AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG030943

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030943 MtrunA17_Chr6g0456631 94.083 169 9 1 4 171 3 171 1.80e-117 329
MsaG030943 MtrunA17_Chr8g0391911 91.975 162 13 0 4 165 3 164 4.73e-109 311
MsaG030943 MtrunA17_Chr4g0009901 47.826 161 83 1 1 161 1 160 1.03e-46 154
MsaG030943 MtrunA17_Chr8g0383961 53.147 143 61 3 1 138 1 142 4.73e-45 149
MsaG030943 MtrunA17_Chr4g0009851 44.720 161 87 2 1 160 1 160 7.78e-44 147
MsaG030943 MtrunA17_Chr6g0471041 42.949 156 86 3 9 162 13 167 3.50e-32 119
MsaG030943 MtrunA17_Chr1g0161431 35.088 171 109 2 2 171 3 172 4.96e-30 115
MsaG030943 MtrunA17_Chr3g0123131 38.346 133 80 2 3 134 6 137 1.11e-27 108
MsaG030943 MtrunA17_Chr8g0376881 35.294 153 97 2 10 161 25 176 1.52e-26 104
MsaG030943 MtrunA17_Chr4g0067981 38.095 126 76 2 8 132 29 153 6.38e-25 100
MsaG030943 MtrunA17_Chr1g0149851 34.756 164 104 3 8 170 3 164 1.05e-24 99.8
MsaG030943 MtrunA17_Chr3g0137101 33.728 169 106 3 7 170 5 172 1.16e-24 99.8
MsaG030943 MtrunA17_Chr2g0294911 35.065 154 98 2 8 160 27 179 1.55e-24 99.4
MsaG030943 MtrunA17_Chr4g0010001 47.191 89 47 0 1 89 1 89 1.64e-24 91.3
MsaG030943 MtrunA17_Chr7g0275891 36.220 127 78 2 8 132 3 128 8.83e-24 95.5
MsaG030943 MtrunA17_Chr1g0149841 38.095 126 76 2 8 132 3 127 9.26e-24 97.1
MsaG030943 MtrunA17_Chr4g0011071 40.566 106 62 1 55 160 35 139 1.09e-23 92.0
MsaG030943 MtrunA17_Chr5g0423031 48.315 89 46 0 1 89 1 89 1.19e-23 92.0
MsaG030943 MtrunA17_Chr4g0074401 32.749 171 108 3 6 175 13 177 5.17e-23 95.1
MsaG030943 MtrunA17_Chr4g0009981 42.157 102 58 1 59 160 7 107 3.91e-22 89.7
MsaG030943 MtrunA17_Chr3g0134481 35.433 127 80 2 6 131 4 129 1.58e-21 86.7
MsaG030943 MtrunA17_Chr4g0074411 31.138 167 108 3 10 175 18 178 3.31e-21 89.7
MsaG030943 MtrunA17_Chr7g0275401 35.156 128 81 2 6 132 1 127 7.23e-21 87.0
MsaG030943 MtrunA17_Chr2g0304841 33.333 126 82 2 8 132 16 140 1.88e-20 87.8
MsaG030943 MtrunA17_Chr3g0134461 34.483 145 85 4 7 149 5 141 4.29e-19 80.5
MsaG030943 MtrunA17_Chr8g0350761 32.500 120 80 1 12 130 19 138 7.36e-15 71.2
MsaG030943 MtrunA17_Chr4g0074421 29.915 117 76 2 59 175 2 112 2.33e-14 67.8
MsaG030943 MtrunA17_Chr8g0345901 33.065 124 78 3 13 132 35 157 1.29e-12 65.1
MsaG030943 MtrunA17_Chr1g0149831 41.538 65 37 1 68 132 1 64 7.79e-12 61.6
MsaG030943 MtrunA17_Chr4g0030271 31.707 123 79 3 14 132 89 210 5.84e-11 60.5
MsaG030943 MtrunA17_Chr7g0276361 29.365 126 84 3 11 132 11 135 9.45e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030943 AT1G67710.1 34.395 157 93 3 11 166 8 155 1.48e-26 105
MsaG030943 AT2G01760.1 38.583 127 75 3 8 132 5 130 1.94e-25 100
MsaG030943 AT3G16857.2 36.290 124 77 2 10 132 33 155 1.21e-22 94.4
MsaG030943 AT3G16857.1 36.290 124 77 2 10 132 33 155 1.72e-21 90.9
MsaG030943 AT2G25180.1 29.586 169 111 3 8 175 11 172 3.97e-21 90.1
MsaG030943 AT4G31920.1 34.400 125 80 2 8 131 11 134 9.50e-21 89.0
MsaG030943 AT2G01760.2 31.613 155 75 4 8 132 5 158 5.82e-20 86.3
MsaG030943 AT5G49240.1 31.008 129 87 2 6 133 34 161 1.73e-18 80.9
MsaG030943 AT1G49190.1 32.061 131 87 2 5 134 25 154 1.22e-17 79.7
MsaG030943 AT1G49190.2 32.061 131 87 2 5 134 25 154 1.75e-17 79.3
MsaG030943 AT5G58080.1 30.625 160 105 4 8 166 12 166 1.54e-16 76.6
MsaG030943 AT3G62670.1 29.927 137 92 3 15 150 42 175 5.24e-16 75.1
MsaG030943 AT1G67710.2 34.343 99 56 2 68 166 1 90 4.47e-14 69.7
MsaG030943 AT3G16857.3 37.647 85 51 2 49 132 2 85 2.72e-13 67.4
MsaG030943 AT2G46790.1 30.233 129 84 4 10 133 32 159 1.86e-12 64.7
MsaG030943 AT2G46790.3 30.233 129 84 4 10 133 32 159 1.97e-12 64.7
MsaG030943 AT5G60100.2 32.258 124 79 3 13 132 63 185 2.06e-11 62.0
MsaG030943 AT5G60100.7 32.258 124 79 3 13 132 63 185 2.53e-11 61.6
MsaG030943 AT5G60100.6 32.258 124 79 3 13 132 63 185 2.53e-11 61.6
MsaG030943 AT5G60100.4 32.258 124 79 3 13 132 63 185 2.53e-11 61.6
MsaG030943 AT5G60100.5 32.258 124 79 3 13 132 63 185 2.81e-11 61.6
MsaG030943 AT5G60100.3 32.258 124 79 3 13 132 63 185 2.81e-11 61.6
MsaG030943 AT5G60100.1 32.258 124 79 3 13 132 63 185 2.81e-11 61.6

