AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG007446

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007446 MtrunA17_Chr1g0167311 83.544 158 10 1 43 184 148 305 1.05e-88 269
MsaG007446 MtrunA17_Chr1g0167351 76.582 158 21 1 43 184 143 300 5.34e-80 247
MsaG007446 MtrunA17_Chr1g0187581 68.987 158 33 1 43 184 150 307 9.56e-74 231
MsaG007446 MtrunA17_Chr1g0183651 67.722 158 34 2 43 184 153 309 8.11e-71 224
MsaG007446 MtrunA17_Chr7g0261491 68.354 158 33 2 43 184 153 309 3.58e-70 223
MsaG007446 MtrunA17_Chr3g0135951 68.595 121 22 1 43 147 127 247 1.02e-51 173
MsaG007446 MtrunA17_Chr2g0299781 61.268 142 36 2 43 165 146 287 2.50e-51 172
MsaG007446 MtrunA17_Chr1g0153321 62.879 132 30 2 43 155 141 272 6.41e-48 163
MsaG007446 MtrunA17_Chr4g0018201 42.982 114 49 1 43 140 792 905 5.41e-23 95.5
MsaG007446 MtrunA17_Chr5g0428981 42.105 114 50 1 43 140 796 909 8.75e-23 95.1
MsaG007446 MtrunA17_Chr6g0478601 35.714 154 78 3 43 178 144 294 4.34e-22 92.8
MsaG007446 MtrunA17_Chr1g0197721 40.708 113 51 1 51 147 92 204 3.06e-20 87.4
MsaG007446 MtrunA17_Chr4g0059751 35.294 119 61 1 43 145 129 247 4.17e-19 84.0
MsaG007446 MtrunA17_Chr7g0245031 32.500 120 65 1 43 146 181 300 1.41e-17 79.7
MsaG007446 MtrunA17_Chr4g0030361 36.066 122 55 2 43 141 342 463 1.58e-16 77.0
MsaG007446 MtrunA17_Chr2g0327561 35.246 122 56 2 43 141 661 782 6.41e-16 75.1
MsaG007446 MtrunA17_Chr8g0369091 35.246 122 56 2 43 141 632 753 7.36e-16 75.1
MsaG007446 MtrunA17_Chr1g0188991 34.951 103 49 1 55 139 58 160 1.16e-14 71.6
MsaG007446 MtrunA17_Chr7g0227331 31.579 114 60 1 43 138 267 380 1.62e-14 70.9
MsaG007446 MtrunA17_Chr2g0309421 32.374 139 71 4 43 160 210 346 6.28e-14 69.3
MsaG007446 MtrunA17_Chr8g0335351 31.707 123 64 2 43 147 405 525 6.85e-14 69.3
MsaG007446 MtrunA17_Chr7g0250631 31.579 114 60 1 43 138 399 512 2.05e-13 67.8
MsaG007446 MtrunA17_Chr1g0179101 28.906 128 70 2 29 138 494 618 4.23e-13 67.0
MsaG007446 MtrunA17_Chr2g0290691 30.702 114 61 2 43 138 239 352 6.11e-13 66.2
MsaG007446 MtrunA17_Chr4g0013131 32.432 111 60 1 43 138 45 155 9.09e-13 65.9
MsaG007446 MtrunA17_Chr8g0356291 32.231 121 62 3 43 145 162 280 1.08e-12 65.5
MsaG007446 MtrunA17_Chr7g0266031 30.556 108 57 1 49 138 533 640 1.21e-12 65.5
MsaG007446 MtrunA17_Chr4g0063311 31.092 119 63 2 39 138 126 244 4.29e-12 63.9
MsaG007446 MtrunA17_Chr3g0080101 29.661 118 63 2 46 145 453 568 7.56e-12 63.2
MsaG007446 MtrunA17_Chr2g0284031 33.333 111 59 1 43 138 64 174 1.04e-11 62.8
