AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013281

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013281 MtrunA17_Chr5g0437571 75.000 144 36 0 1 144 1 144 4.18e-78 228
MsaG013281 MtrunA17_Chr3g0114061 64.138 145 44 3 1 141 1 141 5.85e-60 182
MsaG013281 MtrunA17_Chr3g0106101 55.629 151 56 2 2 141 3 153 7.54e-55 170
MsaG013281 MtrunA17_Chr2g0311601 63.934 122 36 1 5 126 12 125 6.44e-52 162
MsaG013281 MtrunA17_Chr4g0043421 65.741 108 37 0 5 112 14 121 4.53e-49 155
MsaG013281 MtrunA17_Chr4g0030001 58.772 114 46 1 5 117 23 136 3.46e-45 146
MsaG013281 MtrunA17_Chr1g0200201 60.360 111 44 0 7 117 73 183 1.79e-43 142
MsaG013281 MtrunA17_Chr3g0115431 61.538 104 40 0 3 106 6 109 1.72e-42 140
MsaG013281 MtrunA17_Chr5g0438091 52.893 121 57 0 1 121 34 154 4.35e-42 138
MsaG013281 MtrunA17_Chr3g0117121 63.810 105 38 0 2 106 6 110 4.63e-41 135
MsaG013281 MtrunA17_Chr7g0227511 62.136 103 39 0 4 106 9 111 9.41e-41 134
MsaG013281 MtrunA17_Chr6g0449641 52.459 122 58 0 4 125 7 128 1.09e-40 133
MsaG013281 MtrunA17_Chr4g0058651 62.136 103 39 0 4 106 9 111 2.04e-40 134
MsaG013281 MtrunA17_Chr6g0449651 60.194 103 41 0 4 106 65 167 5.18e-40 133
MsaG013281 MtrunA17_Chr5g0402611 52.273 132 60 2 2 130 4 135 8.78e-39 133
MsaG013281 MtrunA17_Chr5g0437401 52.846 123 56 1 3 125 8 128 1.39e-38 129
MsaG013281 MtrunA17_Chr3g0113891 60.396 101 40 0 3 103 11 111 1.82e-38 129
MsaG013281 MtrunA17_Chr3g0129071 56.481 108 47 0 5 112 46 153 1.19e-37 128
MsaG013281 MtrunA17_Chr3g0097221 54.286 105 48 0 2 106 3 107 1.65e-37 129
MsaG013281 MtrunA17_Chr7g0225111 49.550 111 56 0 5 115 4 114 6.80e-37 122
MsaG013281 MtrunA17_Chr5g0444351 47.863 117 61 0 7 123 6 122 5.68e-36 121
MsaG013281 MtrunA17_Chr8g0353981 54.237 118 52 1 2 119 3 118 7.97e-35 120
MsaG013281 MtrunA17_Chr5g0432451 58.824 102 42 0 5 106 42 143 3.19e-34 119
MsaG013281 MtrunA17_Chr1g0184281 51.429 105 50 1 2 105 11 115 2.46e-33 116
MsaG013281 MtrunA17_Chr5g0435641 41.333 150 78 4 1 143 1 147 3.47e-33 115
MsaG013281 MtrunA17_Chr7g0260971 51.429 105 50 1 5 108 13 117 8.86e-33 115
MsaG013281 MtrunA17_Chr6g0460951 39.437 142 75 3 5 143 39 172 3.86e-31 111
MsaG013281 MtrunA17_Chr7g0261031 51.402 107 50 2 1 105 2 108 4.04e-31 111
MsaG013281 MtrunA17_Chr8g0351721 47.934 121 60 2 3 122 15 133 9.56e-31 110
MsaG013281 MtrunA17_Chr8g0351701 53.125 96 44 1 6 100 23 118 1.07e-30 110
