AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010576

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010576 MtrunA17_Chr4g0030001 73.913 184 42 4 17 198 11 190 1.41e-95 276
MsaG010576 MtrunA17_Chr2g0326051 94.400 125 7 0 74 198 1 125 4.34e-84 244
MsaG010576 MtrunA17_Chr1g0200201 72.121 165 38 4 34 198 73 229 5.43e-78 233
MsaG010576 MtrunA17_Chr2g0311601 69.912 113 34 0 28 140 8 120 1.98e-57 178
MsaG010576 MtrunA17_Chr2g0326041 98.734 79 1 0 1 79 1 79 7.24e-53 164
MsaG010576 MtrunA17_Chr4g0043421 64.035 114 41 0 28 141 10 123 1.42e-52 166
MsaG010576 MtrunA17_Chr5g0437571 63.717 113 41 0 32 144 5 117 2.46e-51 163
MsaG010576 MtrunA17_Chr3g0114061 63.964 111 40 0 32 142 7 117 5.23e-51 162
MsaG010576 MtrunA17_Chr3g0106101 62.385 109 41 0 32 140 6 114 4.07e-49 157
MsaG010576 MtrunA17_Chr5g0438091 56.637 113 49 0 32 144 38 150 2.18e-44 146
MsaG010576 MtrunA17_Chr6g0449641 54.098 122 56 0 25 146 1 122 3.39e-44 144
MsaG010576 MtrunA17_Chr3g0117121 59.048 105 43 0 32 136 9 113 7.26e-43 142
MsaG010576 MtrunA17_Chr4g0058651 57.944 107 45 0 32 138 10 116 1.27e-42 141
MsaG010576 MtrunA17_Chr3g0129071 55.357 112 50 0 30 141 44 155 2.20e-42 142
MsaG010576 MtrunA17_Chr3g0115431 59.804 102 41 0 32 133 8 109 7.59e-42 140
MsaG010576 MtrunA17_Chr7g0227511 60.194 103 41 0 32 134 10 112 1.07e-41 138
MsaG010576 MtrunA17_Chr6g0449651 52.459 122 58 0 25 146 59 180 1.39e-41 139
MsaG010576 MtrunA17_Chr5g0432451 58.929 112 46 0 30 141 40 151 5.04e-40 136
MsaG010576 MtrunA17_Chr5g0402611 56.863 102 44 0 32 133 7 108 1.07e-38 135
MsaG010576 MtrunA17_Chr3g0097221 53.271 107 50 0 32 138 6 112 2.64e-37 130
MsaG010576 MtrunA17_Chr3g0113891 58.333 96 40 0 32 127 13 108 3.57e-36 125
MsaG010576 MtrunA17_Chr5g0437401 55.882 102 45 0 32 133 10 111 7.54e-36 124
MsaG010576 MtrunA17_Chr8g0353981 61.728 81 31 0 32 112 6 86 1.78e-34 122
MsaG010576 MtrunA17_Chr6g0460951 41.060 151 78 3 30 175 37 181 4.18e-34 120
MsaG010576 MtrunA17_Chr7g0225111 44.144 111 62 0 29 139 1 111 6.45e-34 117
MsaG010576 MtrunA17_Chr7g0260971 53.398 103 47 1 32 133 13 115 2.00e-33 119
MsaG010576 MtrunA17_Chr8g0351721 51.402 107 51 1 32 137 17 123 8.73e-33 117
MsaG010576 MtrunA17_Chr1g0184281 50.909 110 53 1 26 134 8 117 2.26e-32 115
MsaG010576 MtrunA17_Chr7g0245871 50.000 102 50 1 33 133 27 128 5.04e-32 115
MsaG010576 MtrunA17_Chr8g0374601 49.038 104 53 0 30 133 23 126 5.59e-32 116
MsaG010576 MtrunA17_Chr8g0374591 44.262 122 65 1 30 148 5 126 6.95e-32 112
MsaG010576 MtrunA17_Chr8g0351701 48.148 108 55 1 32 138 22 129 1.61e-31 114
MsaG010576 MtrunA17_Chr5g0444351 38.298 141 77 2 29 159 1 141 1.73e-31 111
MsaG010576 MtrunA17_Chr1g0184271 51.961 102 46 2 33 131 12 113 5.71e-30 110
