AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036307

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036307 MtrunA17_Chr7g0224821 97.011 368 8 3 1 366 1 367 0.0 735
MsaG036307 MtrunA17_Chr3g0132091 36.240 367 197 11 14 366 8 351 4.54e-56 187
MsaG036307 MtrunA17_Chr8g0386271 48.756 201 95 6 17 211 36 234 2.22e-50 173
MsaG036307 MtrunA17_Chr4g0061651 54.264 129 51 3 25 150 75 198 2.76e-37 140
MsaG036307 MtrunA17_Chr2g0308321 52.308 130 60 1 70 199 166 293 2.94e-35 135
MsaG036307 MtrunA17_Chr5g0420051 57.000 100 43 0 74 173 180 279 4.62e-33 127
MsaG036307 MtrunA17_Chr3g0122411 59.341 91 34 1 67 154 154 244 4.80e-33 127
MsaG036307 MtrunA17_Chr7g0258471 63.636 88 32 0 70 157 137 224 1.65e-32 125
MsaG036307 MtrunA17_Chr4g0046991 59.551 89 34 1 62 148 58 146 2.20e-32 119
MsaG036307 MtrunA17_Chr8g0360361 63.750 80 29 0 74 153 64 143 5.17e-32 119
MsaG036307 MtrunA17_Chr2g0282521 64.198 81 29 0 69 149 58 138 3.87e-31 115
MsaG036307 MtrunA17_Chr1g0162871 43.046 151 70 4 2 151 45 180 1.30e-30 123
MsaG036307 MtrunA17_Chr2g0302791 45.926 135 58 2 17 151 96 215 2.16e-30 122
MsaG036307 MtrunA17_Chr7g0231911 63.750 80 29 0 75 154 149 228 2.59e-30 117
MsaG036307 MtrunA17_Chr8g0334671 56.436 101 39 2 58 153 165 265 2.41e-29 115
MsaG036307 MtrunA17_Chr1g0194121 60.440 91 35 1 59 148 130 220 8.70e-29 118
MsaG036307 MtrunA17_Chr7g0270541 59.551 89 34 1 62 148 130 218 2.22e-28 117
MsaG036307 MtrunA17_Chr8g0377421 56.757 74 32 0 75 148 132 205 1.85e-24 101
MsaG036307 MtrunA17_Chr8g0377401 54.321 81 37 0 67 147 154 234 9.39e-24 98.6
MsaG036307 MtrunA17_Chr2g0286661 50.000 74 37 0 75 148 103 176 2.30e-20 92.8
MsaG036307 MtrunA17_Chr2g0317041 60.417 48 19 0 74 121 98 145 4.04e-15 72.4
MsaG036307 MtrunA17_Chr8g0377431 42.857 91 45 3 46 130 117 206 8.82e-14 69.7
MsaG036307 MtrunA17_Chr1g0175031 59.574 47 19 0 75 121 74 120 3.03e-13 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036307 AT5G50570.1 46.354 192 87 5 24 200 41 231 2.34e-43 154
MsaG036307 AT5G50570.2 46.354 192 87 5 24 200 41 231 2.34e-43 154
MsaG036307 AT5G50670.1 46.354 192 87 5 24 200 41 231 2.34e-43 154
MsaG036307 AT5G50670.2 46.354 192 87 5 24 200 41 231 2.34e-43 154
MsaG036307 AT1G69170.1 67.416 89 28 1 62 149 110 198 4.87e-34 130
MsaG036307 AT1G76580.2 44.156 154 85 1 2 154 40 193 1.82e-32 129
MsaG036307 AT1G76580.3 44.156 154 85 1 2 154 40 193 1.86e-32 129
MsaG036307 AT1G76580.1 44.156 154 85 1 2 154 40 193 2.27e-32 129
MsaG036307 AT2G42200.1 63.218 87 32 0 75 161 74 160 4.00e-32 124
