATAAACTATGTTCAGTCTTTGCAGCATCAAGTAGAATTTCTTTCTTTGAAGCTTACTGCAGCAAGTACTTATTATGATTTCAATTCAGAGACAGATGATCTAGAAACAATGCAGAGAGCAAGGGCATCTGAGGCAAAAGAGTTAGCAAGGTATAAGAGAGAAGGGTATGGAGGAATTGCTTGCTTTCAACCAACTTGGCCACTTTGA
Protein sequence

>MsaT034306.1

MELLNQFMENSNMNMMHNLMPFSCDNILEHHQQQEQEHVFPRNLEENFHGLVHHVNNQNHNAVQLSLPTIFQEENKVHHEGKKRKMMDFQETSSGNSTPAVSESGSKTKLSGGRGKRVKSYETEEEKAKEVVHVRARRGQATDSHSLAERVRRGKINEKLKCLQNIVPGCYKTMGMAVMLDEIINYVQSLQHQVEFLSLKLTAASTYYDFNSETDDLETMQRARASEAKELARYKREGYGGIACFQPTWPL*