AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024108

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024108 MtrunA17_Chr8g0385911 95.489 266 8 1 1 266 66 327 1.36e-166 464
MsaG024108 MtrunA17_Chr3g0131771 60.886 271 89 7 1 266 72 330 6.67e-94 280
MsaG024108 MtrunA17_Chr7g0234761 50.532 188 67 7 22 187 234 417 4.19e-45 158
MsaG024108 MtrunA17_Chr5g0415291 54.305 151 59 2 14 155 34 183 1.37e-43 148
MsaG024108 MtrunA17_Chr1g0152131 50.602 166 71 4 12 171 184 344 3.45e-43 152
MsaG024108 MtrunA17_Chr8g0365941 61.719 128 43 2 37 164 263 384 6.64e-42 149
MsaG024108 MtrunA17_Chr8g0339091 65.546 119 36 2 55 173 264 377 2.01e-41 148
MsaG024108 MtrunA17_Chr3g0144641 82.558 86 14 1 79 164 186 270 4.19e-41 145
MsaG024108 MtrunA17_Chr8g0363921 55.479 146 53 2 22 155 77 222 5.47e-41 142
MsaG024108 MtrunA17_Chr4g0035101 82.143 84 14 1 81 164 140 222 3.96e-40 142
MsaG024108 MtrunA17_Chr5g0421111 76.289 97 19 3 81 176 362 455 4.20e-40 145
MsaG024108 MtrunA17_Chr1g0174161 66.667 102 29 3 69 170 147 243 2.98e-39 139
MsaG024108 MtrunA17_Chr7g0258161 61.667 120 37 4 81 195 170 285 7.88e-38 135
MsaG024108 MtrunA17_Chr6g0484271 49.333 150 62 4 22 168 103 241 1.90e-34 125
MsaG024108 MtrunA17_Chr4g0074161 57.831 83 30 2 84 162 206 287 2.87e-21 92.0
MsaG024108 MtrunA17_Chr1g0190731 65.152 66 22 1 84 149 193 257 2.08e-19 86.3
MsaG024108 MtrunA17_Chr4g0014771 55.385 65 29 0 84 148 118 182 8.51e-16 73.9
MsaG024108 MtrunA17_Chr4g0032951 56.923 65 28 0 84 148 355 419 3.08e-15 75.1
MsaG024108 MtrunA17_Chr1g0182791 36.364 121 63 4 39 159 284 390 3.22e-14 72.0
MsaG024108 MtrunA17_Chr1g0193321 38.202 89 54 1 61 149 439 526 6.74e-14 71.2
MsaG024108 MtrunA17_Chr1g0184841 38.732 142 72 3 36 163 62 202 7.03e-14 70.1
MsaG024108 MtrunA17_Chr1g0174271 50.725 69 34 0 84 152 298 366 8.12e-14 70.5
MsaG024108 MtrunA17_Chr7g0258181 46.154 78 39 1 75 152 237 311 1.25e-13 69.7
MsaG024108 MtrunA17_Chr2g0329041 50.769 65 32 0 82 146 330 394 2.52e-13 69.3
MsaG024108 MtrunA17_Chr5g0402031 38.596 114 62 4 53 159 68 180 7.81e-13 67.4
MsaG024108 MtrunA17_Chr3g0087771 49.231 65 33 0 84 148 322 386 3.28e-12 65.9
MsaG024108 MtrunA17_Chr1g0152651 49.231 65 32 1 84 148 274 337 9.29e-12 64.3
MsaG024108 MtrunA17_Chr7g0262691 30.539 167 93 5 55 209 224 379 1.09e-11 64.3
MsaG024108 MtrunA17_Chr3g0095391 33.094 139 67 5 86 212 311 435 2.18e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024108 AT5G50915.3 65.625 128 40 1 44 171 100 223 9.38e-55 178