MsaG036307 AT5G43270.3 47.788 113 59 0 75 187 169 281 5.02e-32 125
MsaG036307 AT5G43270.1 47.788 113 59 0 75 187 169 281 5.02e-32 125
MsaG036307 AT5G43270.2 47.788 113 59 0 75 187 169 281 5.02e-32 125
MsaG036307 AT1G20980.1 44.375 160 69 3 2 152 49 197 8.28e-32 127
MsaG036307 AT3G60030.1 59.375 96 37 1 61 154 111 206 2.13e-31 126
MsaG036307 AT1G27370.6 56.075 107 43 2 48 150 145 251 4.09e-31 121
MsaG036307 AT1G27370.1 56.075 107 43 2 48 150 145 251 6.94e-31 121
MsaG036307 AT1G27370.5 56.075 107 43 2 48 150 145 251 6.94e-31 121
MsaG036307 AT1G27370.3 56.075 107 43 2 48 150 145 251 6.94e-31 121
MsaG036307 AT1G27370.2 56.075 107 43 2 48 150 145 251 6.94e-31 121
MsaG036307 AT1G27370.4 56.075 107 43 2 48 150 145 251 6.94e-31 121
MsaG036307 AT1G27370.7 56.075 107 43 2 48 150 145 251 6.94e-31 121
MsaG036307 AT2G33810.1 62.667 75 28 0 74 148 53 127 7.15e-31 114
MsaG036307 AT1G27360.2 67.105 76 25 0 75 150 175 250 7.07e-30 118
MsaG036307 AT1G27360.1 67.105 76 25 0 75 150 175 250 7.07e-30 118
MsaG036307 AT1G27360.3 67.105 76 25 0 75 150 175 250 7.07e-30 118
MsaG036307 AT1G27360.4 67.105 76 25 0 75 150 175 250 7.07e-30 118
MsaG036307 AT1G53160.3 52.688 93 44 0 63 155 42 134 2.60e-29 111
MsaG036307 AT1G53160.2 52.688 93 44 0 63 155 42 134 4.59e-29 111
MsaG036307 AT1G53160.1 52.688 93 44 0 63 155 42 134 4.59e-29 111
MsaG036307 AT2G47070.1 65.385 78 27 0 74 151 105 182 5.68e-29 119
MsaG036307 AT3G15270.1 61.333 75 29 0 74 148 62 136 2.20e-28 109
MsaG036307 AT3G57920.1 51.961 102 44 2 75 176 59 155 2.29e-28 114
MsaG036307 AT1G02065.1 64.865 74 26 0 75 148 188 261 8.13e-28 112
MsaG036307 AT5G18830.2 48.315 89 45 1 62 149 125 213 5.20e-21 95.1
MsaG036307 AT5G18830.3 48.315 89 45 1 62 149 125 213 6.60e-21 94.7
MsaG036307 AT5G18830.1 48.315 89 45 1 62 149 125 213 6.71e-21 94.7
MsaG036307 AT2G47070.2 73.077 52 14 0 100 151 2 53 6.00e-17 82.8
MsaG036307 AT1G02065.2 45.570 79 36 2 58 129 166 244 3.54e-15 74.7

Find 91 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGCTTATCTTTCGCCTTTC+CGG 0.146373 7:-31612856 None:intergenic
CAGTGACTCTTCCATTCTTC+TGG 0.209211 7:+31612976 MsaT036307.1:CDS
GAGAAATCAGTTCATGATTC+AGG 0.275617 7:+31610559 MsaT036307.1:CDS
AACCAACACAACAGGAGTTT+TGG 0.287936 7:-31610749 None:intergenic
CTACCAAAGTGCAGGATTCT+AGG 0.315434 7:-31612405 None:intergenic
GGCCAAATGTTTCTCATAAT+AGG 0.321028 7:-31612447 None:intergenic
CTCTCTTCTGATGGCAAGCC+CGG 0.326414 7:+31612681 MsaT036307.1:CDS