MsaG007446 MtrunA17_Chr2g0321101 28.070 114 64 1 43 138 127 240 1.14e-11 62.8
MsaG007446 MtrunA17_Chr8g0379091 32.432 111 60 1 43 138 59 169 1.46e-11 62.4
MsaG007446 MtrunA17_Chr4g0074111 31.250 112 62 1 43 139 51 162 1.91e-11 62.0
MsaG007446 MtrunA17_Chr2g0312641 26.984 126 74 1 42 149 128 253 7.03e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007446 AT4G14350.2 66.467 167 37 2 43 190 152 318 8.70e-73 229
MsaG007446 AT4G14350.1 66.467 167 37 2 43 190 152 318 8.70e-73 229
MsaG007446 AT4G14350.4 66.467 167 37 2 43 190 152 318 8.70e-73 229
MsaG007446 AT4G14350.3 66.467 167 37 2 43 190 152 318 9.66e-73 229
MsaG007446 AT3G23310.1 70.861 151 28 1 43 177 153 303 1.47e-70 224
MsaG007446 AT2G20470.3 60.759 158 44 2 43 184 157 312 7.62e-63 203
MsaG007446 AT2G20470.2 60.759 158 44 2 43 184 157 312 2.08e-62 202
MsaG007446 AT2G20470.1 60.759 158 44 2 43 184 157 312 2.08e-62 202
MsaG007446 AT1G03920.2 63.291 158 41 2 43 184 57 213 3.95e-62 199
MsaG007446 AT1G03920.1 63.291 158 41 2 43 184 170 326 1.70e-61 200
MsaG007446 AT1G03920.3 63.291 158 41 2 43 184 170 326 1.70e-61 200
MsaG007446 AT2G19400.1 61.538 143 36 2 43 166 138 280 4.10e-51 172
MsaG007446 AT4G33080.1 67.769 121 23 1 43 147 127 247 1.50e-50 170
MsaG007446 AT4G33080.2 67.769 121 23 1 43 147 127 247 1.59e-50 170
MsaG007446 AT1G30640.3 53.459 159 54 3 43 181 60 218 1.97e-47 161
MsaG007446 AT1G30640.2 64.463 121 27 1 43 147 153 273 2.20e-47 163
MsaG007446 AT1G30640.1 64.463 121 27 1 43 147 153 273 2.20e-47 163
MsaG007446 AT5G09890.1 66.667 117 23 1 43 143 135 251 2.90e-47 162
MsaG007446 AT5G09890.2 66.667 117 23 1 43 143 135 251 2.97e-47 162
MsaG007446 AT5G62310.1 43.860 114 48 1 43 140 787 900 9.09e-24 98.2
MsaG007446 AT3G17850.1 35.065 154 79 3 43 178 915 1065 5.05e-21 90.5
MsaG007446 AT1G48490.3 42.105 114 50 2 43 140 861 974 6.63e-21 90.1
MsaG007446 AT1G48490.2 42.105 114 50 2 43 140 861 974 6.63e-21 90.1
MsaG007446 AT1G48490.1 42.105 114 50 2 43 140 861 974 6.63e-21 90.1
MsaG007446 AT1G48490.4 42.105 114 50 2 43 140 862 975 6.83e-21 90.1
MsaG007446 AT5G04510.3 39.823 113 52 1 51 147 85 197 2.29e-20 86.7
MsaG007446 AT5G04510.2 39.823 113 52 1 51 147 85 197 2.74e-20 87.4
MsaG007446 AT5G04510.1 39.823 113 52 1 51 147 85 197 3.03e-20 87.8
MsaG007446 AT3G10540.1 39.823 113 52 1 51 147 86 198 1.27e-19 85.9
MsaG007446 AT1G45160.2 42.105 114 50 2 43 140 703 816 4.08e-19 84.7
MsaG007446 AT1G45160.1 42.105 114 50 2 43 140 703 816 4.15e-19 84.7
MsaG007446 AT3G08730.1 34.188 117 61 1 43 143 167 283 2.04e-18 82.4
