AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG030282

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030282 MtrunA17_Chr6g0449651 94.366 142 8 0 1 142 58 199 8.02e-101 287
MsaG030282 MtrunA17_Chr6g0449641 89.286 140 15 0 2 141 1 140 4.00e-92 263
MsaG030282 MtrunA17_Chr7g0227511 86.607 112 15 0 3 114 4 115 1.06e-69 207
MsaG030282 MtrunA17_Chr3g0117121 79.130 115 24 0 1 115 1 115 6.82e-65 196
MsaG030282 MtrunA17_Chr4g0058651 80.374 107 21 0 8 114 9 115 6.00e-63 191
MsaG030282 MtrunA17_Chr5g0437571 52.055 146 59 1 8 142 4 149 2.66e-49 155
MsaG030282 MtrunA17_Chr4g0043421 63.810 105 38 0 9 113 14 118 1.91e-48 153
MsaG030282 MtrunA17_Chr2g0311601 57.025 121 44 1 9 129 12 124 3.59e-48 152
MsaG030282 MtrunA17_Chr3g0115431 64.602 113 40 0 2 114 1 113 5.96e-48 154
MsaG030282 MtrunA17_Chr8g0353981 68.750 112 33 1 2 113 1 110 9.45e-48 153
MsaG030282 MtrunA17_Chr5g0402611 65.455 110 38 0 4 113 2 111 1.17e-47 156
MsaG030282 MtrunA17_Chr3g0106101 53.600 125 56 1 8 130 5 129 1.30e-45 146
MsaG030282 MtrunA17_Chr3g0097221 65.138 109 38 0 5 113 2 110 2.01e-45 149
MsaG030282 MtrunA17_Chr3g0114061 60.714 112 42 1 7 116 5 116 8.46e-45 144
MsaG030282 MtrunA17_Chr5g0438091 58.879 107 44 0 7 113 36 142 1.18e-42 139
MsaG030282 MtrunA17_Chr3g0129071 60.000 105 42 0 9 113 46 150 1.48e-42 140
MsaG030282 MtrunA17_Chr3g0113891 67.010 97 32 0 7 103 11 107 2.78e-42 138
MsaG030282 MtrunA17_Chr5g0437401 63.208 106 39 0 7 112 8 113 2.92e-42 138
MsaG030282 MtrunA17_Chr4g0030001 45.070 142 65 2 9 137 23 164 7.07e-40 132
MsaG030282 MtrunA17_Chr5g0432451 57.143 112 48 0 9 120 42 153 4.50e-38 129
MsaG030282 MtrunA17_Chr7g0260971 58.333 108 44 1 4 110 8 115 2.14e-37 127
MsaG030282 MtrunA17_Chr1g0200201 50.442 113 56 0 11 123 73 185 5.00e-37 126
MsaG030282 MtrunA17_Chr1g0184281 55.085 118 50 2 7 121 12 129 2.85e-36 124
MsaG030282 MtrunA17_Chr7g0245871 60.000 95 37 1 10 103 27 121 8.74e-34 118
MsaG030282 MtrunA17_Chr8g0351721 56.731 104 44 1 8 110 16 119 1.44e-33 117
MsaG030282 MtrunA17_Chr8g0351701 54.286 105 47 1 10 113 23 127 1.45e-33 117
MsaG030282 MtrunA17_Chr6g0460951 48.276 116 57 2 9 121 39 154 1.02e-32 115
MsaG030282 MtrunA17_Chr5g0435641 53.608 97 44 1 9 104 6 102 9.32e-32 111
MsaG030282 MtrunA17_Chr5g0444351 49.000 100 51 0 11 110 6 105 1.31e-31 110
MsaG030282 MtrunA17_Chr7g0225111 46.078 102 55 0 9 110 4 105 1.99e-31 108