MsaG010576 MtrunA17_Chr7g0261031 51.546 97 46 1 32 127 7 103 9.32e-30 109
MsaG010576 MtrunA17_Chr5g0435641 48.958 96 48 1 32 126 6 101 4.61e-28 104
MsaG010576 MtrunA17_Chr8g0374581 47.170 106 55 1 30 134 5 110 2.37e-27 103
MsaG010576 MtrunA17_Chr6g0452691 33.133 166 94 4 34 194 10 163 6.79e-27 101
MsaG010576 MtrunA17_Chr6g0452661 42.857 119 63 2 34 147 10 128 2.40e-26 101
MsaG010576 MtrunA17_Chr6g0460941 45.455 88 47 1 33 119 7 94 1.79e-25 94.7
MsaG010576 MtrunA17_Chr4g0059901 45.161 93 51 0 34 126 11 103 2.88e-25 99.0
MsaG010576 MtrunA17_Chr7g0245861 39.496 119 69 2 32 147 11 129 5.25e-24 92.4
MsaG010576 MtrunA17_Chr4g0040831 37.838 111 66 1 30 137 12 122 4.13e-23 91.7
MsaG010576 MtrunA17_Chr6g0452671 48.101 79 41 0 34 112 12 90 1.32e-22 90.5
MsaG010576 MtrunA17_Chr4g0055441 44.211 95 48 2 34 123 3 97 5.75e-22 87.4
MsaG010576 MtrunA17_Chr2g0330201 38.000 100 62 0 34 133 20 119 3.24e-21 88.6
MsaG010576 MtrunA17_Chr8g0342351 39.048 105 59 1 34 138 13 112 2.39e-20 85.9
MsaG010576 MtrunA17_Chr5g0439111 46.250 80 42 1 34 112 10 89 3.59e-18 79.3
MsaG010576 MtrunA17_Chr4g0046201 32.955 88 59 0 32 119 5 92 2.91e-14 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010576 AT2G28500.1 66.667 186 42 4 29 198 51 232 3.96e-80 238
MsaG010576 AT1G07900.1 61.194 201 63 3 1 198 1 189 4.55e-79 234
MsaG010576 AT2G30130.1 65.741 108 37 0 32 139 7 114 7.97e-51 162
MsaG010576 AT1G31320.1 66.667 114 38 0 28 141 8 121 1.76e-46 151
MsaG010576 AT1G16530.1 61.111 108 41 1 31 137 12 119 1.16e-44 146
MsaG010576 AT5G63090.4 58.182 110 46 0 32 141 10 119 4.90e-44 145
MsaG010576 AT5G63090.3 58.182 110 46 0 32 141 10 119 4.90e-44 145
MsaG010576 AT5G63090.2 58.182 110 46 0 32 141 10 119 4.90e-44 145
MsaG010576 AT5G63090.1 58.182 110 46 0 32 141 10 119 4.90e-44 145
MsaG010576 AT2G30340.2 50.820 122 60 0 23 144 43 164 5.74e-43 145
MsaG010576 AT2G30340.1 50.820 122 60 0 23 144 42 163 6.37e-43 145
MsaG010576 AT3G27650.1 60.194 103 41 0 32 134 38 140 2.42e-42 140
MsaG010576 AT2G23660.2 56.731 104 45 0 32 135 4 107 3.01e-41 142
MsaG010576 AT2G23660.3 56.731 104 45 0 32 135 4 107 3.01e-41 142
MsaG010576 AT2G23660.1 56.731 104 45 0 32 135 4 107 3.01e-41 142
MsaG010576 AT2G40470.2 57.265 117 49 1 31 147 18 133 7.78e-39 132
MsaG010576 AT3G26660.1 52.778 108 51 0 34 141 6 113 1.40e-38 129
MsaG010576 AT5G66870.1 56.863 102 44 0 32 133 6 107 1.40e-38 135
MsaG010576 AT2G40470.1 57.265 117 49 1 31 147 43 158 1.41e-38 132
MsaG010576 AT3G26620.1 52.778 108 51 0 34 141 6 113 1.68e-38 129
MsaG010576 AT1G65620.1 56.637 113 49 0 25 137 1 113 3.83e-36 125
MsaG010576 AT1G65620.4 56.637 113 49 0 25 137 1 113 3.83e-36 125
MsaG010576 AT1G65620.3 56.637 113 49 0 25 137 1 113 3.83e-36 125
MsaG010576 AT1G65620.5 56.637 113 49 0 25 137 1 113 3.83e-36 125
