AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028821

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028821 MtrunA17_Chr5g0437401 99.435 177 1 0 1 177 1 177 6.27e-131 363
MsaG028821 MtrunA17_Chr3g0113891 74.725 182 41 1 1 177 4 185 2.84e-89 259
MsaG028821 MtrunA17_Chr7g0227511 50.667 150 68 1 8 151 8 157 3.43e-48 154
MsaG028821 MtrunA17_Chr4g0058651 46.108 167 80 1 9 175 9 165 2.10e-47 152
MsaG028821 MtrunA17_Chr6g0449641 64.151 106 38 0 8 113 6 111 1.22e-44 144
MsaG028821 MtrunA17_Chr3g0117121 63.551 107 39 0 9 115 8 114 2.07e-44 145
MsaG028821 MtrunA17_Chr5g0437571 63.366 101 37 0 8 108 3 103 2.56e-42 139
MsaG028821 MtrunA17_Chr3g0106101 60.577 104 41 0 8 111 4 107 3.29e-42 139
MsaG028821 MtrunA17_Chr2g0311601 59.434 106 43 0 3 108 5 110 3.40e-42 138
MsaG028821 MtrunA17_Chr4g0043421 60.396 101 40 0 8 108 12 112 1.06e-41 137
MsaG028821 MtrunA17_Chr3g0114061 46.711 152 80 1 8 159 5 155 1.13e-41 137
MsaG028821 MtrunA17_Chr6g0449651 60.360 111 41 1 3 113 62 169 2.01e-41 138
MsaG028821 MtrunA17_Chr5g0402611 52.713 129 58 1 8 133 5 133 4.66e-40 137
MsaG028821 MtrunA17_Chr3g0115431 60.952 105 41 0 8 112 6 110 7.99e-40 134
MsaG028821 MtrunA17_Chr8g0353981 54.545 132 56 1 8 135 4 135 3.72e-39 133
MsaG028821 MtrunA17_Chr5g0438091 51.145 131 61 2 8 138 36 163 5.64e-39 131
MsaG028821 MtrunA17_Chr3g0097221 56.190 105 46 0 8 112 4 108 3.21e-38 132
MsaG028821 MtrunA17_Chr3g0129071 56.863 102 44 0 12 113 48 149 3.88e-36 125
MsaG028821 MtrunA17_Chr7g0260971 51.327 113 54 1 2 113 5 117 8.31e-36 124
MsaG028821 MtrunA17_Chr5g0432451 61.290 93 30 1 4 90 30 122 3.36e-35 123
MsaG028821 MtrunA17_Chr8g0351701 54.902 102 45 1 12 112 24 125 3.42e-35 123
MsaG028821 MtrunA17_Chr8g0351721 50.442 113 55 1 1 112 8 120 5.15e-35 122
MsaG028821 MtrunA17_Chr1g0200201 55.446 101 45 0 12 112 73 173 7.91e-35 122
MsaG028821 MtrunA17_Chr7g0245871 51.485 101 48 1 12 111 28 128 5.04e-34 120
MsaG028821 MtrunA17_Chr1g0184281 52.778 108 49 2 3 108 6 113 2.58e-33 117
MsaG028821 MtrunA17_Chr4g0030001 56.701 97 41 1 10 105 23 119 3.29e-33 116
MsaG028821 MtrunA17_Chr7g0261031 50.893 112 53 2 8 117 5 116 3.69e-33 117
MsaG028821 MtrunA17_Chr6g0460951 50.495 101 49 1 12 111 41 141 4.29e-33 117
MsaG028821 MtrunA17_Chr1g0184271 39.412 170 87 6 12 168 13 179 7.33e-33 117
MsaG028821 MtrunA17_Chr5g0435641 41.593 113 65 1 9 120 5 117 2.80e-30 109
MsaG028821 MtrunA17_Chr7g0225111 43.689 103 58 0 10 112 4 106 1.11e-29 105
