AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027079

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027079 MtrunA17_Chr5g0419201 90.476 189 18 0 16 204 3 191 1.29e-125 352
MsaG027079 MtrunA17_Chr7g0233561 51.515 99 48 0 29 127 18 116 3.81e-33 121
MsaG027079 MtrunA17_Chr7g0233571 37.912 182 97 6 29 203 10 182 2.16e-32 116
MsaG027079 MtrunA17_Chr3g0103191 35.849 159 98 2 29 187 12 166 6.41e-31 113
MsaG027079 MtrunA17_Chr3g0131891 47.475 99 52 0 29 127 19 117 8.99e-30 112
MsaG027079 MtrunA17_Chr7g0233531 52.747 91 40 1 44 134 1 88 4.01e-29 109
MsaG027079 MtrunA17_Chr8g0390841 34.783 161 86 2 14 174 27 168 4.55e-29 112
MsaG027079 MtrunA17_Chr3g0103151 35.669 157 83 4 29 178 12 157 7.55e-29 105
MsaG027079 MtrunA17_Chr3g0103181 36.000 150 92 2 29 178 12 157 2.00e-27 105
MsaG027079 MtrunA17_Chr7g0233521 51.190 84 41 0 44 127 1 84 3.88e-27 104
MsaG027079 MtrunA17_Chr1g0163101 35.196 179 90 6 29 204 17 172 7.05e-27 101
MsaG027079 MtrunA17_Chr7g0233541 37.415 147 79 3 44 180 1 144 1.10e-26 103
MsaG027079 MtrunA17_Chr1g0163071 34.756 164 86 5 44 194 1 156 4.98e-24 96.7
MsaG027079 MtrunA17_Chr3g0103171 34.884 129 75 1 45 173 6 125 5.12e-24 95.9
MsaG027079 MtrunA17_Chr1g0162441 35.938 128 82 0 29 156 7 134 6.28e-24 97.8
MsaG027079 MtrunA17_Chr4g0033961 35.862 145 92 1 26 170 3 146 1.96e-23 96.7
MsaG027079 MtrunA17_Chr6g0476181 34.132 167 92 5 44 204 1 155 3.57e-23 90.9
MsaG027079 MtrunA17_Chr1g0163261 42.593 108 60 1 23 130 3 108 6.41e-23 93.6
MsaG027079 MtrunA17_Chr1g0163251 36.364 143 79 3 38 180 14 144 1.47e-22 94.0
MsaG027079 MtrunA17_Chr1g0163231 33.333 180 93 4 23 202 3 155 2.01e-22 92.0
MsaG027079 MtrunA17_Chr1g0162161 32.317 164 87 5 44 204 3 145 2.58e-22 88.6
MsaG027079 MtrunA17_Chr1g0208771 36.154 130 67 2 45 174 13 126 2.73e-22 93.6
MsaG027079 MtrunA17_Chr1g0163241 34.815 135 74 3 20 154 6 126 3.39e-22 88.6
MsaG027079 MtrunA17_Chr1g0163121 36.496 137 80 4 40 176 6 135 4.12e-22 87.8
MsaG027079 MtrunA17_Chr1g0163141 33.721 172 99 6 41 204 7 171 4.68e-22 89.0
MsaG027079 MtrunA17_Chr1g0171611 40.741 108 62 1 23 130 3 108 7.89e-22 90.5
MsaG027079 MtrunA17_Chr1g0163181 32.759 174 105 5 38 201 14 185 9.15e-22 92.0
MsaG027079 MtrunA17_Chr3g0077411 32.919 161 77 4 29 186 262 394 1.25e-21 92.0