MsaG030282 MtrunA17_Chr7g0261031 55.102 98 43 1 7 103 5 102 1.19e-30 109
MsaG030282 MtrunA17_Chr8g0374601 47.115 104 55 0 10 113 26 129 1.23e-30 111
MsaG030282 MtrunA17_Chr8g0374591 44.231 104 58 0 10 113 8 111 6.36e-30 105
MsaG030282 MtrunA17_Chr1g0184271 52.632 95 44 1 10 103 12 106 1.24e-29 107
MsaG030282 MtrunA17_Chr6g0452661 45.918 98 52 1 8 104 7 104 6.06e-29 106
MsaG030282 MtrunA17_Chr4g0059901 47.000 100 53 0 11 110 11 110 1.32e-28 105
MsaG030282 MtrunA17_Chr7g0245861 54.839 93 39 2 7 96 9 101 8.98e-28 100
MsaG030282 MtrunA17_Chr6g0452671 42.000 100 58 0 7 106 8 107 9.86e-27 99.4
MsaG030282 MtrunA17_Chr6g0452691 43.689 103 57 1 7 108 6 108 1.58e-26 98.2
MsaG030282 MtrunA17_Chr8g0374581 46.667 105 55 1 10 113 8 112 4.65e-26 98.2
MsaG030282 MtrunA17_Chr6g0460941 50.000 88 43 1 10 96 7 94 9.50e-26 93.6
MsaG030282 MtrunA17_Chr8g0342351 40.777 103 61 0 11 113 13 115 5.42e-24 93.6
MsaG030282 MtrunA17_Chr2g0330201 41.000 100 59 0 7 106 16 115 1.93e-23 92.8
MsaG030282 MtrunA17_Chr5g0439111 42.857 98 55 1 8 104 7 104 3.70e-22 88.2
MsaG030282 MtrunA17_Chr4g0040831 43.011 93 53 0 11 103 16 108 6.49e-22 86.7
MsaG030282 MtrunA17_Chr4g0055441 40.000 95 56 1 11 104 3 97 1.02e-21 85.1
MsaG030282 MtrunA17_Chr2g0326041 60.345 58 23 0 2 59 25 82 2.07e-21 82.4
MsaG030282 MtrunA17_Chr4g0046201 32.222 90 61 0 9 98 5 94 2.56e-15 70.5
MsaG030282 MtrunA17_Chr2g0326051 47.826 69 36 0 55 123 5 73 5.75e-15 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030282 AT3G27650.1 80.000 110 22 0 4 113 33 142 1.46e-65 197
MsaG030282 AT5G63090.4 74.400 125 30 1 2 124 1 125 3.14e-63 192
MsaG030282 AT5G63090.3 74.400 125 30 1 2 124 1 125 3.14e-63 192
MsaG030282 AT5G63090.2 74.400 125 30 1 2 124 1 125 3.14e-63 192
MsaG030282 AT5G63090.1 74.400 125 30 1 2 124 1 125 3.14e-63 192
MsaG030282 AT1G65620.1 66.379 116 39 0 2 117 1 116 1.22e-48 155
MsaG030282 AT1G65620.4 66.379 116 39 0 2 117 1 116 1.22e-48 155
MsaG030282 AT1G65620.3 66.379 116 39 0 2 117 1 116 1.22e-48 155
MsaG030282 AT1G65620.5 66.379 116 39 0 2 117 1 116 1.22e-48 155
MsaG030282 AT1G65620.2 66.379 116 39 0 2 117 1 116 1.22e-48 155
MsaG030282 AT2G30130.1 60.526 114 45 0 8 121 6 119 2.98e-48 154
MsaG030282 AT5G66870.1 63.717 113 39 1 2 114 1 111 1.47e-46 153
MsaG030282 AT2G23660.2 62.617 107 40 0 7 113 2 108 2.11e-46 153
MsaG030282 AT2G23660.3 62.617 107 40 0 7 113 2 108 2.11e-46 153