GGATTTGAGGCTTGGTGATC+AGG 0.330157 7:+31610522 MsaT036307.1:CDS
ATGAGGTTAAGAGGAGTTGC+AGG 0.333125 7:+31611214 MsaT036307.1:CDS
GGTTCATCCGCAGGTGAAAA+AGG 0.348606 7:+31612648 MsaT036307.1:CDS
AAAAGAGCGCGTTTGCAAAA+TGG 0.355601 7:+31610631 MsaT036307.1:CDS
TCAGCCACCTTCTCTCTTCA+TGG 0.360485 7:+31611275 MsaT036307.1:CDS
GGACCGGTATTTGTTCTAGA+TGG 0.361540 7:+31612882 MsaT036307.1:CDS
GAGAGTATCATAAGCGTCAT+AGG 0.369267 7:+31610710 MsaT036307.1:CDS
TCATATACCTGCTGCATTGT+TGG 0.372382 7:-31610795 None:intergenic
GCTTCAGTTATGGAAGTTGC+AGG 0.374630 7:-31612468 None:intergenic
CGACAAACATAAACAGGATA+AGG 0.380487 7:+31612530 MsaT036307.1:CDS
TGATCAGGCTTCTGATTCAT+TGG 0.384148 7:+31610537 MsaT036307.1:CDS
TCCATAACTGAAGCTGAATC+TGG 0.398324 7:+31612477 MsaT036307.1:CDS
GCAGCATCCCATTGCAATGA+AGG 0.401478 7:-31612917 None:intergenic
CCGCGGATGGGATGGCTGAT+AGG 0.406880 7:-31612618 None:intergenic
TTGTTAACATCGCCGGACTT+AGG 0.408591 7:-31612579 None:intergenic
ACCAGATTCAGCTTCAGTTA+TGG 0.414958 7:-31612478 None:intergenic
TCGAATCGACAAACATAAAC+AGG 0.415548 7:+31612524 MsaT036307.1:CDS
TGTTAACATCGCCGGACTTA+GGG 0.417871 7:-31612578 None:intergenic
AGTGACTCTTCCATTCTTCT+GGG 0.418501 7:+31612977 MsaT036307.1:CDS
GGGATTGGAAAGAGTTTGCT+TGG 0.421291 7:+31610455 MsaT036307.1:CDS
CGGAGTTTGATGAGGTTAAG+AGG 0.427340 7:+31611205 MsaT036307.1:CDS
TGCTTGGGATCCATCTGGAT+TGG 0.431081 7:+31610471 MsaT036307.1:CDS
AATATGATTTGCTCGGTTGA+TGG 0.434096 7:+31610661 MsaT036307.1:CDS
AAAACTCCTGTTGTGTTGGT+TGG 0.434108 7:+31610751 MsaT036307.1:CDS
GGATGGCTGATAGGAGTTCC+AGG 0.435057 7:-31612609 None:intergenic
GAGTTTGCTTGGGATCCATC+TGG 0.438111 7:+31610466 MsaT036307.1:CDS
ATCCTATTATGAGAAACATT+TGG 0.440090 7:+31612445 MsaT036307.1:CDS
ATGCTGCAAATGGGTCCTAA+TGG 0.447508 7:+31612933 MsaT036307.1:CDS
CAACAAACCTTCATTGCAAT+GGG 0.452275 7:+31612910 MsaT036307.1:CDS
TTGGGATCCATCTGGATTGG+AGG 0.460222 7:+31610474 MsaT036307.1:CDS
TTGCAATGGGATGCTGCAAA+TGG 0.467365 7:+31612923 MsaT036307.1:CDS
TGAACCAACGGCACCGCGGA+TGG 0.474180 7:-31612631 None:intergenic
ACAACCCGAGTCAAAAGATC+CGG 0.476548 7:-31612700 None:intergenic
GACAAACATAAACAGGATAA+GGG 0.477832 7:+31612531 MsaT036307.1:CDS
TGCTGCTTTGTTAACATCGC+CGG 0.478377 7:-31612586 None:intergenic
CATCCCATCCGCGGTGCCGT+TGG 0.480127 7:+31612627 MsaT036307.1:CDS
ACGAAGGAGTACTCGTACTC+CGG 0.480410 7:+31612837 MsaT036307.1:CDS
AGTTGCAGGAAACGTCTTGA+TGG 0.488371 7:+31611228 MsaT036307.1:CDS
AGAACAAATACCGGTCCATT+CGG 0.494466 7:-31612876 None:intergenic
AGGATAAGGGACATCCTCAT+TGG 0.499189 7:+31612544 MsaT036307.1:CDS