MsaG027079 MtrunA17_Chr3g0077411 32.353 136 90 2 29 163 25 159 5.16e-19 84.3
MsaG027079 MtrunA17_Chr3g0077461 30.263 152 105 1 9 160 217 367 1.25e-21 91.7
MsaG027079 MtrunA17_Chr3g0077461 32.039 103 69 1 45 147 23 124 1.63e-16 77.0
MsaG027079 MtrunA17_Chr1g0163191 39.604 101 59 1 38 138 14 112 4.49e-21 85.5
MsaG027079 MtrunA17_Chr6g0467351 32.530 166 96 3 29 193 15 165 5.57e-21 87.0
MsaG027079 MtrunA17_Chr1g0163131 37.086 151 86 5 29 179 18 159 7.40e-21 88.2
MsaG027079 MtrunA17_Chr3g0077451 35.714 126 75 2 43 168 10 129 8.72e-21 86.7
MsaG027079 MtrunA17_Chr1g0162411 40.816 98 58 0 29 126 7 104 1.98e-20 88.2
MsaG027079 MtrunA17_Chr4g0067431 33.766 154 92 4 29 180 15 160 2.49e-19 84.0
MsaG027079 MtrunA17_Chr1g0163221 39.316 117 63 2 12 127 1 110 4.86e-19 83.6
MsaG027079 MtrunA17_Chr1g0163081 37.931 116 65 4 44 159 5 113 5.18e-19 79.7
MsaG027079 MtrunA17_Chr5g0429931 35.052 97 62 1 45 140 11 107 8.66e-19 81.6
MsaG027079 MtrunA17_Chr3g0077361 31.944 144 91 3 7 149 23 160 3.26e-18 82.0
MsaG027079 MtrunA17_Chr1g0163201 40.426 94 54 1 45 138 19 110 4.30e-18 81.3
MsaG027079 MtrunA17_Chr1g0163161 34.000 150 77 6 57 204 1 130 9.44e-17 73.6
MsaG027079 MtrunA17_Chr1g0163061 38.000 100 61 1 29 127 15 114 1.11e-16 76.3
MsaG027079 MtrunA17_Chr4g0009491 31.897 116 78 1 25 140 221 335 2.76e-16 76.3
MsaG027079 MtrunA17_Chr4g0009491 35.294 85 55 0 43 127 11 95 2.96e-15 73.6
MsaG027079 MtrunA17_Chr3g0077381 36.471 85 54 0 43 127 34 118 3.48e-16 76.3
MsaG027079 MtrunA17_Chr3g0077381 31.481 108 73 1 33 140 251 357 8.98e-15 72.0
MsaG027079 MtrunA17_Chr1g0154211 37.778 90 56 0 30 119 23 112 1.91e-15 73.9
MsaG027079 MtrunA17_Chr1g0154101 35.294 102 63 1 40 138 193 294 3.00e-14 70.9
MsaG027079 MtrunA17_Chr1g0154101 35.556 90 58 0 29 118 25 114 1.78e-13 68.6
MsaG027079 MtrunA17_Chr1g0154161 34.737 95 62 0 29 123 30 124 8.57e-14 68.6
MsaG027079 MtrunA17_Chr1g0154131 28.025 157 107 2 40 193 193 346 8.92e-14 69.3
MsaG027079 MtrunA17_Chr1g0154171 34.066 91 60 0 30 120 23 113 9.85e-14 68.9
MsaG027079 MtrunA17_Chr1g0154071 32.979 94 62 1 30 123 157 249 4.48e-12 64.3
MsaG027079 MtrunA17_Chr1g0154071 29.787 94 66 0 30 123 28 121 3.43e-11 61.6
MsaG027079 MtrunA17_Chr1g0154251 35.443 79 51 0 41 119 38 116 4.70e-12 64.3
MsaG027079 MtrunA17_Chr1g0154041 30.952 84 58 0 41 124 27 110 9.22e-12 63.5