Find 22 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATCATCTCTTGCCCTTATT+TGG 0.189913 6:+16826324 None:intergenic
GGGTTGAAGGTAGCCAAATA+AGG 0.310675 6:-16826337 MsaT030943.1:CDS
AACGATGCAACATCGGAAAA+AGG 0.322362 6:-16826287 MsaT030943.1:CDS
ATAATGAAGGCCATTGAAAA+TGG 0.335391 6:-16826476 MsaT030943.1:CDS
CTTGAATTTGATAGCACAAA+AGG 0.421977 6:-16826730 MsaT030943.1:CDS
ACAAGAACTTTAACATTGGC+TGG 0.429953 6:+16826925 None:intergenic
ATATGTGGCATCATGCTGTT+AGG 0.443627 6:-16826406 MsaT030943.1:CDS
TATATTTACTTACTAATGAC+AGG 0.483959 6:+16826618 None:intergenic
TGTTCTGAAGGATCAACAAA+TGG 0.496320 6:-16826500 MsaT030943.1:CDS
ATCAACAAATGGAATAATGA+AGG 0.507137 6:-16826489 MsaT030943.1:CDS
GGTTGAAGGTAGCCAAATAA+GGG 0.508208 6:-16826336 MsaT030943.1:CDS
AAAATCAAGTAAAGTATATG+TGG 0.524588 6:-16826421 MsaT030943.1:CDS
AATCACAAGAACTTTAACAT+TGG 0.529369 6:+16826921 None:intergenic
TGAAACTCAAATGCCGGACA+TGG 0.529643 6:-16826685 MsaT030943.1:CDS
ACGCTTAAACGATGCAACAT+CGG 0.539685 6:-16826294 MsaT030943.1:CDS
AAATCAAATGAATCCATGTC+CGG 0.545425 6:+16826672 None:intergenic
ACTACTTGAAACTCAAATGC+CGG 0.562943 6:-16826691 MsaT030943.1:CDS
GGCTGGAAACTCATTTCCAA+AGG 0.566229 6:+16826942 None:intergenic
TGGTCTCAATTCAATTACCA+AGG 0.596923 6:-16826859 MsaT030943.1:intron
GCTGTTAGGAAAATGATGAA+AGG 0.599623 6:-16826392 MsaT030943.1:CDS
TCAATGCTATTGAGAAAACA+TGG 0.646799 6:-16826879 MsaT030943.1:CDS
GCAGTGACGATGTGTTCTGA+AGG 0.690924 6:-16826512 MsaT030943.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 16826268 16826977 16826268 ID=MsaG030943
Chr6 mRNA 16826268 16826977 16826268 ID=MsaT030943.1;Parent=MsaG030943
Chr6 exon 16826268 16826530 16826268 ID=MsaT030943.1.exon3;Parent=MsaT030943.1
Chr6 CDS 16826268 16826530 16826268 ID=cds.MsaT030943.1;Parent=MsaT030943.1
Chr6 exon 16826631 16826780 16826631 ID=MsaT030943.1.exon2;Parent=MsaT030943.1
Chr6 CDS 16826631 16826780 16826631 ID=cds.MsaT030943.1;Parent=MsaT030943.1
Chr6 exon 16826860 16826977 16826860 ID=MsaT030943.1.exon1;Parent=MsaT030943.1
Chr6 CDS 16826860 16826977 16826860 ID=cds.MsaT030943.1;Parent=MsaT030943.1
Gene Sequence