CAACGGCACCGCGGATGGGA+TGG 0.499675 7:-31612626 None:intergenic
GATTCAATGGATTTGAGGCT+TGG 0.506642 7:+31610514 MsaT036307.1:CDS
AGACGCTACTCCCAGAAGAA+TGG 0.507419 7:-31612987 None:intergenic
GGATTGGAAAGAGTTTGCTT+GGG 0.508642 7:+31610456 MsaT036307.1:CDS
TTACCTCCAACCAACACAAC+AGG 0.509843 7:-31610757 None:intergenic
GAACCAACGGCACCGCGGAT+GGG 0.516027 7:-31612630 None:intergenic
GAAAGATAAGCCGAATGGAC+CGG 0.517456 7:+31612866 MsaT036307.1:CDS
ACAACAAACCTTCATTGCAA+TGG 0.522232 7:+31612909 MsaT036307.1:CDS
ATGAAGAGAGAAGGTGGCTG+AGG 0.523686 7:-31611273 None:intergenic
AAGGTGATTCAATGGATTTG+AGG 0.524985 7:+31610509 MsaT036307.1:CDS
AGTCCAACACAATCTTCGTC+TGG 0.529463 7:+31612795 MsaT036307.1:CDS
ACTCCTGTTGTGTTGGTTGG+AGG 0.530507 7:+31610754 MsaT036307.1:CDS
CAAGAAATTCTCCCTAAGTC+CGG 0.531212 7:+31612567 MsaT036307.1:CDS
TTCACCTGCGGATGAACCAA+CGG 0.533214 7:-31612643 None:intergenic
TTCAACTCCTCCAATCCAGA+TGG 0.535266 7:-31610481 None:intergenic
GGGAGAATTTCTTGCCAATG+AGG 0.536926 7:-31612558 None:intergenic
GGTGCCGTTGGTTCATCCGC+AGG 0.539865 7:+31612639 MsaT036307.1:CDS
GGACCTAGAATCCTGCACTT+TGG 0.540161 7:+31612402 MsaT036307.1:intron
TTCCAAAACTCCTGTTGTGT+TGG 0.540226 7:+31610747 MsaT036307.1:CDS
TGCAATGGGATGCTGCAAAT+GGG 0.554526 7:+31612924 MsaT036307.1:CDS
GGTTCTGCCAACAATGCAGC+AGG 0.557731 7:+31610788 MsaT036307.1:CDS
ATGTAGGTTTCATTCACTTG+CGG 0.558210 7:+31611185 MsaT036307.1:intron
TCTGAGGGCTACCAAAGTGC+AGG 0.563556 7:-31612413 None:intergenic
GATGTTAACAAAGCAGCACC+TGG 0.566098 7:+31612591 MsaT036307.1:CDS
GGAGTACTCGTACTCCGGAA+AGG 0.575335 7:+31612842 MsaT036307.1:CDS
ATCGCAGAATATGATTTGCT+CGG 0.580677 7:+31610654 MsaT036307.1:CDS
GGTAGGAAGCTCTCTTCTGA+TGG 0.581427 7:+31612672 MsaT036307.1:CDS
TTTCCATCTAGAACAAATAC+CGG 0.581750 7:-31612885 None:intergenic
ATCAGTTCATGATTCAGGAA+AGG 0.585059 7:+31610564 MsaT036307.1:CDS
AGAGTATCATAAGCGTCATA+GGG 0.590533 7:+31610711 MsaT036307.1:CDS
TTCACTTGCGGAGTTTGATG+AGG 0.591231 7:+31611197 MsaT036307.1:CDS
TGGTTGGAGGTAAGCAGCAG+AGG 0.595809 7:+31610767 MsaT036307.1:CDS
TCAGCAGCCATGAAGAGAGA+AGG 0.603814 7:-31611282 None:intergenic
CAACCCGAGTCAAAAGATCC+GGG 0.610877 7:-31612699 None:intergenic
GCAGCCATGAAGAGAGAAGG+TGG 0.612633 7:-31611279 None:intergenic
TAGGATTGACATATGTCTGA+GGG 0.617179 7:-31612428 None:intergenic
GTTCCAGACGAAGATTGTGT+TGG 0.619281 7:-31612798 None:intergenic
AAGTTCATGTACAATTACAA+AGG 0.619439 7:+31611306 MsaT036307.1:CDS
ATAGGATTGACATATGTCTG+AGG 0.620773 7:-31612429 None:intergenic