MsaG013281 MtrunA17_Chr8g0374591 46.535 101 54 0 6 106 8 108 3.06e-30 106
MsaG013281 MtrunA17_Chr1g0184271 40.714 140 80 2 6 144 12 149 3.14e-30 108
MsaG013281 MtrunA17_Chr7g0245871 50.980 102 49 1 6 106 27 128 1.12e-29 107
MsaG013281 MtrunA17_Chr8g0374601 44.643 112 60 1 6 117 26 135 6.66e-29 106
MsaG013281 MtrunA17_Chr7g0245861 52.688 93 41 2 3 92 9 101 1.95e-27 99.4
MsaG013281 MtrunA17_Chr6g0452691 37.719 114 70 1 1 113 4 117 4.41e-25 94.7
MsaG013281 MtrunA17_Chr6g0460941 46.591 88 46 1 6 92 7 94 5.61e-25 91.7
MsaG013281 MtrunA17_Chr8g0374581 43.363 113 61 2 6 117 8 118 8.13e-24 92.4
MsaG013281 MtrunA17_Chr6g0452661 35.135 111 71 1 4 113 7 117 6.81e-22 87.8
MsaG013281 MtrunA17_Chr6g0452671 36.538 104 66 0 7 110 12 115 7.62e-22 86.7
MsaG013281 MtrunA17_Chr4g0059901 43.011 93 53 0 7 99 11 103 1.30e-21 87.4
MsaG013281 MtrunA17_Chr4g0040831 37.391 115 66 1 7 121 16 124 8.54e-21 84.0
MsaG013281 MtrunA17_Chr2g0330201 37.000 100 63 0 7 106 20 119 1.01e-20 85.5
MsaG013281 MtrunA17_Chr8g0342351 36.000 100 64 0 7 106 13 112 2.17e-20 84.0
MsaG013281 MtrunA17_Chr2g0326051 54.412 68 31 0 50 117 4 71 2.70e-19 78.2
MsaG013281 MtrunA17_Chr2g0326041 64.583 48 17 0 5 52 32 79 6.16e-19 76.3
MsaG013281 MtrunA17_Chr4g0046201 36.559 93 59 0 1 93 1 93 2.26e-18 79.0
MsaG013281 MtrunA17_Chr4g0055441 31.579 114 77 1 7 119 3 116 2.41e-18 76.3
MsaG013281 MtrunA17_Chr5g0439111 34.906 106 68 1 4 108 7 112 3.86e-16 72.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013281 AT2G30130.1 63.158 133 45 1 3 131 5 137 2.63e-57 177
MsaG013281 AT2G28500.1 50.714 140 68 1 5 144 54 192 4.69e-48 155
MsaG013281 AT1G07900.1 63.889 108 37 1 5 112 32 137 1.14e-47 152
MsaG013281 AT1G31320.1 60.870 115 45 0 5 119 12 126 4.04e-43 140
MsaG013281 AT1G16530.1 59.813 107 42 1 5 110 13 119 1.21e-42 139
MsaG013281 AT3G27650.1 61.165 103 40 0 4 106 37 139 1.31e-40 134
MsaG013281 AT5G63090.4 62.264 106 39 1 4 108 9 114 1.42e-40 134
MsaG013281 AT5G63090.3 62.264 106 39 1 4 108 9 114 1.42e-40 134
MsaG013281 AT5G63090.2 62.264 106 39 1 4 108 9 114 1.42e-40 134
MsaG013281 AT5G63090.1 62.264 106 39 1 4 108 9 114 1.42e-40 134
MsaG013281 AT3G26620.1 48.800 125 55 1 7 131 6 121 3.18e-39 129
MsaG013281 AT2G23660.2 52.542 118 53 2 4 120 3 118 7.96e-39 133
MsaG013281 AT2G23660.3 52.542 118 53 2 4 120 3 118 7.96e-39 133