MsaG030282 AT2G23660.1 62.617 107 40 0 7 113 2 108 2.11e-46 153
MsaG030282 AT1G31320.1 69.318 88 27 0 9 96 12 99 1.16e-43 142
MsaG030282 AT2G30340.1 55.752 113 50 0 9 121 51 163 7.30e-43 142
MsaG030282 AT2G30340.2 55.752 113 50 0 9 121 52 164 7.98e-43 142
MsaG030282 AT1G16530.1 61.538 104 39 1 9 111 13 116 1.47e-41 136
MsaG030282 AT1G07900.1 48.148 135 64 1 9 137 32 166 2.97e-41 136
MsaG030282 AT3G11090.1 57.658 111 45 1 7 117 8 116 5.62e-41 134
MsaG030282 AT2G28500.1 45.860 157 62 3 9 142 54 210 8.90e-41 136
MsaG030282 AT2G40470.2 62.857 105 39 0 9 113 19 123 1.98e-40 134
MsaG030282 AT2G40470.1 62.857 105 39 0 9 113 44 148 3.65e-40 134
MsaG030282 AT3G26620.1 46.721 122 59 1 11 132 6 121 6.75e-39 128
MsaG030282 AT3G26660.1 45.902 122 60 1 11 132 6 121 3.83e-38 126
MsaG030282 AT3G03760.1 55.769 104 45 1 9 111 50 153 3.87e-35 123
MsaG030282 AT2G42430.1 47.287 129 67 1 7 134 12 140 2.28e-34 120
MsaG030282 AT5G06080.1 50.926 108 52 1 9 115 6 113 2.94e-33 115
MsaG030282 AT4G00210.1 56.863 102 43 1 10 110 11 112 8.82e-33 115
MsaG030282 AT4G00220.1 57.576 99 41 1 13 110 20 118 1.06e-32 115
MsaG030282 AT2G45420.1 57.576 99 41 1 13 110 40 138 5.59e-32 114
MsaG030282 AT2G45410.1 46.667 135 65 3 13 140 19 153 4.07e-31 110
MsaG030282 AT3G58190.1 53.125 96 44 1 10 104 11 106 1.26e-30 110
MsaG030282 AT2G31310.1 52.083 96 45 1 9 103 6 101 1.60e-30 108
MsaG030282 AT3G50510.1 45.283 106 58 0 8 113 10 115 7.09e-30 107
MsaG030282 AT3G50510.2 45.283 106 58 0 8 113 10 115 7.09e-30 107
MsaG030282 AT2G42440.1 49.495 99 49 1 7 104 4 102 1.35e-29 107
MsaG030282 AT3G47870.1 38.182 110 68 0 1 110 27 136 1.34e-25 99.4
MsaG030282 AT3G13850.1 40.777 103 61 0 11 113 37 139 2.07e-25 97.8
MsaG030282 AT5G35900.1 43.000 100 57 0 11 110 6 105 1.42e-24 94.0
MsaG030282 AT1G72980.1 40.187 107 64 0 4 110 7 113 1.20e-22 89.4
MsaG030282 AT1G06280.1 48.052 77 40 0 11 87 25 101 3.12e-20 82.8
MsaG030282 AT4G22700.1 34.921 126 80 2 11 135 6 130 5.37e-18 76.6
MsaG030282 AT2G19820.1 36.264 91 57 1 7 96 9 99 4.68e-16 70.1
MsaG030282 AT5G15060.1 36.986 73 44 1 11 81 18 90 2.05e-12 60.8
MsaG030282 AT3G27940.3 29.245 106 75 0 10 115 5 110 9.40e-12 59.3
MsaG030282 AT3G27940.1 29.245 106 75 0 10 115 5 110 9.40e-12 59.3
MsaG030282 AT3G27940.2 29.245 106 75 0 10 115 5 110 9.40e-12 59.3

Find 24 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAATGTTCACAAAGTATT+TGG 0.212072 6:+5831830 MsaT030282.1:CDS