MsaG024108 AT5G50915.4 65.625 128 40 1 44 171 100 223 9.38e-55 178
MsaG024108 AT5G50915.1 65.625 128 40 1 44 171 100 223 1.87e-54 177
MsaG024108 AT5G50915.2 65.625 128 40 1 44 171 100 223 1.87e-54 177
MsaG024108 AT3G23690.1 46.018 226 87 8 30 244 132 333 2.16e-46 159
MsaG024108 AT1G26260.3 54.658 161 53 5 40 189 117 268 6.32e-46 157
MsaG024108 AT1G26260.5 54.658 161 53 5 40 189 146 297 1.20e-45 157
MsaG024108 AT1G68920.3 55.758 165 59 6 62 216 279 439 1.37e-45 159
MsaG024108 AT1G26260.4 54.658 161 53 5 40 189 168 319 1.52e-45 157
MsaG024108 AT1G26260.1 54.658 161 53 5 40 189 168 319 1.52e-45 157
MsaG024108 AT1G26260.6 54.658 161 53 5 40 189 168 319 1.52e-45 157
MsaG024108 AT1G26260.2 54.658 161 53 5 40 189 168 319 1.52e-45 157
MsaG024108 AT1G68920.1 55.758 165 59 6 62 216 280 440 1.54e-45 159
MsaG024108 AT1G68920.4 55.758 165 59 6 62 216 280 440 1.54e-45 159
MsaG024108 AT1G68920.2 55.758 165 59 6 62 216 280 440 1.54e-45 159
MsaG024108 AT1G10120.2 48.889 180 74 5 7 171 114 290 1.51e-44 154
MsaG024108 AT1G10120.1 48.889 180 74 5 7 171 114 290 1.51e-44 154
MsaG024108 AT3G07340.1 76.699 103 22 2 62 164 237 337 3.65e-44 155
MsaG024108 AT3G07340.2 76.699 103 22 2 62 164 237 337 4.07e-44 155
MsaG024108 AT1G59640.1 55.862 145 63 1 12 155 63 207 1.03e-42 147
MsaG024108 AT5G48560.2 80.899 89 17 0 76 164 293 381 1.07e-42 151
MsaG024108 AT5G48560.1 80.899 89 17 0 76 164 293 381 1.75e-42 151
MsaG024108 AT1G59640.2 66.957 115 38 0 41 155 93 207 2.78e-42 147
MsaG024108 AT4G34530.1 82.558 86 14 1 79 164 167 251 2.87e-41 145
MsaG024108 AT5G62610.2 53.425 146 51 3 42 170 101 246 8.54e-39 137
MsaG024108 AT5G62610.1 53.425 146 51 3 42 170 101 246 8.54e-39 137
MsaG024108 AT3G57800.2 71.875 96 22 3 75 170 197 287 1.69e-38 139
MsaG024108 AT2G42300.4 59.677 124 47 2 47 170 148 268 2.87e-38 135
MsaG024108 AT2G42300.1 59.677 124 47 2 47 170 148 268 1.46e-37 135
MsaG024108 AT2G18300.2 50.993 151 71 2 6 156 110 257 9.12e-37 133
MsaG024108 AT2G18300.1 50.993 151 71 2 6 156 110 257 9.83e-37 133
MsaG024108 AT2G18300.3 50.993 151 71 2 6 156 110 257 1.76e-36 133
MsaG024108 AT4G36540.2 78.947 76 16 0 81 156 138 213 2.85e-36 131
MsaG024108 AT4G36540.1 57.851 121 40 3 43 156 97 213 2.95e-36 131
MsaG024108 AT1G18400.2 67.816 87 27 1 82 168 143 228 5.80e-35 126
