AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009292

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009292 MtrunA17_Chr2g0311601 94.483 145 2 1 1 139 1 145 1.58e-98 281
MsaG009292 MtrunA17_Chr4g0043421 69.863 146 31 3 4 136 6 151 3.50e-68 204
MsaG009292 MtrunA17_Chr5g0437571 71.171 111 26 1 9 113 2 112 4.17e-52 163
MsaG009292 MtrunA17_Chr3g0106101 67.857 112 30 1 12 117 6 117 7.30e-51 160
MsaG009292 MtrunA17_Chr3g0114061 70.909 110 26 1 9 112 4 113 7.47e-51 160
MsaG009292 MtrunA17_Chr4g0030001 69.369 111 27 2 11 114 22 132 1.81e-49 157
MsaG009292 MtrunA17_Chr1g0200201 68.224 107 28 1 14 114 73 179 7.60e-46 149
MsaG009292 MtrunA17_Chr5g0438091 55.725 131 43 2 9 133 35 156 5.68e-44 144
MsaG009292 MtrunA17_Chr6g0449641 57.895 114 41 2 10 117 6 118 2.81e-43 140
MsaG009292 MtrunA17_Chr3g0117121 60.550 109 37 1 12 114 9 117 1.32e-42 140
MsaG009292 MtrunA17_Chr3g0129071 58.929 112 40 1 9 114 43 154 1.94e-42 141
MsaG009292 MtrunA17_Chr4g0058651 56.452 124 45 2 12 129 10 130 3.03e-42 139
MsaG009292 MtrunA17_Chr7g0227511 61.165 103 34 1 12 108 10 112 1.43e-41 137
MsaG009292 MtrunA17_Chr6g0449651 51.908 131 48 2 12 127 66 196 2.49e-41 137
MsaG009292 MtrunA17_Chr7g0260971 53.982 113 45 2 4 109 5 117 8.50e-39 131
MsaG009292 MtrunA17_Chr5g0432451 56.296 135 49 2 5 129 35 169 2.01e-38 130
MsaG009292 MtrunA17_Chr3g0115431 58.824 102 36 1 12 107 8 109 1.40e-37 128
MsaG009292 MtrunA17_Chr5g0402611 59.804 102 35 1 12 107 7 108 3.34e-37 130
MsaG009292 MtrunA17_Chr5g0437401 55.660 106 41 1 5 104 3 108 3.59e-36 123
MsaG009292 MtrunA17_Chr3g0113891 56.604 106 40 1 5 104 6 111 3.65e-36 123
MsaG009292 MtrunA17_Chr8g0351721 52.991 117 48 2 2 111 7 123 7.60e-35 121
MsaG009292 MtrunA17_Chr7g0225111 48.246 114 51 2 12 117 4 117 4.87e-34 116
MsaG009292 MtrunA17_Chr1g0184281 50.442 113 49 2 3 108 5 117 1.12e-33 117
MsaG009292 MtrunA17_Chr8g0353981 58.824 102 36 1 12 107 6 107 3.27e-33 117
MsaG009292 MtrunA17_Chr3g0097221 50.926 108 47 1 12 113 6 113 5.01e-33 118
MsaG009292 MtrunA17_Chr5g0444351 42.373 118 59 2 14 125 6 120 2.22e-31 110
MsaG009292 MtrunA17_Chr6g0460951 42.500 120 62 2 11 123 38 157 9.99e-31 110
MsaG009292 MtrunA17_Chr7g0245871 51.961 102 42 2 13 107 27 128 4.51e-30 109
MsaG009292 MtrunA17_Chr8g0351701 50.980 102 43 2 13 107 23 124 8.79e-30 108
MsaG009292 MtrunA17_Chr1g0184271 54.167 96 37 2 13 101 12 107 6.80e-29 106
MsaG009292 MtrunA17_Chr5g0435641 46.957 115 47 3 9 109 3 117 8.67e-29 105
MsaG009292 MtrunA17_Chr7g0261031 52.000 100 41 2 9 101 4 103 9.34e-29 105
MsaG009292 MtrunA17_Chr8g0374591 41.379 116 62 1 10 119 5 120 7.67e-26 95.5