MsaG013281 AT2G23660.1 52.542 118 53 2 4 120 3 118 7.96e-39 133
MsaG013281 AT3G26660.1 56.000 100 44 0 7 106 6 105 1.10e-38 127
MsaG013281 AT2G30340.1 52.101 119 57 0 5 123 51 169 4.56e-38 130
MsaG013281 AT2G30340.2 52.101 119 57 0 5 123 52 170 4.77e-38 130
MsaG013281 AT3G11090.1 54.310 116 52 1 4 118 9 124 1.51e-37 126
MsaG013281 AT5G66870.1 52.459 122 57 1 2 122 3 124 3.62e-37 129
MsaG013281 AT1G65620.1 60.000 105 42 0 2 106 5 109 7.07e-36 123
MsaG013281 AT1G65620.4 60.000 105 42 0 2 106 5 109 7.07e-36 123
MsaG013281 AT1G65620.3 60.000 105 42 0 2 106 5 109 7.07e-36 123
MsaG013281 AT1G65620.5 60.000 105 42 0 2 106 5 109 7.07e-36 123
MsaG013281 AT1G65620.2 60.000 105 42 0 2 106 5 109 7.07e-36 123
MsaG013281 AT2G40470.2 58.036 112 46 1 5 116 19 129 1.44e-34 119
MsaG013281 AT2G40470.1 59.804 102 41 0 5 106 44 145 2.31e-34 119
MsaG013281 AT4G00210.1 48.031 127 55 3 1 121 1 122 8.30e-34 118
MsaG013281 AT2G42430.1 53.846 104 47 1 4 106 13 116 2.56e-33 117
MsaG013281 AT3G03760.1 52.427 103 48 1 5 106 50 152 3.34e-33 118
MsaG013281 AT3G50510.1 47.573 103 54 0 4 106 10 112 1.78e-31 111
MsaG013281 AT3G50510.2 47.573 103 54 0 4 106 10 112 1.78e-31 111
MsaG013281 AT2G42440.1 43.750 128 69 3 1 125 1 128 4.53e-31 112
MsaG013281 AT2G45410.1 44.444 126 66 2 9 130 19 144 5.68e-31 110
MsaG013281 AT2G31310.1 40.714 140 73 3 1 130 1 140 1.11e-29 106
MsaG013281 AT3G58190.1 49.495 99 49 1 6 103 11 109 1.24e-29 107
MsaG013281 AT5G06080.1 41.600 125 69 2 2 122 3 127 9.16e-28 101
MsaG013281 AT4G00220.1 48.077 104 53 1 9 111 20 123 3.80e-27 101
MsaG013281 AT2G45420.1 46.154 104 55 1 9 111 40 143 4.12e-27 102
MsaG013281 AT5G35900.1 41.748 103 60 0 7 109 6 108 9.73e-25 94.7
MsaG013281 AT3G13850.1 38.211 123 62 3 7 115 37 159 7.14e-24 93.6
MsaG013281 AT1G72980.1 40.196 102 61 0 5 106 12 113 3.14e-22 88.2
MsaG013281 AT3G47870.1 42.169 83 48 0 7 89 37 119 7.13e-19 81.3
MsaG013281 AT1G06280.1 44.156 77 43 0 7 83 25 101 6.29e-18 77.0
MsaG013281 AT2G19820.1 37.500 96 59 1 5 99 11 106 4.14e-17 72.8
MsaG013281 AT4G22700.1 41.758 91 51 2 7 96 6 95 8.90e-16 70.9
MsaG013281 AT5G15060.1 41.892 74 39 2 7 77 18 90 8.59e-13 62.0
MsaG013281 AT1G36000.1 28.261 92 66 0 1 92 4 95 2.90e-12 60.1

Find 21 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGAACTACGACAAACTTT+TGG 0.258263 3:+47321979 None:intergenic
AGATTGAGTGACCCAGTTTA+TGG 0.284882 3:-47318898 MsaT013281.1:CDS