MsaG024108 AT1G18400.1 67.816 87 27 1 82 168 143 228 7.45e-35 126
MsaG024108 AT1G73830.1 67.442 86 27 1 83 168 146 230 7.60e-34 124
MsaG024108 AT1G73830.2 67.442 86 27 1 83 168 146 230 8.89e-34 123
MsaG024108 AT1G25330.1 52.991 117 37 2 56 172 89 187 1.76e-33 121
MsaG024108 AT3G57800.1 48.951 143 21 4 75 170 197 334 5.07e-30 117
MsaG024108 AT5G58010.1 50.962 104 38 3 84 183 99 193 3.23e-21 90.9
MsaG024108 AT2G24260.2 62.500 72 26 1 78 149 29 99 3.51e-21 89.7
MsaG024108 AT4G30980.1 68.182 66 20 1 84 149 130 194 1.31e-20 89.4
MsaG024108 AT4G30980.2 68.182 66 20 1 84 149 178 242 1.59e-20 90.1
MsaG024108 AT2G24260.1 59.211 76 30 1 74 149 128 202 2.59e-20 89.4
MsaG024108 AT2G42300.5 58.442 77 32 0 47 123 148 224 4.40e-19 84.0
MsaG024108 AT2G42300.3 58.442 77 32 0 47 123 148 224 4.40e-19 84.0
MsaG024108 AT2G42300.2 58.442 77 32 0 47 123 148 224 5.60e-19 83.6
MsaG024108 AT4G28800.1 45.833 72 38 1 87 158 252 322 9.35e-14 70.9
MsaG024108 AT4G28815.2 38.318 107 56 4 87 190 71 170 1.13e-13 68.9
MsaG024108 AT1G09530.3 41.573 89 48 2 61 149 317 401 1.14e-13 70.9
MsaG024108 AT1G09530.2 41.573 89 48 2 61 149 317 401 1.14e-13 70.9
MsaG024108 AT1G09530.5 41.573 89 48 2 61 149 317 401 1.14e-13 70.9
MsaG024108 AT1G09530.1 41.573 89 48 2 61 149 317 401 1.14e-13 70.9
MsaG024108 AT1G09530.4 41.573 89 48 2 61 149 317 401 1.14e-13 70.9
MsaG024108 AT1G09530.6 41.573 89 48 2 61 149 317 401 1.14e-13 70.9
MsaG024108 AT1G35460.1 50.769 65 32 0 84 148 181 245 1.78e-13 68.9
MsaG024108 AT1G51140.1 54.688 64 29 0 84 147 304 367 2.90e-13 69.3
MsaG024108 AT4G28815.1 38.318 107 56 4 87 190 147 246 4.22e-13 68.6
MsaG024108 AT2G20180.7 49.206 63 31 1 87 149 210 271 4.73e-13 68.9
MsaG024108 AT2G20180.1 49.206 63 31 1 87 149 210 271 4.73e-13 68.9
MsaG024108 AT2G20180.5 49.206 63 31 1 87 149 210 271 4.73e-13 68.9
MsaG024108 AT2G42280.1 50.000 64 32 0 84 147 279 342 5.06e-13 68.6
MsaG024108 AT2G20180.4 49.206 63 31 1 87 149 281 342 5.13e-13 68.9
MsaG024108 AT2G20180.6 49.206 63 31 1 87 149 281 342 5.13e-13 68.9
MsaG024108 AT2G20180.2 49.206 63 31 1 87 149 281 342 5.13e-13 68.9
MsaG024108 AT2G20180.3 49.206 63 31 1 87 149 281 342 5.13e-13 68.9
MsaG024108 AT4G09180.1 49.254 67 34 0 82 148 182 248 5.14e-13 67.8
MsaG024108 AT4G28800.2 42.169 83 44 2 87 166 264 345 5.62e-13 68.6
MsaG024108 AT2G42280.3 51.515 66 30 1 84 147 279 344 9.30e-13 67.8
MsaG024108 AT4G28790.1 36.735 98 58 2 62 159 252 345 1.16e-12 67.8