MsaG027079 MtrunA17_Chr1g0154151 41.892 74 43 0 45 118 20 93 1.26e-11 62.4
MsaG027079 MtrunA17_Chr1g0154111 27.200 125 87 2 30 150 26 150 2.02e-11 62.4
MsaG027079 MtrunA17_Chr3g0077421 47.059 51 27 0 77 127 5 55 4.39e-11 59.7
MsaG027079 MtrunA17_Chr3g0077441 47.059 51 27 0 77 127 5 55 4.39e-11 59.7
MsaG027079 MtrunA17_Chr1g0154191 26.627 169 113 3 36 201 29 189 5.20e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027079 AT4G01580.1 38.776 147 74 4 29 174 30 161 9.64e-24 93.6
MsaG027079 AT3G18960.2 42.424 99 57 0 29 127 30 128 2.06e-21 87.8
MsaG027079 AT3G18960.1 42.424 99 57 0 29 127 30 128 2.36e-21 87.8
MsaG027079 AT3G18990.2 41.584 101 59 0 29 129 6 106 2.54e-21 90.5
MsaG027079 AT3G18990.1 41.584 101 59 0 29 129 6 106 2.83e-21 90.1
MsaG027079 AT1G49475.1 34.177 158 93 3 29 181 34 185 4.94e-21 86.7
MsaG027079 AT3G18960.3 43.373 83 47 0 45 127 9 91 1.52e-16 74.3

Find 33 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTACCAAATGGTGATAAA+TGG 0.158299 5:+34262249 MsaT027079.1:CDS
GTGATAAATGGGAAGTAAAT+TGG 0.244779 5:+34262261 MsaT027079.1:CDS
GCGCTTTGGAAATGGATTAT+TGG 0.263628 5:+34262420 MsaT027079.1:CDS
AGACGATTATATTGAGATTT+CGG 0.264534 5:+34262517 MsaT027079.1:CDS
TTTGGTAGAACTAGGGTTAC+TGG 0.318076 5:-34262236 None:intergenic
TTTCTTTCAACTTGATCTCT+AGG 0.366619 5:-34262455 None:intergenic
TCAACTTGATCTCTAGGGCT+TGG 0.372702 5:-34262449 None:intergenic
GATATTTGACAAAAGCGCTT+TGG 0.378554 5:+34262406 MsaT027079.1:CDS
TGACAAAAGCGCTTTGGAAA+TGG 0.381408 5:+34262412 MsaT027079.1:CDS
CAACACTATTCAATCAGTTA+TGG 0.382254 5:+34262335 MsaT027079.1:CDS
CCATGACGTGTGGTTTCAAA+AGG 0.387206 5:+34262295 MsaT027079.1:CDS
CAATGTAACAGATGCTTCCT+AGG 0.399104 5:+34262177 MsaT027079.1:intron
AAACGGCCCCTGATGGCGGC+AGG 0.419438 5:+34260240 None:intergenic
ACTTCCCATTTATCACCATT+TGG 0.427050 5:-34262254 None:intergenic
AACACTATTCAATCAGTTAT+GGG 0.429555 5:+34262336 MsaT027079.1:CDS
ACGGCCCCTGATGGCGGCAG+GGG 0.438304 5:+34260242 None:intergenic
TCTACCAAATGGTGATAAAT+GGG 0.445463 5:+34262250 MsaT027079.1:CDS
TTCTTTCAACTTGATCTCTA+GGG 0.452245 5:-34262454 None:intergenic
TATCACCATTTGGTAGAACT+AGG 0.471668 5:-34262244 None:intergenic
CGTGTGGTTTCAAAAGGGTT+GGG 0.493190 5:+34262301 MsaT027079.1:CDS
ACGTGTGGTTTCAAAAGGGT+TGG 0.496889 5:+34262300 MsaT027079.1:CDS