TTGATGGACATAATAAGCGC+AGG 0.628418 7:+31611244 MsaT036307.1:CDS
AAGGCGAAAGATAAGCCGAA+TGG 0.638149 7:+31612861 MsaT036307.1:CDS
CCTATCAGCCATCCCATCCG+CGG 0.652776 7:+31612618 MsaT036307.1:CDS
ATGGACATAATAAGCGCAGG+AGG 0.679251 7:+31611247 MsaT036307.1:CDS
CGGATGAACCAACGGCACCG+CGG 0.746313 7:-31612635 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 31610448 31613004 31610448 ID=MsaG036307
Chr7 mRNA 31610448 31613004 31610448 ID=MsaT036307.1;Parent=MsaG036307
Chr7 exon 31610448 31610809 31610448 ID=MsaT036307.1.exon1;Parent=MsaT036307.1
Chr7 CDS 31610448 31610809 31610448 ID=cds.MsaT036307.1;Parent=MsaT036307.1
Chr7 exon 31611191 31611327 31611191 ID=MsaT036307.1.exon2;Parent=MsaT036307.1
Chr7 CDS 31611191 31611327 31611191 ID=cds.MsaT036307.1;Parent=MsaT036307.1
Chr7 exon 31612403 31613004 31612403 ID=MsaT036307.1.exon3;Parent=MsaT036307.1
Chr7 CDS 31612403 31613004 31612403 ID=cds.MsaT036307.1;Parent=MsaT036307.1
Gene Sequence

>MsaT036307.1

ATGGATTGGGATTGGAAAGAGTTTGCTTGGGATCCATCTGGATTGGAGGAGTTGAAAAATGAAGGTGATTCAATGGATTTGAGGCTTGGTGATCAGGCTTCTGATTCATTGGAGAAATCAGTTCATGATTCAGGAAAGGAAGATTCAAAAGCTGTGTCGTCGTCGTCACCTACTAGATCGTTGAAAAGAGCGCGTTTGCAAAATGGATCGCAGAATATGATTTGCTCGGTTGATGGATGTAACTCTGATCTTAGTGATTGTAGAGAGTATCATAAGCGTCATAGGGTGTGCGAAAAGCATTCCAAAACTCCTGTTGTGTTGGTTGGAGGTAAGCAGCAGAGGTTCTGCCAACAATGCAGCAGGTTTCATTCACTTGCGGAGTTTGATGAGGTTAAGAGGAGTTGCAGGAAACGTCTTGATGGACATAATAAGCGCAGGAGGAAACCTCAGCCACCTTCTCTCTTCATGGCTGCTGAGAAGTTCATGTACAATTACAAAGGACCTAGAATCCTGCACTTTGGTAGCCCTCAGACATATGTCAATCCTATTATGAGAAACATTTGGCCTGCAACTTCCATAACTGAAGCTGAATCTGGTTATGATCATCAAAGACTTTTGTATCGAATCGACAAACATAAACAGGATAAGGGACATCCTCATTGGCAAGAAATTCTCCCTAAGTCCGGCGATGTTAACAAAGCAGCACCTGGAACTCCTATCAGCCATCCCATCCGCGGTGCCGTTGGTTCATCCGCAGGTGAAAAAGGTGGTAGGAAGCTCTCTTCTGATGGCAAGCCCGGATCTTTTGACTCGGGTTGTGCTCTCTATCTTCTGTCAACACTTCAAACACAAAGCTCAGAGTTGAGTTTGATGCAGTCAAGCATCAACAACAGTCCAACACAATCTTCGTCTGGAACGTTGCATTTTGATGCTACGAAGGAGTACTCGTACTCCGGAAAGGCGAAAGATAAGCCGAATGGACCGGTATTTGTTCTAGATGGAAACACAACAAACCTTCATTGCAATGGGATGCTGCAAATGGGTCCTAATGGATTGATCGAAAATGATAACTCAGTGACTCTTCCATTCTTCTGGGAGTAG
Protein sequence

>MsaT036307.1

MDWDWKEFAWDPSGLEELKNEGDSMDLRLGDQASDSLEKSVHDSGKEDSKAVSSSSPTRSLKRARLQNGSQNMICSVDGCNSDLSDCREYHKRHRVCEKHSKTPVVLVGGKQQRFCQQCSRFHSLAEFDEVKRSCRKRLDGHNKRRRKPQPPSLFMAAEKFMYNYKGPRILHFGSPQTYVNPIMRNIWPATSITEAESGYDHQRLLYRIDKHKQDKGHPHWQEILPKSGDVNKAAPGTPISHPIRGAVGSSAGEKGGRKLSSDGKPGSFDSGCALYLLSTLQTQSSELSLMQSSINNSPTQSSSGTLHFDATKEYSYSGKAKDKPNGPVFVLDGNTTNLHCNGMLQMGPNGLIENDNSVTLPFFWE*