AACAAGAAATATCATAATTA+AGG 0.293198 3:+47318701 None:intergenic
GGAGCAAAGATGCAATCTTT+TGG 0.343297 3:+47322023 None:intergenic
GCTCCAGCACAACCATAAAC+TGG 0.357617 3:+47318886 None:intergenic
CATATATCACTTGCAAAATC+AGG 0.363361 3:-47318863 MsaT013281.1:CDS
GCACCTTCCCTTTGCTGAAT+CGG 0.373246 3:+47318952 None:intergenic
AGGTATTGAGCGAGTTCATC+TGG 0.379557 3:+47318721 None:intergenic
CAACGTTGGCAGAATATTGC+AGG 0.427266 3:-47321940 MsaT013281.1:intron
GGTTCAAGAGAAGGAAAATA+AGG 0.429065 3:+47322002 None:intergenic
TCTTGGTTGAATTGTGGTGC+TGG 0.452174 3:+47318763 None:intergenic
GACCCAGTTTATGGTTGTGC+TGG 0.452179 3:-47318889 MsaT013281.1:CDS
TAAAGTAAGATGTGTGATCT+TGG 0.468213 3:+47318746 None:intergenic
GGATCTTCCGATTCAGCAAA+GGG 0.503129 3:-47318959 MsaT013281.1:CDS
TTGCTCGAGCAACTGCAAGT+TGG 0.520454 3:+47318824 None:intergenic
CTCCAGCACAACCATAAACT+GGG 0.573541 3:+47318887 None:intergenic
GTGTGATCTTGGTTGAATTG+TGG 0.577677 3:+47318757 None:intergenic
AGGATCTTCCGATTCAGCAA+AGG 0.581668 3:-47318960 MsaT013281.1:CDS
AAAGTTTGTCGTAGTTCACA+AGG 0.596548 3:-47321976 MsaT013281.1:CDS
AGAATCTTGCATGAAGCACA+TGG 0.616501 3:+47322059 None:intergenic
CTTCCGATTCAGCAAAGGGA+AGG 0.633097 3:-47318955 MsaT013281.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 47318699 47322096 47318699 ID=MsaG013281
Chr3 mRNA 47318699 47322096 47318699 ID=MsaT013281.1;Parent=MsaG013281
Chr3 exon 47318699 47318980 47318699 ID=MsaT013281.1.exon2;Parent=MsaT013281.1
Chr3 CDS 47318699 47318980 47318699 ID=cds.MsaT013281.1;Parent=MsaT013281.1
Chr3 exon 47321941 47322096 47321941 ID=MsaT013281.1.exon1;Parent=MsaT013281.1
Chr3 CDS 47321941 47322096 47321941 ID=cds.MsaT013281.1;Parent=MsaT013281.1
Gene Sequence

>MsaT013281.1

ATGAGTGGAAATTCACCATGTGCTTCATGCAAGATTCTGAGACGCAGATGCCCAAAAGATTGCATCTTTGCTCCTTATTTTCCTTCTCTTGAACCCCAAAAGTTTGTCGTAGTTCACAAGGTTTTTGGCGCTAGCAACGTTGGCAGAATATTGCAGGATCTTCCGATTCAGCAAAGGGAAGGTGCAGTGAGCAGTTTAGTGTATGAAGCAAATGCAAGATTGAGTGACCCAGTTTATGGTTGTGCTGGAGCCATATATCACTTGCAAAATCAGGTTAGTGAGCTTCAAATCCAACTTGCAGTTGCTCGAGCAAAGATACACTACATCAAAATGCAAAATGAGCAAGTGATTCCAGCACCACAATTCAACCAAGATCACACATCTTACTTTATTCCAGATGAACTCGCTCAATACCTTAATTATGATATTTCTTGTTGA
Protein sequence

>MsaT013281.1

MSGNSPCASCKILRRRCPKDCIFAPYFPSLEPQKFVVVHKVFGASNVGRILQDLPIQQREGAVSSLVYEANARLSDPVYGCAGAIYHLQNQVSELQIQLAVARAKIHYIKMQNEQVIPAPQFNQDHTSYFIPDELAQYLNYDISC*