TATTTCTTCACAAAACTCCT+AGG 0.519057 5:-34262194 None:intergenic
TTGGTAGAACTAGGGTTACT+GGG 0.523068 5:-34262235 None:intergenic
ATCACCATTTGGTAGAACTA+GGG 0.529841 5:-34262243 None:intergenic
GTAACCCTAGTTCTACCAAA+TGG 0.543476 5:+34262239 MsaT027079.1:CDS
AAAAGAATGAAAACAAGTGA+TGG 0.566067 5:+34262581 MsaT027079.1:CDS
CAAGTGATGGTCCATCTCAA+AGG 0.579235 5:+34262594 MsaT027079.1:CDS
AAGACATTGTGATGATTCGA+TGG 0.582011 5:-34261897 None:intergenic
TGGAACTGATGAACAATACT+CGG 0.587143 5:-34261928 None:intergenic
CATGACGTGTGGTTTCAAAA+GGG 0.630048 5:+34262296 MsaT027079.1:CDS
TGATGAACAATACTCGGAGT+CGG 0.631443 5:-34261922 None:intergenic
CATGAAGATGCTGAAAAGAG+TGG 0.644431 5:+34262488 MsaT027079.1:CDS
TAAAACGTGACCATGACGTG+TGG 0.763171 5:+34262285 MsaT027079.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 34260252 34262673 34260252 ID=MsaG027079
Chr5 mRNA 34260252 34262673 34260252 ID=MsaT027079.1;Parent=MsaG027079
Chr5 exon 34260252 34260263 34260252 ID=MsaT027079.1.exon1;Parent=MsaT027079.1
Chr5 CDS 34260252 34260263 34260252 ID=cds.MsaT027079.1;Parent=MsaT027079.1
Chr5 exon 34261892 34262008 34261892 ID=MsaT027079.1.exon2;Parent=MsaT027079.1
Chr5 CDS 34261892 34262008 34261892 ID=cds.MsaT027079.1;Parent=MsaT027079.1
Chr5 exon 34262188 34262673 34262188 ID=MsaT027079.1.exon3;Parent=MsaT027079.1
Chr5 CDS 34262188 34262673 34262188 ID=cds.MsaT027079.1;Parent=MsaT027079.1
Gene Sequence

>MsaT027079.1

ATGGCGGCAGGGCTTTTCCATCGAATCATCACAATGTCTTCTCCGACTCCGAGTATTGTTCATCAGTTCCATAAGTCACAATGTTTTTTCAAAGTCATCATCGAGACAACCCTTAAAAAGAAAGAGATTATGCTTCCTAGGAGTTTTGTGAAGAAATATGGAAAAAAATTATCAAACCCAGTAACCCTAGTTCTACCAAATGGTGATAAATGGGAAGTAAATTGGATAAAACGTGACCATGACGTGTGGTTTCAAAAGGGTTGGGAAAAATTTGCACAACACTATTCAATCAGTTATGGGCATTTTTTAGTTTTTAGACTTGAAACAAGGTCTCAATTTCAAGTAATGATATTTGACAAAAGCGCTTTGGAAATGGATTATTGGAGTATACCAAGCCCTAGAGATCAAGTTGAAAGAAACATTCATCATCATGAAGATGCTGAAAAGAGTGGCGATAAAGACGATTATATTGAGATTTCGGATGAGAGTGAAATGCGAAGATCTTCATCACCTCGACCTCAGAAAAGAATGAAAACAAGTGATGGTCCATCTCAAAGGAAAAACCTAAAGAAGGAAAAAATTAATGTGGATAAAAAAATCAAAGGAAAGTTATAA
Protein sequence

>MsaT027079.1

MAAGLFHRIITMSSPTPSIVHQFHKSQCFFKVIIETTLKKKEIMLPRSFVKKYGKKLSNPVTLVLPNGDKWEVNWIKRDHDVWFQKGWEKFAQHYSISYGHFLVFRLETRSQFQVMIFDKSALEMDYWSIPSPRDQVERNIHHHEDAEKSGDKDDYIEISDESEMRRSSSPRPQKRMKTSDGPSQRKNLKKEKINVDKKIKGKL*