MsaG010576 AT1G65620.2 56.637 113 49 0 25 137 1 113 3.83e-36 125
MsaG010576 AT4G00210.1 56.075 107 46 1 32 137 10 116 4.36e-36 126
MsaG010576 AT3G11090.1 52.427 103 49 0 32 134 10 112 1.90e-35 122
MsaG010576 AT3G03760.1 48.214 112 57 1 32 142 50 161 6.14e-34 122
MsaG010576 AT3G58190.1 42.208 154 74 5 33 184 11 151 1.12e-31 114
MsaG010576 AT4G00220.1 49.038 104 52 1 36 138 20 123 6.60e-31 113
MsaG010576 AT2G31310.1 52.577 97 45 1 32 127 6 102 9.12e-31 111
MsaG010576 AT2G45410.1 53.398 103 47 1 36 137 19 121 1.05e-30 111
MsaG010576 AT2G42430.1 47.664 107 55 1 32 137 14 120 2.05e-30 112
MsaG010576 AT2G45420.1 50.000 104 51 1 36 138 40 143 3.63e-30 112
MsaG010576 AT2G42440.1 49.550 111 50 2 32 141 6 111 4.49e-29 108
MsaG010576 AT5G06080.1 43.750 112 62 1 32 142 6 117 2.27e-27 102
MsaG010576 AT3G50510.1 44.231 104 58 0 30 133 9 112 5.06e-27 102
MsaG010576 AT3G50510.2 44.231 104 58 0 30 133 9 112 5.06e-27 102
MsaG010576 AT3G47870.1 41.667 108 58 1 32 139 35 137 5.21e-25 99.8
MsaG010576 AT5G35900.1 42.000 100 58 0 34 133 6 105 6.16e-25 97.1
MsaG010576 AT1G72980.1 44.211 95 53 0 32 126 12 106 1.67e-24 95.9
MsaG010576 AT3G13850.1 40.000 105 58 1 34 138 37 136 3.29e-22 91.3
MsaG010576 AT1G06280.1 40.260 77 46 0 34 110 25 101 4.70e-17 76.3
MsaG010576 AT2G19820.1 38.043 92 56 1 29 119 8 99 1.77e-16 72.8
MsaG010576 AT4G22700.1 38.235 102 59 3 34 133 6 105 1.31e-15 72.0
MsaG010576 AT1G36000.1 32.353 102 69 0 25 126 1 102 2.06e-12 62.0
MsaG010576 AT5G15060.1 41.892 74 39 2 34 104 18 90 2.56e-11 59.3

Find 40 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGCTCATTGACTTGCTTT+TGG 0.237207 2:-75127456 None:intergenic
ACCACTGCTCATCGTGTATT+TGG 0.246441 2:+75125212 MsaT010576.1:CDS
GAGGCTCCCACAATGAATTT+TGG 0.257844 2:-75127675 None:intergenic
ATTCATTGTGGGAGCCTCTT+TGG 0.264450 2:+75127680 MsaT010576.1:CDS
ACGATGAGCAGTGGTAAATT+TGG 0.308489 2:-75125204 None:intergenic
GGTTCAGTGGGAGGGAAATA+AGG 0.330275 2:-75125179 None:intergenic
CAACATCATCAAGTTCTTAC+AGG 0.365225 2:+75125241 MsaT010576.1:CDS
GATGTTGGAGATTGAGAAAA+TGG 0.370101 2:-75125062 None:intergenic
AGAATAAGAGACCCTGTATA+TGG 0.385791 2:+75127409 MsaT010576.1:CDS
GATTGTTGTGGAGATTCATT+TGG 0.432048 2:-75127574 None:intergenic
GGTAAATTTGGAAGGTTCAG+TGG 0.438516 2:-75125192 None:intergenic
ATGTGCTGAGAAATGTGTTT+TGG 0.444237 2:+75125154 MsaT010576.1:CDS
GCACCTGCACATCCATATAC+AGG 0.450577 2:-75127421 None:intergenic
AGTTAGTAGCATGGTTTATG+AGG 0.452667 2:+75127378 MsaT010576.1:CDS
GCAAATCAAAGCTAGGAGAT+TGG 0.453679 2:-75127533 None:intergenic
AACATCTTCACAACCACCTA+TGG 0.461696 2:+75125079 MsaT010576.1:CDS
TAAGAACTTGATGATGTTGC+TGG 0.462784 2:-75125237 None:intergenic
TCTCCTAGCTTTGATTTGCA+TGG 0.470568 2:+75127537 MsaT010576.1:CDS