GCAAACTTATGAGGCTCTTC+TGG 0.277156 6:-5831809 None:intergenic
AATCCTTGCTTCAGCTTCAT+AGG 0.299183 6:-5831924 None:intergenic
GGCTCTTCTGGTGGGAAATA+AGG 0.304156 6:-5831797 None:intergenic
GGTTCTTCTTCTCTTGGTCT+TGG 0.305065 6:+5832061 MsaT030282.1:CDS
CATGAAGGTTCTTCTTCTCT+TGG 0.312102 6:+5832055 MsaT030282.1:CDS
TTGTAGCATCAAGTTCCTTT+TGG 0.323860 6:-5832009 None:intergenic
CGCTTCAAGGACAACTCTTT+AGG 0.341714 6:+5831984 MsaT030282.1:CDS
TGAACATTTGCAAACTTATG+AGG 0.383834 6:-5831818 None:intergenic
ATGTCATTGCTGAAATTTGA+AGG 0.464467 6:-5832115 None:intergenic
GGAGCTATTTCAGCGCTTCA+AGG 0.465943 6:+5831971 MsaT030282.1:CDS
ATGAAGTCTTACCTCATCAA+AGG 0.530030 6:+5831879 MsaT030282.1:CDS
ACAACTCTTTAGGCTCCAAA+AGG 0.536437 6:+5831994 MsaT030282.1:CDS
AACTTATGAGGCTCTTCTGG+TGG 0.540828 6:-5831806 None:intergenic
TGAAGTCTTACCTCATCAAA+GGG 0.542775 6:+5831880 MsaT030282.1:CDS
AATCCAGTGTATGGTTGTGT+TGG 0.555823 6:+5831950 MsaT030282.1:CDS
TGTCATTGCTGAAATTTGAA+GGG 0.589927 6:-5832114 None:intergenic
AGAAACTTGCAAGCAGCACA+TGG 0.591215 6:-5831740 None:intergenic
ACTTATGAGGCTCTTCTGGT+GGG 0.610191 6:-5831805 None:intergenic
ACTGTATCCTCCCTTTGATG+AGG 0.610482 6:-5831890 None:intergenic
GCTCCAACACAACCATACAC+TGG 0.615806 6:-5831953 None:intergenic
TTGCCTATGAAGCTGAAGCA+AGG 0.624248 6:+5831921 MsaT030282.1:CDS
TGGAGAATTTGAGTAGCTTG+AGG 0.626001 6:-5831720 None:intergenic
AGTCTTACCTCATCAAAGGG+AGG 0.699522 6:+5831883 MsaT030282.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 5831713 5832141 5831713 ID=MsaG030282
Chr6 mRNA 5831713 5832141 5831713 ID=MsaT030282.1;Parent=MsaG030282
Chr6 exon 5831713 5832141 5831713 ID=MsaT030282.1.exon1;Parent=MsaT030282.1
Chr6 CDS 5831713 5832141 5831713 ID=cds.MsaT030282.1;Parent=MsaT030282.1
Gene Sequence

>MsaT030282.1

ATGATGGCCTCAAGCTACTCAAATTCTCCATGTGCTGCTTGCAAGTTTCTAAGAAGAAAATGCAACCAAGATTGCATTTTTGCACCTTATTTCCCACCAGAAGAGCCTCATAAGTTTGCAAATGTTCACAAAGTATTTGGTGCAAGCAATGTTAGCAAAATTCTTAATGAAGTCTTACCTCATCAAAGGGAGGATACAGTGAATTCTCTTGCCTATGAAGCTGAAGCAAGGATTAAAAATCCAGTGTATGGTTGTGTTGGAGCTATTTCAGCGCTTCAAGGACAACTCTTTAGGCTCCAAAAGGAACTTGATGCTACAAATGCTGATTTGATTCGTTTTACTCATGAAGGTTCTTCTTCTCTTGGTCTTGGACAATTTCACTCTGATGACTTTTTAAATTACCCTTCAAATTTCAGCAATGACATGTGA
Protein sequence

>MsaT030282.1

MMASSYSNSPCAACKFLRRKCNQDCIFAPYFPPEEPHKFANVHKVFGASNVSKILNEVLPHQREDTVNSLAYEAEARIKNPVYGCVGAISALQGQLFRLQKELDATNADLIRFTHEGSSSLGLGQFHSDDFLNYPSNFSNDM*