MsaG007446 AT3G08730.2 34.188 117 61 1 43 143 167 283 2.04e-18 82.4
MsaG007446 AT3G08720.1 34.188 117 61 1 43 143 173 289 2.05e-18 82.4
MsaG007446 AT3G08720.3 34.188 117 61 1 43 143 173 289 2.05e-18 82.4
MsaG007446 AT3G08720.4 34.188 117 61 1 43 143 173 289 2.05e-18 82.4
MsaG007446 AT3G08720.2 34.188 117 61 1 43 143 173 289 2.05e-18 82.4
MsaG007446 AT3G45780.2 33.607 122 58 2 43 141 696 817 6.24e-15 72.8
MsaG007446 AT3G45780.1 33.607 122 58 2 43 141 696 817 6.24e-15 72.8
MsaG007446 AT5G47750.1 30.702 114 61 1 43 138 224 337 3.56e-14 70.5
MsaG007446 AT1G16440.1 29.496 139 77 3 43 162 148 284 5.62e-14 69.7
MsaG007446 AT5G55910.2 32.456 114 59 1 43 138 142 255 1.03e-13 68.9
MsaG007446 AT5G55910.1 32.456 114 59 1 43 138 142 255 1.03e-13 68.9
MsaG007446 AT4G26610.1 30.120 166 90 3 43 190 156 313 1.92e-13 68.2
MsaG007446 AT1G79250.1 30.579 121 64 2 43 145 179 297 2.32e-13 68.2
MsaG007446 AT1G79250.3 30.579 121 64 2 43 145 179 297 2.32e-13 68.2
MsaG007446 AT1G79250.2 30.579 121 64 2 43 145 179 297 2.32e-13 68.2
MsaG007446 AT1G79250.4 30.579 121 64 2 43 145 179 297 2.32e-13 68.2
MsaG007446 AT2G44830.2 30.702 114 61 1 43 138 396 509 3.05e-13 67.8
MsaG007446 AT2G44830.3 30.702 114 61 1 43 138 396 509 3.05e-13 67.8
MsaG007446 AT2G44830.1 30.702 114 61 1 43 138 396 509 3.05e-13 67.8
MsaG007446 AT5G58140.6 29.752 121 67 1 43 145 610 730 5.79e-13 67.0
MsaG007446 AT5G58140.7 29.752 121 67 1 43 145 610 730 5.79e-13 67.0
MsaG007446 AT5G58140.5 29.752 121 67 1 43 145 610 730 5.79e-13 67.0
MsaG007446 AT5G58140.2 29.752 121 67 1 43 145 610 730 5.79e-13 67.0
MsaG007446 AT5G58140.1 29.752 121 67 1 43 145 610 730 5.79e-13 67.0
MsaG007446 AT5G58140.3 29.752 121 67 1 43 145 610 730 5.89e-13 67.0
MsaG007446 AT4G10730.1 30.435 138 75 5 22 138 54 191 7.03e-13 66.6
MsaG007446 AT4G10730.2 30.435 138 75 5 22 138 34 171 7.05e-13 66.6
MsaG007446 AT3G44610.1 28.467 137 74 2 43 155 112 248 7.91e-13 66.2
MsaG007446 AT3G12690.1 29.825 114 62 1 43 138 218 331 1.04e-12 66.2
MsaG007446 AT3G12690.3 29.825 114 62 1 43 138 218 331 1.04e-12 66.2
MsaG007446 AT3G12690.2 29.825 114 62 1 43 138 218 331 1.04e-12 66.2
MsaG007446 AT4G24400.2 30.435 138 75 3 22 138 16 153 1.37e-12 65.5
MsaG007446 AT4G24400.1 30.070 143 79 3 17 138 11 153 1.50e-12 65.5
MsaG007446 AT3G52890.2 29.921 127 68 2 30 138 561 684 2.08e-12 65.5
MsaG007446 AT3G52890.4 29.921 127 68 2 30 138 561 684 2.08e-12 65.5
MsaG007446 AT3G52890.1 29.921 127 68 2 30 138 561 684 2.08e-12 65.5
MsaG007446 AT3G52890.3 29.921 127 68 2 30 138 561 684 2.08e-12 65.5