MsaG028821 MtrunA17_Chr8g0374601 49.020 102 52 0 12 113 27 128 1.23e-28 107
MsaG028821 MtrunA17_Chr5g0444351 42.574 101 58 0 12 112 6 106 4.32e-28 102
MsaG028821 MtrunA17_Chr8g0374591 47.059 102 54 0 12 113 9 110 1.47e-27 100
MsaG028821 MtrunA17_Chr7g0245861 47.959 98 48 2 3 97 4 101 1.79e-25 95.5
MsaG028821 MtrunA17_Chr6g0460941 47.126 87 45 1 12 97 8 94 1.70e-24 91.7
MsaG028821 MtrunA17_Chr4g0059901 31.875 160 104 2 8 167 7 161 1.49e-23 93.6
MsaG028821 MtrunA17_Chr4g0055441 36.090 133 72 4 12 135 3 131 1.63e-23 90.9
MsaG028821 MtrunA17_Chr8g0374581 43.689 103 57 1 12 113 9 111 8.50e-23 90.9
MsaG028821 MtrunA17_Chr6g0452671 34.722 144 93 1 8 151 8 150 1.38e-22 89.7
MsaG028821 MtrunA17_Chr2g0330201 35.455 110 71 0 8 117 16 125 1.81e-22 91.3
MsaG028821 MtrunA17_Chr6g0452661 34.109 129 75 3 7 125 5 133 6.94e-22 89.0
MsaG028821 MtrunA17_Chr8g0342351 35.238 105 68 0 8 112 9 113 3.92e-21 87.0
MsaG028821 MtrunA17_Chr4g0040831 39.000 100 61 0 11 110 15 114 1.56e-20 84.3
MsaG028821 MtrunA17_Chr6g0452691 36.697 109 68 1 7 114 5 113 3.91e-20 82.8
MsaG028821 MtrunA17_Chr5g0439111 36.283 113 63 3 7 114 5 113 3.60e-18 79.0
MsaG028821 MtrunA17_Chr2g0326051 39.091 110 49 3 56 153 5 108 1.50e-14 66.6
MsaG028821 MtrunA17_Chr4g0046201 31.111 90 62 0 8 97 3 92 1.72e-14 69.3
MsaG028821 MtrunA17_Chr2g0326041 57.447 47 20 0 10 56 32 78 2.40e-13 62.8
MsaG028821 MtrunA17_Chr2g0326821 31.776 107 62 4 12 109 3 107 5.50e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028821 AT3G11090.1 80.180 111 22 0 1 111 1 111 1.66e-63 193
MsaG028821 AT5G63090.4 58.475 118 46 1 9 123 9 126 3.70e-44 145
MsaG028821 AT5G63090.3 58.475 118 46 1 9 123 9 126 3.70e-44 145
MsaG028821 AT5G63090.2 58.475 118 46 1 9 123 9 126 3.70e-44 145
MsaG028821 AT5G63090.1 58.475 118 46 1 9 123 9 126 3.70e-44 145
MsaG028821 AT3G27650.1 58.120 117 49 0 8 124 36 152 4.40e-44 144
MsaG028821 AT5G66870.1 54.074 135 55 2 8 141 4 132 5.34e-43 145
MsaG028821 AT2G30130.1 57.391 115 48 1 8 122 5 118 3.00e-41 137
MsaG028821 AT2G23660.2 56.731 104 45 0 8 111 2 105 2.18e-39 136
MsaG028821 AT2G23660.3 56.731 104 45 0 8 111 2 105 2.18e-39 136
MsaG028821 AT2G23660.1 56.731 104 45 0 8 111 2 105 2.18e-39 136
MsaG028821 AT1G65620.1 63.208 106 39 0 8 113 6 111 2.83e-39 132
MsaG028821 AT1G65620.4 63.208 106 39 0 8 113 6 111 2.83e-39 132
MsaG028821 AT1G65620.3 63.208 106 39 0 8 113 6 111 2.83e-39 132