MsaG009292 MtrunA17_Chr7g0245861 53.846 91 33 3 12 93 11 101 1.18e-25 95.5
MsaG009292 MtrunA17_Chr2g0326051 67.742 62 20 0 53 114 6 67 2.04e-25 94.4
MsaG009292 MtrunA17_Chr8g0374601 44.660 103 51 1 11 107 24 126 1.64e-24 95.9
MsaG009292 MtrunA17_Chr4g0059901 44.000 100 50 1 7 100 4 103 1.26e-23 93.6
MsaG009292 MtrunA17_Chr6g0452671 35.036 137 81 2 10 138 8 144 2.19e-23 91.3
MsaG009292 MtrunA17_Chr6g0452691 35.135 148 86 2 14 154 10 154 1.13e-22 89.0
MsaG009292 MtrunA17_Chr6g0460941 44.318 88 42 2 13 93 7 94 1.42e-22 86.3
MsaG009292 MtrunA17_Chr6g0452661 37.963 108 60 2 14 114 10 117 4.11e-22 89.0
MsaG009292 MtrunA17_Chr8g0374581 42.857 105 53 2 11 108 6 110 5.88e-21 85.5
MsaG009292 MtrunA17_Chr4g0055441 37.600 125 59 4 14 127 3 119 1.43e-20 82.8
MsaG009292 MtrunA17_Chr2g0330201 37.143 105 60 1 9 107 15 119 2.22e-20 85.5
MsaG009292 MtrunA17_Chr2g0326041 71.739 46 13 0 8 53 28 73 7.30e-20 79.0
MsaG009292 MtrunA17_Chr8g0342351 36.607 112 60 2 10 115 9 115 1.78e-19 82.4
MsaG009292 MtrunA17_Chr4g0040831 35.714 112 56 2 9 104 11 122 7.99e-19 79.3
MsaG009292 MtrunA17_Chr5g0439111 37.143 105 52 2 14 111 10 107 1.42e-16 73.9
MsaG009292 MtrunA17_Chr4g0046201 34.091 88 52 1 12 93 5 92 1.90e-13 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009292 AT1G31320.1 78.333 120 20 1 1 114 1 120 4.26e-58 179
MsaG009292 AT2G30130.1 69.492 118 28 2 12 121 7 124 1.37e-52 166
MsaG009292 AT1G16530.1 55.484 155 52 6 1 141 1 152 2.05e-52 164
MsaG009292 AT1G07900.1 63.964 111 34 1 10 114 30 140 1.46e-46 150
MsaG009292 AT2G28500.1 63.393 112 35 1 11 116 53 164 1.67e-45 149
MsaG009292 AT5G63090.4 63.551 107 33 1 12 112 10 116 5.43e-44 144
MsaG009292 AT5G63090.3 63.551 107 33 1 12 112 10 116 5.43e-44 144
MsaG009292 AT5G63090.2 63.551 107 33 1 12 112 10 116 5.43e-44 144
MsaG009292 AT5G63090.1 63.551 107 33 1 12 112 10 116 5.43e-44 144
MsaG009292 AT2G30340.2 53.782 119 49 1 5 117 45 163 2.94e-42 142
MsaG009292 AT2G30340.1 53.782 119 49 1 5 117 44 162 3.23e-42 142
MsaG009292 AT3G27650.1 60.952 105 35 1 10 108 36 140 3.57e-42 138
MsaG009292 AT2G40470.2 62.162 111 36 1 10 114 17 127 3.50e-40 134
MsaG009292 AT2G40470.1 62.162 111 36 1 10 114 42 152 8.64e-40 134
MsaG009292 AT2G23660.2 58.252 103 37 1 12 108 4 106 3.61e-37 130
MsaG009292 AT2G23660.3 58.252 103 37 1 12 108 4 106 3.61e-37 130
MsaG009292 AT2G23660.1 58.252 103 37 1 12 108 4 106 3.61e-37 130
MsaG009292 AT5G66870.1 59.804 102 35 1 12 107 6 107 3.85e-37 130
MsaG009292 AT3G26660.1 53.333 105 41 2 11 107 1 105 3.68e-36 122
MsaG009292 AT3G26620.1 53.333 105 41 2 11 107 1 105 4.83e-36 121
MsaG009292 AT2G42430.1 52.252 111 46 2 5 108 7 117 1.99e-35 124