GCATCAGCTCTTTGAGACTC+TGG 0.485917 2:-75127355 None:intergenic
ATTTGGAAGGTTCAGTGGGA+GGG 0.499239 2:-75125187 None:intergenic
TGATAATCACTGCTGTAGGC+AGG 0.499915 2:-75127619 None:intergenic
CACTAGCCAAAATTCATTGT+GGG 0.528888 2:+75127669 MsaT010576.1:CDS
TTTCCATGCAAATCAAAGCT+AGG 0.531294 2:-75127540 None:intergenic
AATAAGCTCAGCTTGTGACT+TGG 0.544522 2:-75127491 None:intergenic
AATTTGGAAGGTTCAGTGGG+AGG 0.549947 2:-75125188 None:intergenic
GCTCAACTTCATGTCCAAAG+AGG 0.560755 2:-75127694 None:intergenic
GTAAATTTGGAAGGTTCAGT+GGG 0.562077 2:-75125191 None:intergenic
GACCCTGTATATGGATGTGC+AGG 0.562336 2:+75127418 MsaT010576.1:CDS
AGCTGATGCAGTTAGTAGCA+TGG 0.566903 2:+75127369 MsaT010576.1:CDS
TGAGCAGTGGTAAATTTGGA+AGG 0.588814 2:-75125200 None:intergenic
TGAATCTCCACAACAATCAG+TGG 0.592712 2:+75127579 MsaT010576.1:CDS
AAAATCTTGCAAGCAGCACA+AGG 0.592933 2:-75125122 None:intergenic
CAAGGACTCATGACAACTTG+AGG 0.595290 2:-75125104 None:intergenic
ATGACAACTTGAGGAGCCAT+AGG 0.596176 2:-75125095 None:intergenic
ACCAAATACACGATGAGCAG+TGG 0.596399 2:-75125213 None:intergenic
CACCTGCACATCCATATACA+GGG 0.624861 2:-75127420 None:intergenic
ACACTAGCCAAAATTCATTG+TGG 0.631207 2:+75127668 MsaT010576.1:CDS
ATAGGTGGTTGTGAAGATGT+TGG 0.643738 2:-75125077 None:intergenic
AAATTGTCCACTGATTGTTG+TGG 0.665010 2:-75127586 None:intergenic
ACAACTTGAGGAGCCATAGG+TGG 0.673868 2:-75125092 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 75125026 75127708 75125026 ID=MsaG010576
Chr2 mRNA 75125026 75127708 75125026 ID=MsaT010576.1;Parent=MsaG010576
Chr2 exon 75125026 75125262 75125026 ID=MsaT010576.1.exon1;Parent=MsaT010576.1
Chr2 CDS 75125026 75125262 75125026 ID=cds.MsaT010576.1;Parent=MsaT010576.1
Chr2 exon 75127349 75127708 75127349 ID=MsaT010576.1.exon2;Parent=MsaT010576.1
Chr2 CDS 75127349 75127708 75127349 ID=cds.MsaT010576.1;Parent=MsaT010576.1
Gene Sequence

>MsaT010576.1

ATGGAGAATGACACAAACACTCGAATTTCTTCTCTTCCATTTTCTCAATCTCCAACATCTTCACAACCACCTATGGCTCCTCAAGTTGTCATGAGTCCTTGTGCTGCTTGCAAGATTTTAAGAAGAAGATGTGCTGAGAAATGTGTTTTGGCACCTTATTTCCCTCCCACTGAACCTTCCAAATTTACCACTGCTCATCGTGTATTTGGTGCCAGCAACATCATCAAGTTCTTACAGGAACTTCCAGAGTCTCAAAGAGCTGATGCAGTTAGTAGCATGGTTTATGAGGCTAGTGCAAGAATAAGAGACCCTGTATATGGATGTGCAGGTGCAATTTGTCACCTCCAAAAGCAAGTCAATGAGCTTCAAGCACAACTAGCCAAGTCACAAGCTGAGCTTATTAACATGCAATTACAACAATCCAATCTCCTAGCTTTGATTTGCATGGAAATGAAAGAAACTCCAAATGAATCTCCACAACAATCAGTGGACAATTTCATTTCAAGTCCTGCCTACAGCAGTGATTATCAAAATAATCTCAACTTCTTTGACGACAACACTAGCCAAAATTCATTGTGGGAGCCTCTTTGGACATGA
Protein sequence

>MsaT010576.1

MENDTNTRISSLPFSQSPTSSQPPMAPQVVMSPCAACKILRRRCAEKCVLAPYFPPTEPSKFTTAHRVFGASNIIKFLQELPESQRADAVSSMVYEASARIRDPVYGCAGAICHLQKQVNELQAQLAKSQAELINMQLQQSNLLALICMEMKETPNESPQQSVDNFISSPAYSSDYQNNLNFFDDNTSQNSLWEPLWT*