MsaG007446 AT2G26700.1 32.323 99 49 1 58 138 137 235 2.27e-12 65.1
MsaG007446 AT2G36350.1 29.134 127 69 2 30 138 582 705 3.36e-12 64.7
MsaG007446 AT3G27580.2 28.947 114 63 1 43 138 215 328 6.22e-12 63.9
MsaG007446 AT3G27580.1 28.947 114 63 1 43 138 215 328 6.22e-12 63.9
MsaG007446 AT4G24100.1 27.536 138 79 3 22 138 40 177 1.52e-11 62.8
MsaG007446 AT4G24100.2 27.536 138 79 3 22 138 40 177 1.55e-11 62.8
MsaG007446 AT4G24100.4 27.536 138 79 3 22 138 56 193 1.59e-11 62.8
MsaG007446 AT4G24100.3 27.536 138 79 3 22 138 56 193 1.61e-11 62.8
MsaG007446 AT5G45810.1 32.432 111 60 1 43 138 61 171 1.81e-11 62.4
MsaG007446 AT4G18700.1 32.432 111 60 1 43 138 59 169 1.94e-11 62.4
MsaG007446 AT1G53700.1 23.718 156 99 2 4 139 86 241 2.27e-11 62.0
MsaG007446 AT1G29230.1 33.333 111 59 2 43 138 107 217 2.79e-11 62.0
MsaG007446 AT5G18700.1 32.222 90 45 2 70 143 58 147 4.07e-11 61.6
MsaG007446 AT1G54960.1 28.105 153 90 4 4 140 71 219 6.09e-11 60.8
MsaG007446 AT1G54960.2 28.105 153 90 4 4 140 71 219 6.09e-11 60.8
MsaG007446 AT5G40030.1 28.070 114 64 2 43 138 147 260 8.30e-11 60.5

Find 30 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACGTGAAATTATCAGATTT+TGG 0.253070 2:+18089725 MsaT007446.1:CDS
CGATTCTTTGTTGTTGTGAT+TGG 0.310911 2:-18089853 None:intergenic
ATGTTTATGAATAGACTCTA+TGG 0.331837 2:-18089415 None:intergenic
CATGCCCGACAACTTGCTTC+TGG 0.340707 2:+18089691 MsaT007446.1:CDS
GATGAAGCTAAATTCTATAT+CGG 0.342582 2:+18089378 MsaT007446.1:intron
ATAAACATAATTATATTCAT+AGG 0.369736 2:+18089430 MsaT007446.1:CDS
GCTAGACTGCAGTAACCTTC+AGG 0.390289 2:+18089760 MsaT007446.1:CDS
ATGAAGCTAAATTCTATATC+GGG 0.407900 2:+18089379 MsaT007446.1:CDS
AAGCAAGTTCATCACTTTGA+AGG 0.415965 2:-18089820 None:intergenic
CTTTGTTGTTGTGATTGGTT+AGG 0.428628 2:-18089848 None:intergenic
AACAAAGAATCGAGCATTCA+AGG 0.446591 2:+18089864 MsaT007446.1:CDS
CGAGTATTTATATCTCATAA+TGG 0.455404 2:+18089298 MsaT007446.1:CDS
TGCTATCAACTTCTGCAAGA+AGG 0.478344 2:-18089238 None:intergenic
TCTAATGGAGTTAACATAAG+TGG 0.486303 2:+18089794 MsaT007446.1:CDS
CTATCCAGAAGCAAGTTGTC+GGG 0.515263 2:-18089695 None:intergenic
TAAATACTCGTCATCTTGAA+AGG 0.518616 2:-18089285 None:intergenic
TCTATCCAGAAGCAAGTTGT+CGG 0.524432 2:-18089696 None:intergenic
GACATCTCTCGATGAACCAT+GGG 0.530969 2:+18087714 MsaT007446.1:CDS
CTCATAATGGAGTATCTACC+CGG 0.543468 2:+18089311 MsaT007446.1:CDS
CTATGAACGGATCATGGCAC+TGG 0.544264 2:+18087403 None:intergenic
AACTTGCTTCTGGATAGAAA+TGG 0.545939 2:+18089701 MsaT007446.1:CDS
