AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015211

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015211 MtrunA17_Chr3g0115431 96.059 203 4 1 1 203 1 199 1.23e-143 399
MsaG015211 MtrunA17_Chr5g0402611 77.236 123 28 0 2 124 1 123 2.37e-67 209
MsaG015211 MtrunA17_Chr3g0097221 74.576 118 28 2 2 118 1 117 6.68e-57 181
MsaG015211 MtrunA17_Chr4g0058651 66.957 115 38 0 8 122 10 124 1.51e-50 162
MsaG015211 MtrunA17_Chr7g0227511 66.667 111 37 0 3 113 5 115 1.10e-49 159
MsaG015211 MtrunA17_Chr3g0117121 55.944 143 60 1 3 145 4 143 6.08e-49 158
MsaG015211 MtrunA17_Chr6g0449641 66.972 109 36 0 1 109 1 109 7.37e-49 156
MsaG015211 MtrunA17_Chr6g0449651 63.393 112 41 0 1 112 59 170 1.11e-47 155
MsaG015211 MtrunA17_Chr5g0437571 57.480 127 52 2 7 131 4 130 3.06e-47 152
MsaG015211 MtrunA17_Chr3g0114061 61.111 108 42 0 2 109 1 108 8.21e-46 149
MsaG015211 MtrunA17_Chr3g0106101 60.577 104 41 0 6 109 4 107 6.33e-45 147
MsaG015211 MtrunA17_Chr8g0353981 58.394 137 54 2 2 138 1 134 1.76e-44 147
MsaG015211 MtrunA17_Chr2g0311601 61.765 102 39 0 8 109 12 113 2.39e-43 142
MsaG015211 MtrunA17_Chr5g0438091 60.377 106 42 0 7 112 37 142 3.20e-43 143
MsaG015211 MtrunA17_Chr4g0043421 60.784 102 40 0 7 108 13 114 6.51e-43 142
MsaG015211 MtrunA17_Chr3g0129071 60.000 105 42 0 8 112 46 150 7.93e-42 141
MsaG015211 MtrunA17_Chr3g0113891 62.745 102 38 0 6 107 11 112 3.62e-41 137
MsaG015211 MtrunA17_Chr8g0374601 56.364 110 48 0 9 118 26 135 1.05e-40 139
MsaG015211 MtrunA17_Chr5g0437401 60.952 105 41 0 6 110 8 112 2.32e-40 135
MsaG015211 MtrunA17_Chr8g0374591 53.636 110 51 0 9 118 8 117 1.07e-39 132
MsaG015211 MtrunA17_Chr1g0200201 57.426 101 43 0 10 110 73 173 2.86e-39 134
MsaG015211 MtrunA17_Chr4g0030001 56.311 103 44 1 8 109 23 125 4.06e-39 132
MsaG015211 MtrunA17_Chr5g0432451 54.918 122 47 1 8 121 42 163 3.89e-38 131
MsaG015211 MtrunA17_Chr8g0374581 53.153 111 51 1 9 118 8 118 7.24e-36 125
MsaG015211 MtrunA17_Chr7g0260971 55.046 109 48 1 3 110 8 116 9.23e-35 122
MsaG015211 MtrunA17_Chr7g0225111 47.619 105 55 0 8 112 4 108 1.24e-34 119
MsaG015211 MtrunA17_Chr8g0351701 55.660 106 46 1 8 112 22 127 1.55e-34 122
MsaG015211 MtrunA17_Chr8g0351721 55.140 107 47 1 6 111 15 121 3.56e-33 118
MsaG015211 MtrunA17_Chr1g0184271 42.405 158 73 4 9 152 12 165 4.27e-33 118
MsaG015211 MtrunA17_Chr7g0245871 53.922 102 46 1 9 109 27 128 4.35e-33 119
MsaG015211 MtrunA17_Chr5g0444351 46.602 103 55 0 10 112 6 108 1.16e-32 115
