AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG030942

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030942 MtrunA17_Chr6g0456631 94.083 169 9 1 4 171 3 171 1.78e-117 329
MsaG030942 MtrunA17_Chr8g0391911 91.358 162 14 0 4 165 3 164 6.47e-108 308
MsaG030942 MtrunA17_Chr4g0009901 46.584 161 85 1 1 161 1 160 7.15e-45 149
MsaG030942 MtrunA17_Chr4g0009851 44.720 161 87 2 1 160 1 160 8.67e-44 147
MsaG030942 MtrunA17_Chr8g0383961 52.448 143 62 3 1 138 1 142 1.30e-43 145
MsaG030942 MtrunA17_Chr6g0471041 41.667 156 88 3 9 162 13 167 2.17e-30 114
MsaG030942 MtrunA17_Chr1g0161431 38.571 140 84 2 2 140 3 141 9.86e-29 111
MsaG030942 MtrunA17_Chr3g0123131 37.594 133 81 2 3 134 6 137 1.32e-26 105
MsaG030942 MtrunA17_Chr8g0376881 33.987 153 99 2 10 161 25 176 5.00e-26 103
MsaG030942 MtrunA17_Chr4g0067981 37.302 126 77 2 8 132 29 153 9.43e-24 97.1
MsaG030942 MtrunA17_Chr3g0137101 33.136 169 107 3 7 170 5 172 1.52e-23 96.7
MsaG030942 MtrunA17_Chr2g0294911 38.095 126 76 2 8 132 27 151 2.31e-23 95.9
MsaG030942 MtrunA17_Chr1g0149851 33.537 164 106 3 8 170 3 164 6.29e-23 94.7
MsaG030942 MtrunA17_Chr4g0011071 39.496 119 66 2 55 173 35 147 7.13e-23 89.7
MsaG030942 MtrunA17_Chr1g0149841 37.302 126 77 2 8 132 3 127 1.38e-22 93.6
MsaG030942 MtrunA17_Chr4g0010001 44.944 89 49 0 1 89 1 89 1.55e-22 86.3
MsaG030942 MtrunA17_Chr4g0009981 42.157 102 58 1 59 160 7 107 4.48e-22 89.7
MsaG030942 MtrunA17_Chr7g0275891 34.646 127 80 2 8 132 3 128 5.06e-22 90.9
MsaG030942 MtrunA17_Chr5g0423031 46.067 89 48 0 1 89 1 89 7.13e-22 87.4
MsaG030942 MtrunA17_Chr4g0074401 31.977 172 110 3 6 176 13 178 1.35e-21 90.9
MsaG030942 MtrunA17_Chr3g0134481 34.646 127 81 2 6 131 4 129 2.89e-20 83.2
MsaG030942 MtrunA17_Chr4g0074411 33.099 142 93 2 10 150 18 158 6.57e-20 86.3
MsaG030942 MtrunA17_Chr7g0275401 34.375 128 82 2 6 132 1 127 1.23e-19 83.6
MsaG030942 MtrunA17_Chr2g0304841 32.540 126 83 2 8 132 16 140 2.55e-19 84.3
MsaG030942 MtrunA17_Chr3g0134461 35.156 128 80 3 7 132 5 131 5.10e-18 77.4
MsaG030942 MtrunA17_Chr4g0074421 39.189 74 44 1 59 132 2 74 1.07e-13 66.2
MsaG030942 MtrunA17_Chr8g0350761 31.667 120 81 1 12 130 19 138 1.21e-13 67.8
MsaG030942 MtrunA17_Chr8g0345901 33.065 124 78 3 13 132 35 157 8.16e-13 65.5
MsaG030942 MtrunA17_Chr1g0149831 41.538 65 37 1 68 132 1 64 1.46e-11 60.8
MsaG030942 MtrunA17_Chr1g0181811 30.469 128 74 4 14 132 85 206 3.00e-11 61.2
MsaG030942 MtrunA17_Chr4g0030271 32.812 128 71 4 14 132 89 210 3.20e-11 61.2
MsaG030942 MtrunA17_Chr7g0276361 28.571 126 85 3 11 132 11 135 5.08e-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
MsaG030942 AT1G67710.1 33.758 157 94 3 11 166 8 155 1.90e-25 102
MsaG030942 AT2G01760.1 37.795 127 76 3 8 132 5 130 4.47e-25 100
MsaG030942 AT3G16857.2 35.484 124 78 2 10 132 33 155 3.85e-20 87.0
MsaG030942 AT3G16857.1 35.484 124 78 2 10 132 33 155 4.13e-20 87.0
MsaG030942 AT2G25180.1 32.847 137 90 2 8 143 11 146 8.04e-20 86.3
MsaG030942 AT4G31920.1 33.600 125 81 2 8 131 11 134 1.34e-19 85.5
MsaG030942 AT2G01760.2 30.968 155 76 4 8 132 5 158 1.52e-19 85.1
MsaG030942 AT5G49240.1 31.008 129 87 2 6 133 34 161 1.54e-17 78.2
MsaG030942 AT1G49190.1 31.298 131 88 2 5 134 25 154 4.62e-16 75.1
MsaG030942 AT1G49190.2 31.298 131 88 2 5 134 25 154 5.19e-16 75.1
MsaG030942 AT5G58080.1 30.000 160 106 4 8 166 12 166 1.37e-15 73.9
MsaG030942 AT3G62670.1 30.147 136 91 3 15 149 42 174 3.15e-15 72.8
MsaG030942 AT1G67710.2 34.343 99 56 2 68 166 1 90 7.29e-14 68.9
MsaG030942 AT2G46790.1 30.233 129 84 4 10 133 32 159 1.14e-12 65.5
MsaG030942 AT2G46790.3 30.233 129 84 4 10 133 32 159 1.22e-12 65.5
MsaG030942 AT3G16857.3 36.471 85 52 2 49 132 2 85 6.20e-12 63.5
MsaG030942 AT2G01760.3 39.394 66 38 2 68 132 1 65 7.67e-12 62.8
MsaG030942 AT5G60100.2 32.258 124 79 3 13 132 63 185 1.30e-11 62.4
MsaG030942 AT5G60100.7 32.520 123 78 3 14 132 64 185 1.66e-11 62.0
MsaG030942 AT5G60100.6 32.520 123 78 3 14 132 64 185 1.66e-11 62.0
MsaG030942 AT5G60100.4 32.520 123 78 3 14 132 64 185 1.66e-11 62.0
MsaG030942 AT5G60100.5 32.258 124 79 3 13 132 63 185 1.83e-11 62.0
MsaG030942 AT5G60100.3 32.258 124 79 3 13 132 63 185 1.83e-11 62.0
MsaG030942 AT5G60100.1 32.258 124 79 3 13 132 63 185 1.83e-11 62.0