AGAGATGCTTAGTAGAGGAC+AGG 0.546069 2:+18089113 MsaT007446.1:CDS
AGACATCTCTCGATGAACCA+TGG 0.563800 2:+18087713 MsaT007446.1:CDS
GGAGGTTGGTACCATCCCCA+TGG 0.607677 2:-18087730 None:intergenic
TTGAATATATCAAATCTGAA+AGG 0.615218 2:+18089213 MsaT007446.1:CDS
CTCTCGATGAACCATGGGGA+TGG 0.617356 2:+18087719 MsaT007446.1:CDS
TGAAGGTTACTGCAGTCTAG+CGG 0.630065 2:-18089758 None:intergenic
AAATCAGAGATGCTTAGTAG+AGG 0.631650 2:+18089108 MsaT007446.1:CDS
TGAAGCTAAATTCTATATCG+GGG 0.655322 2:+18089380 MsaT007446.1:CDS
ACATCTCTCGATGAACCATG+GGG 0.738617 2:+18087715 MsaT007446.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 18087416 18089910 18087416 ID=MsaG007446
Chr2 mRNA 18087416 18089910 18087416 ID=MsaT007446.1;Parent=MsaG007446
Chr2 exon 18087416 18087424 18087416 ID=MsaT007446.1.exon1;Parent=MsaT007446.1
Chr2 CDS 18087416 18087424 18087416 ID=cds.MsaT007446.1;Parent=MsaT007446.1
Chr2 exon 18087680 18087794 18087680 ID=MsaT007446.1.exon2;Parent=MsaT007446.1
Chr2 CDS 18087680 18087794 18087680 ID=cds.MsaT007446.1;Parent=MsaT007446.1
Chr2 exon 18089106 18089134 18089106 ID=MsaT007446.1.exon3;Parent=MsaT007446.1
Chr2 CDS 18089106 18089134 18089106 ID=cds.MsaT007446.1;Parent=MsaT007446.1
Chr2 exon 18089212 18089332 18089212 ID=MsaT007446.1.exon4;Parent=MsaT007446.1
Chr2 CDS 18089212 18089332 18089212 ID=cds.MsaT007446.1;Parent=MsaT007446.1
Chr2 exon 18089379 18089451 18089379 ID=MsaT007446.1.exon5;Parent=MsaT007446.1
Chr2 CDS 18089379 18089451 18089379 ID=cds.MsaT007446.1;Parent=MsaT007446.1
Chr2 exon 18089685 18089910 18089685 ID=MsaT007446.1.exon6;Parent=MsaT007446.1
Chr2 CDS 18089685 18089910 18089685 ID=cds.MsaT007446.1;Parent=MsaT007446.1
Gene Sequence

>MsaT007446.1

ATGGCACTGGGACAATTACTTGAGCGTGAAGCAAGTGACTCAAGACATCTCTCGATGAACCATGGGGATGGTACCAACCTCCTGCAAAACTGTGATATGTATCTAAAAACTAACATGAATAAGGTTAAATCAGAGATGCTTAGTAGAGGACAGGTTGAATATATCAAATCTGAAAGGAACCTTCTTGCAGAAGTTGATAGCAATTGCATTGTAAAACTTTATTGTTCCTTTCAAGATGACGAGTATTTATATCTCATAATGGAGTATCTACCCGATGAAGCTAAATTCTATATCGGGGAGACTGTGCTAGCCATAGAGTCTATTCATAAACATAATTATATTCATAGAGATATCATGCCCGACAACTTGCTTCTGGATAGAAATGGTCACGTGAAATTATCAGATTTTGGATTATGTAAGCCGCTAGACTGCAGTAACCTTCAGGAAAAAGACTTATCTAATGGAGTTAACATAAGTGGAGTCCTTCAAAGTGATGAACTTGCTTTATCTCCTAACCAATCACAACAACAAAGAATCGAGCATTCAAGGAAAATCGCAGCAGAATCGTCGTAA
Protein sequence

>MsaT007446.1

MALGQLLEREASDSRHLSMNHGDGTNLLQNCDMYLKTNMNKVKSEMLSRGQVEYIKSERNLLAEVDSNCIVKLYCSFQDDEYLYLIMEYLPDEAKFYIGETVLAIESIHKHNYIHRDIMPDNLLLDRNGHVKLSDFGLCKPLDCSNLQEKDLSNGVNISGVLQSDELALSPNQSQQQRIEHSRKIAAESS*