MsaG015211 MtrunA17_Chr1g0184281 54.455 101 45 1 9 108 15 115 1.30e-32 116
MsaG015211 MtrunA17_Chr6g0460951 50.485 103 50 1 8 109 39 141 1.47e-31 114
MsaG015211 MtrunA17_Chr7g0261031 49.091 110 55 1 2 110 1 110 4.54e-31 113
MsaG015211 MtrunA17_Chr5g0435641 46.667 105 55 1 7 110 5 109 4.12e-30 109
MsaG015211 MtrunA17_Chr6g0452661 36.757 185 97 6 10 189 10 179 5.09e-30 111
MsaG015211 MtrunA17_Chr6g0452671 46.000 100 54 0 7 106 9 108 2.90e-28 105
MsaG015211 MtrunA17_Chr7g0245861 43.411 129 70 2 6 131 9 137 3.81e-27 100
MsaG015211 MtrunA17_Chr6g0452691 46.078 102 54 1 10 110 10 111 6.95e-27 101
MsaG015211 MtrunA17_Chr4g0059901 45.000 100 55 0 10 109 11 110 1.45e-26 102
MsaG015211 MtrunA17_Chr6g0460941 48.352 91 46 1 7 96 5 95 1.32e-25 95.1
MsaG015211 MtrunA17_Chr4g0055441 40.476 126 70 3 10 134 3 124 2.55e-25 96.3
MsaG015211 MtrunA17_Chr8g0342351 38.835 103 63 0 10 112 13 115 1.15e-24 97.4
MsaG015211 MtrunA17_Chr4g0040831 45.161 93 51 0 10 102 16 108 1.78e-23 92.8
MsaG015211 MtrunA17_Chr5g0439111 42.157 102 58 1 10 110 10 111 5.37e-22 89.7
MsaG015211 MtrunA17_Chr2g0330201 36.275 102 65 0 10 111 20 121 1.97e-21 89.4
MsaG015211 MtrunA17_Chr4g0046201 37.778 90 56 0 6 95 3 92 6.79e-20 84.7
MsaG015211 MtrunA17_Chr2g0326041 64.000 50 18 0 8 57 32 81 3.06e-19 78.6
MsaG015211 MtrunA17_Chr2g0326051 57.143 56 24 0 54 109 5 60 1.97e-15 69.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015211 AT5G66870.1 78.070 114 25 0 7 120 5 118 9.65e-62 195
MsaG015211 AT2G23660.2 66.379 116 39 0 7 122 3 118 8.45e-56 179
MsaG015211 AT2G23660.3 66.379 116 39 0 7 122 3 118 8.45e-56 179
MsaG015211 AT2G23660.1 66.379 116 39 0 7 122 3 118 8.45e-56 179
MsaG015211 AT5G63090.4 69.298 114 33 1 1 112 1 114 4.82e-51 163
MsaG015211 AT5G63090.3 69.298 114 33 1 1 112 1 114 4.82e-51 163
MsaG015211 AT5G63090.2 69.298 114 33 1 1 112 1 114 4.82e-51 163
MsaG015211 AT5G63090.1 69.298 114 33 1 1 112 1 114 4.82e-51 163
MsaG015211 AT3G27650.1 64.602 113 40 0 2 114 32 144 5.52e-49 157
MsaG015211 AT1G65620.1 66.942 121 40 0 1 121 1 121 5.82e-48 156
MsaG015211 AT1G65620.4 66.942 121 40 0 1 121 1 121 5.82e-48 156
MsaG015211 AT1G65620.3 66.942 121 40 0 1 121 1 121 5.82e-48 156
MsaG015211 AT1G65620.5 66.942 121 40 0 1 121 1 121 5.82e-48 156
MsaG015211 AT1G65620.2 66.942 121 40 0 1 121 1 121 5.82e-48 156
MsaG015211 AT2G30130.1 62.963 108 40 0 2 109 1 108 1.04e-47 155
MsaG015211 AT1G07900.1 60.784 102 40 0 8 109 32 133 1.75e-43 144
MsaG015211 AT2G28500.1 46.452 155 78 2 8 162 54 203 1.14e-42 143