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:+16809976 None:intergenic
GGGTTGAAGGTAGCCAAATA+AGG 0.310675 6:-16809989 MsaT030942.1:CDS
ATAATGAAGGCCATTGAAAA+TGG 0.335391 6:-16810128 MsaT030942.1:CDS
ATATGTGGCATCATGCTGTT+AGG 0.443627 6:-16810058 MsaT030942.1:CDS
CTCGAATTTGATAGCACAAA+AGG 0.447056 6:-16810359 MsaT030942.1:CDS
ACAAGAACTTTAACATTGGC+AGG 0.472803 6:+16810554 None:intergenic
TATATTTACTTACTAATGAC+AGG 0.483959 6:+16810247 None:intergenic
TGTTCTGAAGGATCAACAAA+TGG 0.496320 6:-16810152 MsaT030942.1:CDS
ATCAACAAATGGAATAATGA+AGG 0.507137 6:-16810141 MsaT030942.1:CDS
GGTTGAAGGTAGCCAAATAA+GGG 0.508208 6:-16809988 MsaT030942.1:CDS
AAAATCAAGTAAAGTATATG+TGG 0.524588 6:-16810073 MsaT030942.1:CDS
TGAAACTCAAATGCCGGACA+TGG 0.529643 6:-16810314 MsaT030942.1:CDS
AATCACAAGAACTTTAACAT+TGG 0.531767 6:+16810550 None:intergenic
ACGCTTAAACGATGCAACAT+CGG 0.539685 6:-16809946 MsaT030942.1:CDS
AAATCAAATGAATCCATGTC+CGG 0.545425 6:+16810301 None:intergenic
ACTACTTGAAACTCAAATGC+CGG 0.562943 6:-16810320 MsaT030942.1:CDS
GGCAGGAAACTCATTTCCAA+AGG 0.582784 6:+16810571 None:intergenic
TGGTCTCAATTCAATTACCA+AGG 0.596923 6:-16810488 MsaT030942.1:intron
GCTGTTAGGAAAATGATGAA+AGG 0.599623 6:-16810044 MsaT030942.1:CDS
TTCAGTTACAACATGCTCGA+CGG 0.610352 6:-16810392 MsaT030942.1:intron
TCAATGCTATTGAGAAAACA+TGG 0.646799 6:-16810508 MsaT030942.1:CDS
GCAGTGACGATGTGTTCTGA+AGG 0.690924 6:-16810164 MsaT030942.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 16809920 16810606 16809920 ID=MsaG030942
Chr6 mRNA 16809920 16810606 16809920 ID=MsaT030942.1;Parent=MsaG030942
Chr6 exon 16809920 16810182 16809920 ID=MsaT030942.1.exon3;Parent=MsaT030942.1
Chr6 CDS 16809920 16810182 16809920 ID=cds.MsaT030942.1;Parent=MsaT030942.1
Chr6 exon 16810260 16810409 16810260 ID=MsaT030942.1.exon2;Parent=MsaT030942.1
Chr6 CDS 16810260 16810409 16810260 ID=cds.MsaT030942.1;Parent=MsaT030942.1
Chr6 exon 16810489 16810606 16810489 ID=MsaT030942.1.exon1;Parent=MsaT030942.1
Chr6 CDS 16810489 16810606 16810489 ID=cds.MsaT030942.1;Parent=MsaT030942.1
Gene Sequence