MsaG024108 AT4G02590.3 50.000 84 37 2 84 163 83 165 1.71e-12 65.9
MsaG024108 AT4G02590.2 50.000 84 37 2 84 163 146 228 2.90e-12 65.9
MsaG024108 AT4G02590.1 50.000 84 37 2 84 163 146 228 2.90e-12 65.9
MsaG024108 AT1G03040.2 59.091 66 26 1 84 149 139 203 1.00e-11 64.3
MsaG024108 AT1G03040.1 59.091 66 26 1 84 149 144 208 1.05e-11 64.3
MsaG024108 AT4G33880.1 45.783 83 42 3 84 165 266 346 1.38e-11 64.3
MsaG024108 AT1G03040.3 59.091 66 26 1 84 149 144 208 1.64e-11 63.9
MsaG024108 AT2G20180.8 49.153 59 29 1 87 145 281 338 1.90e-11 63.9
MsaG024108 AT2G43140.1 43.590 78 42 1 72 147 120 197 2.47e-11 62.0
MsaG024108 AT2G43140.2 43.590 78 42 1 72 147 217 294 3.34e-11 62.8
MsaG024108 AT4G00050.2 44.595 74 40 1 75 148 96 168 4.76e-11 62.4

Find 62 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGAAATTGATATTAATTTA+AGG 0.098761 4:-95883554 None:intergenic
AGCACACTGATGGACCATTT+TGG 0.191470 4:+95883470 MsaT024108.1:intron
TGTTAATAATGACTATGTTT+TGG 0.279340 4:+95882788 MsaT024108.1:CDS
TCAGAAAGCTGTTACTTCTA+TGG 0.295160 4:+95881419 MsaT024108.1:CDS
TTTCATATTAAATAGGTAAC+AGG 0.320036 4:+95882303 MsaT024108.1:intron
TTTGAGTTGCCCCTTGTCTA+AGG 0.332895 4:+95881473 MsaT024108.1:CDS
CAAAAGCTTCTTAATCCATA+TGG 0.364693 4:+95883511 MsaT024108.1:CDS
ATTGCAAAGTCAAAGAAGAT+TGG 0.375639 4:-95882511 None:intergenic
TATTTCCTCACCTGATGATC+TGG 0.386280 4:-95882559 None:intergenic
AAAACATAGTCATTATTAAC+AGG 0.386747 4:-95882786 None:intergenic
CTTCTTAATCCATATGGATT+CGG 0.417843 4:+95883517 MsaT024108.1:CDS
AACTTGTGCCTGGCTGTGAT+AGG 0.422109 4:+95882065 MsaT024108.1:CDS
TAGCCACAGCCTTGCTGAAA+GGG 0.444848 4:+95881756 MsaT024108.1:CDS
ACATGTGGTATTGGTGTTGA+TGG 0.451696 4:-95882702 None:intergenic
CACAATGGTACATGTGGTAT+TGG 0.457363 4:-95882711 None:intergenic
TGCTCTTCTACGTCCCAAAA+TGG 0.463393 4:-95883484 None:intergenic
AGCAGTGGTGAAGGGATGAA+AGG 0.466227 4:+95881631 MsaT024108.1:CDS
TTGTAGGATGTCTCAAAAGA+AGG 0.474006 4:+95881586 MsaT024108.1:intron
GTGTTGTTGCCGAATCCATA+TGG 0.475225 4:-95883526 None:intergenic
GGTAGTGGACAATCTTGAAA+AGG 0.476116 4:+95881383 MsaT024108.1:CDS
AATATTGAAGAAGTTCCAAC+TGG 0.478486 4:+95881694 MsaT024108.1:CDS
GACCCCTTCTTGCTCTGACA+TGG 0.481977 4:-95881723 None:intergenic
CTTGGTTAGACCAGATCATC+AGG 0.485638 4:+95882549 MsaT024108.1:CDS
AATCTTCTTTGACTTTGCAA+TGG 0.497293 4:+95882513 MsaT024108.1:CDS