MsaG028821 AT1G65620.5 63.208 106 39 0 8 113 6 111 2.83e-39 132
MsaG028821 AT1G65620.2 63.208 106 39 0 8 113 6 111 2.83e-39 132
MsaG028821 AT2G30340.2 53.846 117 54 0 12 128 54 170 3.61e-39 134
MsaG028821 AT2G30340.1 53.846 117 54 0 12 128 53 169 4.18e-39 134
MsaG028821 AT1G31320.1 60.000 90 36 0 8 97 10 99 1.25e-36 125
MsaG028821 AT1G07900.1 58.586 99 41 0 10 108 32 130 4.32e-36 124
MsaG028821 AT1G16530.1 51.786 112 52 2 2 111 4 115 1.19e-35 122
MsaG028821 AT2G28500.1 56.863 102 44 0 10 111 54 155 2.02e-35 124
MsaG028821 AT3G03760.1 52.427 103 48 1 10 111 50 152 3.53e-35 124
MsaG028821 AT2G40470.2 68.750 80 25 0 12 91 21 100 5.28e-35 122
MsaG028821 AT4G00210.1 50.442 113 55 1 1 112 1 113 6.85e-35 122
MsaG028821 AT2G40470.1 67.073 82 27 0 10 91 44 125 1.29e-34 121
MsaG028821 AT4G00220.1 56.000 100 43 1 14 112 20 119 1.80e-34 121
MsaG028821 AT2G42430.1 49.580 119 59 1 2 119 6 124 3.05e-34 121
MsaG028821 AT2G45420.1 53.000 100 46 1 14 112 40 139 7.08e-34 120
MsaG028821 AT3G58190.1 44.882 127 69 1 12 137 12 138 2.20e-33 118
MsaG028821 AT2G42440.1 46.552 116 61 1 8 122 4 119 4.31e-33 118
MsaG028821 AT3G26660.1 48.515 101 52 0 12 112 6 106 1.63e-32 113
MsaG028821 AT3G26620.1 48.515 101 52 0 12 112 6 106 2.05e-32 112
MsaG028821 AT5G06080.1 47.115 104 54 1 9 111 5 108 3.02e-31 111
MsaG028821 AT2G45410.1 51.000 100 48 1 14 112 19 118 5.73e-31 111
MsaG028821 AT2G31310.1 44.340 106 58 1 9 113 5 110 4.10e-30 108
MsaG028821 AT3G50510.1 40.602 133 78 1 7 138 8 140 4.04e-29 107
MsaG028821 AT3G50510.2 40.602 133 78 1 7 138 8 140 4.04e-29 107
MsaG028821 AT5G35900.1 38.686 137 81 1 8 141 2 138 1.90e-27 102
MsaG028821 AT3G13850.1 38.235 102 63 0 11 112 36 137 9.53e-24 94.7
MsaG028821 AT1G72980.1 38.739 111 68 0 8 118 10 120 5.05e-22 89.0
MsaG028821 AT3G47870.1 41.379 87 51 0 8 94 33 119 6.06e-20 85.5
MsaG028821 AT1G06280.1 46.154 78 42 0 11 88 24 101 3.40e-18 78.6
MsaG028821 AT4G22700.1 35.036 137 82 4 8 139 2 136 1.09e-17 77.0
MsaG028821 AT2G19820.1 35.165 91 57 2 12 101 13 102 3.06e-12 60.8
MsaG028821 AT5G15060.1 38.158 76 43 2 10 82 16 90 5.71e-12 60.8

Find 25 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCGAAAGTGCACAAAGTATT+TGG 0.201773 5:-69256177 MsaT028821.1:CDS
GGAAGAAACTGTGAATTCTT+TGG 0.269255 5:-69256106 MsaT028821.1:CDS
TATGGCGCAAATATACAATT+TGG 0.301099 5:+69256228 None:intergenic
ATTTGAATTCATCATATCAT+TGG 0.327427 5:+69255921 None:intergenic