>MsaT030942.1

ATGGCTTTTTTTTCCTTTGGAAATGAGTTTCCTGCCAATGTTAAAGTTCTTGTGATTGATCATGATATTGATCTTCTCAATGCTATTGAGAAAACATGGTCTCAATTCAATTACCAAGTTACAACATGCTCGACGGTTTCTTCAGCCTCGAATTTGATAGCACAAAAGGTGCATTTTGATTTGGTACTACTTGAAACTCAAATGCCGGACATGGATTCATTTGATTTCTTGCAACAATTGATACAACAAATCAATATTCCTGTCATTATGACGATGTGTTCTGAAGGATCAACAAATGGAATAATGAAGGCCATTGAAAATGGAGCTTGTGACTGTTTTGTCAAGCCATTCGCTGAAAATCAAGTAAAGTATATGTGGCATCATGCTGTTAGGAAAATGATGAAAGGAAATAAAAAACAAAAAATCAATGAGCAATTGGGGGTTGAAGGTAGCCAAATAAGGGCAAGAGATGATTCAAATTTACGCTTAAACGATGCAACATCGGAAAAAAGTGACAAAGAAAAAGAGTAA
Protein sequence

>MsaT030942.1

MAFFSFGNEFPANVKVLVIDHDIDLLNAIEKTWSQFNYQVTTCSTVSSASNLIAQKVHFDLVLLETQMPDMDSFDFLQQLIQQINIPVIMTMCSEGSTNGIMKAIENGACDCFVKPFAENQVKYMWHHAVRKMMKGNKKQKINEQLGVEGSQIRARDDSNLRLNDATSEKSDKEKE*