>MsaT030943.1

ATGGCTTTTTTTTCCTTTGGAAATGAGTTTCCAGCCAATGTTAAAGTTCTTGTGATTGATCATGATATTGATCTTCTCAATGCTATTGAGAAAACATGGTCTCAATTCAATTACCAAGTTACAACATGCTCGACTGTTTCTTCAGCCTTGAATTTGATAGCACAAAAGGTGCATTTTGATTTGGTACTACTTGAAACTCAAATGCCGGACATGGATTCATTTGATTTCTTGCAACAATTGACGCAACAAATCAATATTCCTGTCATTATGACGATGTGTTCTGAAGGATCAACAAATGGAATAATGAAGGCCATTGAAAATGGAGCTTGTGACTGTTTTGTCAAGCCATTCACTGAAAATCAAGTAAAGTATATGTGGCATCATGCTGTTAGGAAAATGATGAAAGGAAATAAAAAACAAAAAATCAATGAGCAATTGGGGGTTGAAGGTAGCCAAATAAGGGCAAGAGATGATTCAAATTTACGCTTAAACGATGCAACATCGGAAAAAGGTGACAAAGAAAAAGTGTAA
Protein sequence

>MsaT030943.1

MAFFSFGNEFPANVKVLVIDHDIDLLNAIEKTWSQFNYQVTTCSTVSSALNLIAQKVHFDLVLLETQMPDMDSFDFLQQLTQQINIPVIMTMCSEGSTNGIMKAIENGACDCFVKPFTENQVKYMWHHAVRKMMKGNKKQKINEQLGVEGSQIRARDDSNLRLNDATSEKGDKEKV*