MsaG009292 AT1G65620.1 61.538 104 34 1 10 107 6 109 7.08e-35 121
MsaG009292 AT1G65620.4 61.538 104 34 1 10 107 6 109 7.08e-35 121
MsaG009292 AT1G65620.3 61.538 104 34 1 10 107 6 109 7.08e-35 121
MsaG009292 AT1G65620.5 61.538 104 34 1 10 107 6 109 7.08e-35 121
MsaG009292 AT1G65620.2 61.538 104 34 1 10 107 6 109 7.08e-35 121
MsaG009292 AT3G11090.1 46.154 130 61 2 5 128 3 129 3.71e-34 118
MsaG009292 AT4G00210.1 50.388 129 49 3 5 126 3 123 2.59e-33 117
MsaG009292 AT2G45410.1 49.206 126 57 2 16 134 19 144 1.45e-32 115
MsaG009292 AT4G00220.1 52.885 104 42 2 16 112 20 123 3.73e-31 112
MsaG009292 AT3G03760.1 49.074 108 48 2 12 112 50 157 5.47e-31 113
MsaG009292 AT2G31310.1 51.887 106 44 2 9 107 3 108 6.32e-31 110
MsaG009292 AT2G42440.1 55.556 99 37 2 9 100 3 101 2.09e-30 110
MsaG009292 AT5G06080.1 49.107 112 45 3 12 116 6 112 1.08e-29 107
MsaG009292 AT2G45420.1 50.476 105 38 3 16 113 40 137 7.86e-28 104
MsaG009292 AT3G58190.1 53.684 95 37 2 13 100 11 105 8.67e-28 103
MsaG009292 AT3G50510.1 47.059 102 48 1 12 107 11 112 5.43e-26 98.2
MsaG009292 AT3G50510.2 47.059 102 48 1 12 107 11 112 5.43e-26 98.2
MsaG009292 AT1G72980.1 39.048 105 58 1 9 107 9 113 1.47e-22 89.7
MsaG009292 AT3G47870.1 39.252 107 59 1 7 107 30 136 2.49e-22 91.3
MsaG009292 AT3G13850.1 38.596 114 59 2 14 121 37 145 3.89e-21 87.0
MsaG009292 AT5G35900.1 39.000 100 55 1 14 107 6 105 6.17e-21 85.5
MsaG009292 AT2G19820.1 36.458 96 54 1 12 100 11 106 5.21e-17 73.2
MsaG009292 AT1G06280.1 35.165 91 53 1 14 98 25 115 2.73e-15 70.5
MsaG009292 AT4G22700.1 33.333 102 58 3 14 107 6 105 6.08e-13 63.9
MsaG009292 AT5G15060.1 40.000 85 41 3 3 78 7 90 6.40e-13 62.8
MsaG009292 AT1G36000.1 29.670 91 58 1 9 93 5 95 1.19e-11 58.9

Find 33 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGCTTGTGCTTGAGCTAAT+TGG 0.150837 2:+56838966 None:intergenic
GCTGATGAACCTCACAAATT+TGG 0.273735 2:-56843407 MsaT009292.1:CDS
GCATCACTTCGTTGATGTTC+TGG 0.321179 2:+56839094 None:intergenic
GGTTCATCAGCTGGAAAATA+TGG 0.335863 2:+56843419 None:intergenic
TGCTTGTGCTTGAGCTAATT+GGG 0.350545 2:+56838967 None:intergenic
AAGAAAAGAACCTGCTTGAT+TGG 0.406684 2:+56838858 None:intergenic
TTCAAGTAGTATAAGGATAA+AGG 0.417732 2:+56838438 None:intergenic
TTTATCCTTATACTACTTGA+AGG 0.422613 2:-56838436 MsaT009292.1:CDS
ATGAAGCAAATGCAAGAGTA+AGG 0.428990 2:-56839054 MsaT009292.1:CDS
GATGTCCTTCAAGTAGTATA+AGG 0.452783 2:+56838431 None:intergenic
CTGCATGCAAGCTTCTTAGA+AGG 0.457783 2:-56843469 MsaT009292.1:CDS
GATGATGATCAGATGAGAAT+TGG 0.476334 2:+56838921 None:intergenic
AATTTGTGAGGTTCATCAGC+TGG 0.500821 2:+56843410 None:intergenic