MsaG015211 AT2G30340.1 59.804 102 41 0 8 109 51 152 6.07e-41 140
MsaG015211 AT2G30340.2 59.804 102 41 0 8 109 52 153 6.93e-41 140
MsaG015211 AT1G16530.1 59.223 103 41 1 8 109 13 115 2.71e-40 135
MsaG015211 AT3G11090.1 57.798 109 46 0 6 114 8 116 3.23e-40 135
MsaG015211 AT1G31320.1 62.921 89 33 0 7 95 11 99 7.71e-39 132
MsaG015211 AT4G00210.1 51.880 133 59 2 7 138 9 137 8.47e-38 130
MsaG015211 AT2G40470.2 60.000 105 42 0 8 112 19 123 1.05e-37 129
MsaG015211 AT2G40470.1 60.000 105 42 0 8 112 44 148 1.96e-37 130
MsaG015211 AT3G26660.1 50.000 106 53 0 6 111 2 107 3.08e-37 126
MsaG015211 AT3G26620.1 50.000 106 53 0 6 111 2 107 3.39e-37 126
MsaG015211 AT3G50510.1 49.580 119 59 1 7 124 10 128 1.44e-36 127
MsaG015211 AT3G50510.2 49.580 119 59 1 7 124 10 128 1.44e-36 127
MsaG015211 AT5G35900.1 50.459 109 54 0 6 114 2 110 4.57e-36 125
MsaG015211 AT3G03760.1 54.369 103 46 1 8 109 50 152 2.02e-34 123
MsaG015211 AT3G58190.1 44.286 140 73 3 9 146 11 147 2.30e-34 122
MsaG015211 AT4G00220.1 56.436 101 43 1 12 111 20 120 1.72e-32 117
MsaG015211 AT2G42430.1 52.336 107 50 1 7 112 13 119 7.16e-32 116
MsaG015211 AT2G45420.1 53.465 101 46 1 12 111 40 140 2.30e-30 112
MsaG015211 AT2G42440.1 47.573 103 53 1 7 108 5 107 7.60e-30 110
MsaG015211 AT2G45410.1 53.465 101 46 1 12 111 19 119 1.78e-29 108
MsaG015211 AT2G31310.1 46.602 103 54 1 7 108 5 107 1.00e-28 106
MsaG015211 AT5G06080.1 44.444 108 59 1 6 112 4 111 3.13e-27 102
MsaG015211 AT1G72980.1 43.925 107 60 0 3 109 7 113 5.70e-27 102
MsaG015211 AT3G13850.1 39.806 103 62 0 10 112 37 139 1.15e-26 103
MsaG015211 AT3G47870.1 40.566 106 63 0 7 112 34 139 2.99e-26 103
MsaG015211 AT4G22700.1 38.194 144 78 5 7 140 3 145 8.90e-24 93.6
MsaG015211 AT1G06280.1 45.977 87 47 0 10 96 25 111 1.52e-20 85.5
MsaG015211 AT2G19820.1 34.021 97 63 1 8 103 11 107 4.24e-16 72.0
MsaG015211 AT3G27940.3 30.769 130 88 1 6 133 2 131 2.41e-14 67.8
MsaG015211 AT3G27940.1 30.769 130 88 1 6 133 2 131 2.41e-14 67.8
MsaG015211 AT3G27940.2 30.769 130 88 1 6 133 2 131 2.41e-14 67.8
MsaG015211 AT5G15060.1 41.096 73 41 1 10 80 18 90 1.29e-12 63.2

Find 23 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTTTGAGAGATCCTGTTTA+TGG 0.254736 3:-83941111 MsaT015211.1:CDS
ACCATTAACTGATTCTGAAA+AGG 0.386367 3:+83940853 None:intergenic
ACCTACGTTCACAAAGTGTT+TGG 0.430629 3:-83941222 MsaT015211.1:CDS
CCATTAACTGATTCTGAAAA+GGG 0.443959 3:+83940854 None:intergenic
AGACCAACACAACCATAAAC+AGG 0.459225 3:+83941099 None:intergenic