CACTCATCGGAGCGAAAGTA+TGG 0.344487 5:+69256210 None:intergenic
CGCGAATTTCTTGCACTCAT+CGG 0.347852 5:+69256197 None:intergenic
GTTTCTTCCCTTTGTTCCTC+TGG 0.351316 5:+69256120 None:intergenic
AGGCTTAGAGACCCCGTCTA+TGG 0.370197 5:-69256066 MsaT028821.1:CDS
TAACATCATTAAAATATATA+AGG 0.381477 5:+69255778 None:intergenic
TGCCATTGCTAAGGATCGTC+TGG 0.450338 5:-69255986 MsaT028821.1:CDS
GCACCTATGCATCCATAGAC+GGG 0.499649 5:+69256054 None:intergenic
CGAAGTTCCAGAGGAACAAA+GGG 0.517072 5:-69256127 MsaT028821.1:CDS
ACATGATCTTGCCATTGCTA+AGG 0.539338 5:-69255995 MsaT028821.1:CDS
AAATTTGCAGGCTGCACAAG+AGG 0.545401 5:+69256269 None:intergenic
AGCACCTATGCATCCATAGA+CGG 0.565869 5:+69256053 None:intergenic
GCACAAGAGGAACTTGACCT+TGG 0.570179 5:+69256282 None:intergenic
TCGAAGTTCCAGAGGAACAA+AGG 0.580233 5:-69256128 MsaT028821.1:CDS
TGGCTTATGAAGCTGATGCA+AGG 0.584407 5:-69256086 MsaT028821.1:CDS
CACTCTAGAGAAATCATGAA+GGG 0.616662 5:-69256312 None:intergenic
GACCCCGTCTATGGATGCAT+AGG 0.633413 5:-69256057 MsaT028821.1:CDS
AGCCAGACGATCCTTAGCAA+TGG 0.638509 5:+69255984 None:intergenic
TCATGAAGGGTTATGAACCA+AGG 0.655644 5:-69256299 MsaT028821.1:CDS
CACCTATGCATCCATAGACG+GGG 0.668606 5:+69256055 None:intergenic
GATTCTGATCGAAGTTCCAG+AGG 0.676488 5:-69256136 MsaT028821.1:CDS
TCGTCTGGCTCGTTGCGCTG+CGG 0.690033 5:-69255971 MsaT028821.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 69255786 69256319 69255786 ID=MsaG028821
Chr5 mRNA 69255786 69256319 69255786 ID=MsaT028821.1;Parent=MsaG028821
Chr5 exon 69255786 69256319 69255786 ID=MsaT028821.1.exon1;Parent=MsaT028821.1
Chr5 CDS 69255786 69256319 69255786 ID=cds.MsaT028821.1;Parent=MsaT028821.1
Gene Sequence

>MsaT028821.1

ATGAAGGGTTATGAACCAAGGTCAAGTTCCTCTTGTGCAGCCTGCAAATTTCTCAAAAGAAGATGCATACCAAATTGTATATTTGCGCCATACTTTCGCTCCGATGAGTGCAAGAAATTCGCGAAAGTGCACAAAGTATTTGGAGCAAGCAATGTGAGCAAGATTCTGATCGAAGTTCCAGAGGAACAAAGGGAAGAAACTGTGAATTCTTTGGCTTATGAAGCTGATGCAAGGCTTAGAGACCCCGTCTATGGATGCATAGGTGCTATAGCACTTTTGCAAAGGAAGATGGTTGAACTTCAACATGATCTTGCCATTGCTAAGGATCGTCTGGCTCGTTGCGCTGCGGCAGCTGCTACTCCTACTTCTTCTTTTTCCAATGATATGATGAATTCAAATGTTAGTTTGCCACCTTTTCCTGAGTTTTTCACTTGCAGTGACTTCAGTGATAATTTAAGTCACAGTTCTTCGTCTCAATCGTTTAGTCGAAATGAAACTGTCGATGATTTCGTTCAAATTCCTTATATATTTTAA
Protein sequence

>MsaT028821.1

MKGYEPRSSSSCAACKFLKRRCIPNCIFAPYFRSDECKKFAKVHKVFGASNVSKILIEVPEEQREETVNSLAYEADARLRDPVYGCIGAIALLQRKMVELQHDLAIAKDRLARCAAAAATPTSSFSNDMMNSNVSLPPFPEFFTCSDFSDNLSHSSSSQSFSRNETVDDFVQIPYIF*