AGAGTAAGGGATCCTGTGTA+TGG 0.521523 2:-56839040 MsaT009292.1:CDS
CAAATTTGGCAGTGTCCACA+AGG 0.525604 2:-56843393 MsaT009292.1:CDS
AAGTGATGCAGTTAGTTCAA+TGG 0.533555 2:-56839080 MsaT009292.1:CDS
CTCTCTACATTACCGAGAGA+TGG 0.555122 2:-56838401 MsaT009292.1:CDS
TGAAGCAAATGCAAGAGTAA+GGG 0.570272 2:-56839053 MsaT009292.1:CDS
AAAATGTGTACCAATCAAGC+AGG 0.584103 2:-56838868 MsaT009292.1:intron
AACTAACCATCACCATCTCT+CGG 0.586312 2:+56838389 None:intergenic
AATTGGAGGAACATGAAGGA+TGG 0.589346 2:-56843524 None:intergenic
AGAAGCTTGCATGCAGCACA+TGG 0.590179 2:+56843476 None:intergenic
GGATCCTGTGTATGGATGTG+TGG 0.591101 2:-56839032 MsaT009292.1:CDS
TGGAGGAACATGAAGGATGG+TGG 0.593577 2:-56843521 None:intergenic
AAGGATGGTGGTAGAAAACA+AGG 0.626109 2:-56843509 MsaT009292.1:CDS
GATCCTGTGTATGGATGTGT+GGG 0.634230 2:-56839031 MsaT009292.1:CDS
ATTAGCTCAAGCACAAGCAG+AGG 0.647477 2:-56838963 MsaT009292.1:CDS
TGGACACTGCCAAATTTGTG+AGG 0.657276 2:+56843398 None:intergenic
ACATTACCGAGAGATGGTGA+TGG 0.665202 2:-56838395 None:intergenic
GATGGTGGTGACGAATTCGA+TGG 0.671990 2:+56838893 None:intergenic
ATCTACTTGTTGCTGCAGAG+AGG 0.672706 2:+56839000 None:intergenic
GGTGGTGACGAATTCGATGG+TGG 0.676502 2:+56838896 None:intergenic
GCTCCCACACATCCATACAC+AGG 0.680929 2:+56839028 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 56838398 56843534 56838398 ID=MsaG009292
Chr2 mRNA 56838398 56843534 56838398 ID=MsaT009292.1;Parent=MsaG009292
Chr2 exon 56838398 56838479 56838398 ID=MsaT009292.1.exon3;Parent=MsaT009292.1
Chr2 CDS 56838398 56838479 56838398 ID=cds.MsaT009292.1;Parent=MsaT009292.1
Chr2 exon 56838869 56839122 56838869 ID=MsaT009292.1.exon2;Parent=MsaT009292.1
Chr2 CDS 56838869 56839122 56838869 ID=cds.MsaT009292.1;Parent=MsaT009292.1
Chr2 exon 56843376 56843534 56843376 ID=MsaT009292.1.exon1;Parent=MsaT009292.1
Chr2 CDS 56843376 56843534 56843376 ID=cds.MsaT009292.1;Parent=MsaT009292.1
Gene Sequence

>MsaT009292.1

ATGAAGGATGGTGGTAGAAAACAAGGTACAATGTCACCATGTGCTGCATGCAAGCTTCTTAGAAGGAGATGTGCTAAAGATTGTGTGTTTGCTCCATATTTTCCAGCTGATGAACCTCACAAATTTGGCAGTGTCCACAAGGTTTTTGGGGCTAGCAATGAACTACCAGAACATCAACGAAGTGATGCAGTTAGTTCAATGGTATATGAAGCAAATGCAAGAGTAAGGGATCCTGTGTATGGATGTGTGGGAGCTATATCCTCTCTGCAGCAACAAGTAGATGTGCTACAAACCCAATTAGCTCAAGCACAAGCAGAGGTTGTGCATATGAAGATGCACCAATTCTCATCTGATCATCATCAACCACCATCGAATTCGTCACCACCATCAGAAAATGTGTACCAATCAAGCAGGCTTGCTTTATTATTACATCCTTTATCCTTATACTACTTGAAGGACATCGTTATATCTCTCTACATTACCGAGAGATGGTGA
Protein sequence

>MsaT009292.1

MKDGGRKQGTMSPCAACKLLRRRCAKDCVFAPYFPADEPHKFGSVHKVFGASNELPEHQRSDAVSSMVYEANARVRDPVYGCVGAISSLQQQVDVLQTQLAQAQAEVVHMKMHQFSSDHHQPPSNSSPPSENVYQSSRLALLLHPLSLYYLKDIVISLYITERW*