ATCAAATTTACCTTAGACAA+GGG 0.503038 4:-95881483 None:intergenic
CAAAAGAAGAGCAGTGGTGA+AGG 0.507125 4:+95881622 MsaT024108.1:CDS
AGCAAAAGGTGTGGCATGGT+TGG 0.509890 4:-95882739 None:intergenic
TACTGAATCATCCATGGTAG+TGG 0.513020 4:+95881368 None:intergenic
TGTCAGAGCAAGAAGGGGTC+AGG 0.517190 4:+95881726 MsaT024108.1:CDS
ATATTGCAGCAACTTGTGCC+TGG 0.524669 4:+95882055 MsaT024108.1:CDS
GTGGTAATTGTGTCAGCAAA+AGG 0.534827 4:-95882753 None:intergenic
ATAGCCACAGCCTTGCTGAA+AGG 0.535109 4:+95881755 MsaT024108.1:CDS
ATACCCTTTCAGCAAGGCTG+TGG 0.536175 4:-95881759 None:intergenic
GAGGTCAAATACCTTCTTTG+AGG 0.536244 4:+95882842 MsaT024108.1:CDS
GATCTAAGGTACCTCAAAGA+AGG 0.549335 4:-95882853 None:intergenic
AACAGGAAAGGCCCTTGTGT+TGG 0.552041 4:+95882320 MsaT024108.1:CDS
TGTAGGATGTCTCAAAAGAA+GGG 0.553029 4:+95881587 MsaT024108.1:intron
TATCCATGTCAGAGCAAGAA+GGG 0.554936 4:+95881720 MsaT024108.1:CDS
GTAGTGGACAATCTTGAAAA+GGG 0.561287 4:+95881384 MsaT024108.1:CDS
CATAGTCATTATTAACAGGA+TGG 0.563260 4:-95882782 None:intergenic
TTCAAGATTGTCCACTACCA+TGG 0.563562 4:-95881379 None:intergenic
ACTTGTGCCTGGCTGTGATA+GGG 0.572729 4:+95882066 MsaT024108.1:CDS
TGGTGAAGGGATGAAAGGAG+AGG 0.583503 4:+95881636 MsaT024108.1:CDS
CATCAAATTTACCTTAGACA+AGG 0.584025 4:-95881484 None:intergenic
TGATTATTTCATCCAACACA+AGG 0.586530 4:-95882332 None:intergenic
AATGGACCTAGACACACTCT+TGG 0.596392 4:+95882531 MsaT024108.1:CDS
GTCCTTACAAAATCAAGTAG+AGG 0.597808 4:+95882365 MsaT024108.1:CDS
GTCTAACCAAGAGTGTGTCT+AGG 0.610495 4:-95882537 None:intergenic
ATATCCATGTCAGAGCAAGA+AGG 0.615381 4:+95881719 MsaT024108.1:CDS
AAAAGAAGAGCAGTGGTGAA+GGG 0.621109 4:+95881623 MsaT024108.1:CDS
AGACTCACCCTATCACAGCC+AGG 0.626341 4:-95882073 None:intergenic
GATTATTTCATCCAACACAA+GGG 0.628005 4:-95882331 None:intergenic
TATTAAATAGGTAACAGGAA+AGG 0.634773 4:+95882308 MsaT024108.1:intron
TCAAATTTACCTTAGACAAG+GGG 0.638877 4:-95881482 None:intergenic
TATTGCATACCCTTTCAGCA+AGG 0.648025 4:-95881765 None:intergenic
CTGACATGGATATAACCAGT+TGG 0.650898 4:-95881709 None:intergenic
ATTAACAGGATGGAAGCTTG+TGG 0.660676 4:-95882772 None:intergenic
ATCCATGTCAGAGCAAGAAG+GGG 0.665171 4:+95881721 MsaT024108.1:CDS
GAGCTGCACAATGGTACATG+TGG 0.691981 4:-95882717 None:intergenic
TGTCAGCAAAAGGTGTGGCA+TGG 0.694030 4:-95882743 None:intergenic
GCATGGTTGGAGCTGCACAA+TGG 0.724748 4:-95882726 None:intergenic