AAAGAACTTGCTACTTATGT+TGG 0.467080 3:-83941018 MsaT015211.1:CDS
TTTGTCAAAGAAGGTGTTCA+AGG 0.477381 3:-83940776 MsaT015211.1:CDS
GATCCTGTTTATGGTTGTGT+TGG 0.503197 3:-83941102 MsaT015211.1:CDS
GAAGGTGTTCAAGGCAGAAA+GGG 0.510547 3:-83940767 MsaT015211.1:CDS
AGAAGGTGTTCAAGGCAGAA+AGG 0.524281 3:-83940768 MsaT015211.1:CDS
TGAATCTTGCACGCTGCACA+CGG 0.560567 3:+83941312 None:intergenic
GAACTCGACGTCGCCGTCAT+CGG 0.563338 3:+83940973 None:intergenic
AGAAAGGGACAACCTTGGAG+AGG 0.582482 3:-83940752 MsaT015211.1:CDS
AAGGCAGAAAGGGACAACCT+TGG 0.600174 3:-83940757 MsaT015211.1:CDS
GAAAGGGACAACCTTGGAGA+GGG 0.609665 3:-83940751 MsaT015211.1:intron
CATGCTTCCTACACCGATGA+CGG 0.624741 3:-83940986 MsaT015211.1:CDS
GACGTCGCCGTCATCGGTGT+AGG 0.634925 3:+83940979 None:intergenic
CAGTGATCATACCCTCTCCA+AGG 0.636121 3:+83940740 None:intergenic
GGTGTAGGAAGCATGATCTG+AGG 0.695632 3:+83940994 None:intergenic
CGTGGCAAAGTTACTCAACG+AGG 0.719799 3:-83941190 MsaT015211.1:CDS
TCAGCGTCGAAAATGCACAA+AGG 0.734134 3:-83941292 MsaT015211.1:CDS
AGTGTTTGGTGCTAGCAACG+TGG 0.743523 3:-83941208 MsaT015211.1:CDS
ACCAAACACTTTGTGAACGT+AGG 0.770701 3:+83941221 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 83940662 83941358 83940662 ID=MsaG015211
Chr3 mRNA 83940662 83941358 83940662 ID=MsaT015211.1;Parent=MsaG015211
Chr3 exon 83940662 83940669 83940662 ID=MsaT015211.1.exon2;Parent=MsaT015211.1
Chr3 CDS 83940662 83940669 83940662 ID=cds.MsaT015211.1;Parent=MsaT015211.1
Chr3 exon 83940752 83941358 83940752 ID=MsaT015211.1.exon1;Parent=MsaT015211.1
Chr3 CDS 83940752 83941358 83940752 ID=cds.MsaT015211.1;Parent=MsaT015211.1
Gene Sequence

>MsaT015211.1

ATGATGTCGTCGTGTAATTCTTCTCCGTGTGCAGCGTGCAAGATTCAGCGTCGAAAATGCACAAAGGAATGCATTTTTGCACCCTATTTTCCGCCGGAAAATCCTCAAAAGTTTACCTACGTTCACAAAGTGTTTGGTGCTAGCAACGTGGCAAAGTTACTCAACGAGGTTGATGCTTCTCAGCGTGAAGATGCTGTTAAGTCTTTAGCTTATGAAGCAGAAGCGCGTTTGAGAGATCCTGTTTATGGTTGTGTTGGTCTTATTTCACATCTTCAGAATAAGCTTAAGAATTTGCAGAATGAACTTAATGTTGCTAAGAAAGAACTTGCTACTTATGTTGGTCCTCAGATCATGCTTCCTACACCGATGACGGCGACGTCGAGTTCTTATTTTTCTGTGACTACTTCTTCTGTTCATCAACAGCGTCAAGAGTTTTTCACTTTCAATGCTGAAAACTCGTTTTCTAACAACTTTCAGATGAACCCTTTTCAGAATCAGTTAATGGTTTCATCATCATCATCATCATCACAGGCACAATCATCACAACCCATCGACGCATTTTTGTCAAAGAAGGTGTTCAAGGCAGAAAGGGACAACCTTGGAGAGGGTTTTTAG
Protein sequence

>MsaT015211.1

MMSSCNSSPCAACKIQRRKCTKECIFAPYFPPENPQKFTYVHKVFGASNVAKLLNEVDASQREDAVKSLAYEAEARLRDPVYGCVGLISHLQNKLKNLQNELNVAKKELATYVGPQIMLPTPMTATSSSYFSVTTSSVHQQRQEFFTFNAENSFSNNFQMNPFQNQLMVSSSSSSSQAQSSQPIDAFLSKKVFKAERDNLGEGF*