AATTGTGTCAGCAAAAGGTG+TGG 0.745401 4:-95882748 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 95881381 95883564 95881381 ID=MsaG024108
Chr4 mRNA 95881381 95883564 95881381 ID=MsaT024108.1;Parent=MsaG024108
Chr4 exon 95881381 95881494 95881381 ID=MsaT024108.1.exon1;Parent=MsaT024108.1
Chr4 CDS 95881381 95881494 95881381 ID=cds.MsaT024108.1;Parent=MsaT024108.1
Chr4 exon 95881592 95881777 95881592 ID=MsaT024108.1.exon2;Parent=MsaT024108.1
Chr4 CDS 95881592 95881777 95881592 ID=cds.MsaT024108.1;Parent=MsaT024108.1
Chr4 exon 95882022 95882087 95882022 ID=MsaT024108.1.exon3;Parent=MsaT024108.1
Chr4 CDS 95882022 95882087 95882022 ID=cds.MsaT024108.1;Parent=MsaT024108.1
Chr4 exon 95882318 95882386 95882318 ID=MsaT024108.1.exon4;Parent=MsaT024108.1
Chr4 CDS 95882318 95882386 95882318 ID=cds.MsaT024108.1;Parent=MsaT024108.1
Chr4 exon 95882481 95882570 95882481 ID=MsaT024108.1.exon5;Parent=MsaT024108.1
Chr4 CDS 95882481 95882570 95882481 ID=cds.MsaT024108.1;Parent=MsaT024108.1
Chr4 exon 95882681 95882863 95882681 ID=MsaT024108.1.exon6;Parent=MsaT024108.1
Chr4 CDS 95882681 95882863 95882681 ID=cds.MsaT024108.1;Parent=MsaT024108.1
Chr4 exon 95883472 95883564 95883472 ID=MsaT024108.1.exon7;Parent=MsaT024108.1
Chr4 CDS 95883472 95883564 95883472 ID=cds.MsaT024108.1;Parent=MsaT024108.1
Gene Sequence

>MsaT024108.1

ATGGTAGTGGACAATCTTGAAAAGGGTGAACAAGTTACTCAGAAAGCTGTTACTTCTATGGAGAAGAAAAGAAGAATCAGAAATAAGACTTCTTTGAGTTGCCCCTTGTCTAAGGATGTCTCAAAAGAAGGGAGAAGCAAAAAACAAAAGAAGAGCAGTGGTGAAGGGATGAAAGGAGAGGAGAAGAAAAAAGAAGAGAAGAAGGATCAAAAGAAAAATATTGAAGAAGTTCCAACTGGTTATATCCATGTCAGAGCAAGAAGGGGTCAGGCAACAGATAGCCACAGCCTTGCTGAAAGGGTGAGAAGAGAAAAAATAAGTGAAAGAATGAAGATATTGCAGCAACTTGTGCCTGGCTGTGATAGGGTAACAGGAAAGGCCCTTGTGTTGGATGAAATAATCAATTATGTACAGTCCTTACAAAATCAAGTAGAGTTCTTGTCAATGAAACTTGCTTCAGTGAATCCAATCTTCTTTGACTTTGCAATGGACCTAGACACACTCTTGGTTAGACCAGATCATCAGAGGTTAAATAGCATAACATCACCATCAACACCAATACCACATGTACCATTGTGCAGCTCCAACCATGCCACACCTTTTGCTGACACAATTACCACAAGCTTCCATCCTGTTAATAATGACTATGTTTTGGATTATCCAACTTCAATTTTTCTTCAAGGGCAGAGGTCAAATACCTTCTTTGAGCACACTGATGGACCATTTTGGGACGTAGAAGAGCAACGACAAAAGCTTCTTAATCCATATGGATTCGGCAACAACACATGTTCCTTAAATTAA
Protein sequence

>MsaT024108.1

MVVDNLEKGEQVTQKAVTSMEKKRRIRNKTSLSCPLSKDVSKEGRSKKQKKSSGEGMKGEEKKKEEKKDQKKNIEEVPTGYIHVRARRGQATDSHSLAERVRREKISERMKILQQLVPGCDRVTGKALVLDEIINYVQSLQNQVEFLSMKLASVNPIFFDFAMDLDTLLVRPDHQRLNSITSPSTPIPHVPLCSSNHATPFADTITTSFHPVNNDYVLDYPTSIFLQGQRSNTFFEHTDGPFWDVEEQRQKLLNPYGFGNNTCSLN*