AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG030527

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030527 MtrunA17_Chr6g0460951 61.165 206 61 3 6 209 39 227 5.48e-80 238
MsaG030527 MtrunA17_Chr6g0460931 93.519 108 5 2 103 209 1 107 5.36e-57 176
MsaG030527 MtrunA17_Chr6g0460941 83.158 95 16 0 1 95 1 95 1.29e-52 164
MsaG030527 MtrunA17_Chr7g0261031 54.206 107 49 0 1 107 2 108 5.61e-39 133
MsaG030527 MtrunA17_Chr1g0184271 55.238 105 47 0 7 111 12 116 1.09e-38 133
MsaG030527 MtrunA17_Chr8g0351701 58.416 101 42 0 7 107 23 123 1.17e-37 130
MsaG030527 MtrunA17_Chr7g0260971 57.547 106 45 0 6 111 13 118 1.84e-37 129
MsaG030527 MtrunA17_Chr7g0245871 53.774 106 49 0 7 112 27 132 6.73e-37 129
MsaG030527 MtrunA17_Chr1g0184281 57.282 103 44 0 7 109 15 117 1.22e-36 127
MsaG030527 MtrunA17_Chr8g0351721 56.000 100 44 0 7 106 18 117 4.90e-36 125
MsaG030527 MtrunA17_Chr5g0435641 46.154 117 63 0 1 117 1 117 2.69e-34 120
MsaG030527 MtrunA17_Chr3g0117121 48.182 110 54 2 6 115 9 115 8.38e-32 114
MsaG030527 MtrunA17_Chr4g0058651 50.000 96 47 1 6 101 10 104 3.54e-31 112
MsaG030527 MtrunA17_Chr5g0402611 42.466 146 77 4 6 148 7 148 9.09e-30 112
MsaG030527 MtrunA17_Chr2g0311601 45.098 102 55 1 6 107 12 112 1.01e-29 108
MsaG030527 MtrunA17_Chr3g0106101 42.991 107 60 1 1 107 1 106 1.21e-29 108
MsaG030527 MtrunA17_Chr7g0227511 48.039 102 52 1 6 107 10 110 1.41e-29 108
MsaG030527 MtrunA17_Chr4g0043421 35.897 156 89 3 5 160 13 157 1.43e-29 108
MsaG030527 MtrunA17_Chr7g0245861 54.255 94 41 2 3 94 8 101 1.55e-29 107
MsaG030527 MtrunA17_Chr3g0114061 45.631 103 55 1 5 107 6 107 2.33e-29 107
MsaG030527 MtrunA17_Chr5g0437571 38.168 131 69 2 6 136 5 123 9.40e-29 105
MsaG030527 MtrunA17_Chr3g0129071 45.098 102 55 1 6 107 46 146 1.21e-28 107
MsaG030527 MtrunA17_Chr5g0438091 39.496 119 71 1 5 123 37 154 2.96e-28 105
MsaG030527 MtrunA17_Chr5g0437401 44.660 103 56 1 5 107 9 110 2.98e-28 104
MsaG030527 MtrunA17_Chr6g0449641 46.154 104 55 1 6 109 8 110 3.74e-28 103
MsaG030527 MtrunA17_Chr3g0115431 46.602 103 54 1 5 107 7 108 5.88e-28 105
MsaG030527 MtrunA17_Chr3g0097221 43.925 107 59 1 1 107 1 106 8.33e-28 106
MsaG030527 MtrunA17_Chr3g0113891 43.564 101 56 1 5 105 12 111 9.04e-27 101
MsaG030527 MtrunA17_Chr4g0030001 41.509 106 60 2 6 110 23 127 2.91e-26 100
MsaG030527 MtrunA17_Chr1g0200201 34.286 140 83 2 8 139 73 211 9.87e-26 99.8
MsaG030527 MtrunA17_Chr6g0449651 44.231 104 57 1 6 109 66 168 1.66e-25 98.2
MsaG030527 MtrunA17_Chr5g0444351 37.692 130 69 2 8 137 6 123 8.09e-25 95.1
MsaG030527 MtrunA17_Chr7g0225111 38.000 100 61 1 8 107 6 104 9.94e-23 88.6
MsaG030527 MtrunA17_Chr5g0432451 43.243 111 62 1 6 116 42 151 1.29e-22 91.3
MsaG030527 MtrunA17_Chr8g0353981 46.591 88 46 1 1 88 1 87 1.47e-22 91.3
MsaG030527 MtrunA17_Chr8g0374591 41.414 99 57 1 7 105 8 105 2.09e-22 88.2
MsaG030527 MtrunA17_Chr8g0374601 39.394 99 59 1 7 105 26 123 1.80e-21 89.4
MsaG030527 MtrunA17_Chr4g0040831 37.624 101 62 1 8 108 16 115 4.31e-19 81.6
MsaG030527 MtrunA17_Chr2g0330201 34.000 100 65 1 8 107 20 118 1.89e-18 81.6
MsaG030527 MtrunA17_Chr8g0342351 35.000 100 64 1 8 107 13 111 2.46e-18 80.5
MsaG030527 MtrunA17_Chr4g0059901 36.000 100 63 1 8 107 11 109 3.42e-17 77.8
MsaG030527 MtrunA17_Chr8g0374581 39.000 100 59 2 7 105 8 106 3.98e-17 76.6
MsaG030527 MtrunA17_Chr6g0452671 31.731 104 70 1 2 105 6 108 1.48e-15 72.0
MsaG030527 MtrunA17_Chr6g0452661 31.707 123 75 3 8 129 10 124 2.23e-15 72.4
MsaG030527 MtrunA17_Chr6g0452691 27.128 188 103 5 8 190 10 168 3.88e-15 70.5
MsaG030527 MtrunA17_Chr4g0046201 35.955 89 56 1 6 94 5 92 9.00e-15 70.9
MsaG030527 MtrunA17_Chr4g0055441 37.500 96 54 3 8 98 3 97 5.53e-14 66.6
MsaG030527 MtrunA17_Chr5g0439111 29.299 157 96 5 8 155 10 160 1.12e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030527 AT3G03760.1 59.821 112 45 0 6 117 50 161 2.59e-45 152
MsaG030527 AT2G42430.1 47.917 144 74 1 2 144 10 153 1.51e-38 133
MsaG030527 AT3G58190.1 58.416 101 42 0 7 107 11 111 3.86e-38 131
MsaG030527 AT2G31310.1 48.598 107 55 0 1 107 1 107 3.08e-37 128
MsaG030527 AT2G42440.1 51.402 107 52 0 1 107 1 107 8.91e-37 129
MsaG030527 AT2G45420.1 62.245 98 37 0 10 107 40 137 2.15e-36 128
MsaG030527 AT4G00220.1 56.122 98 43 0 10 107 20 117 3.33e-34 122
MsaG030527 AT5G06080.1 48.718 117 58 1 1 117 1 115 4.00e-34 120
MsaG030527 AT4G00210.1 52.475 101 48 0 7 107 11 111 4.55e-33 119
MsaG030527 AT2G45410.1 43.165 139 71 1 10 148 19 149 7.51e-33 117
MsaG030527 AT5G63090.4 45.133 113 61 1 6 118 10 121 6.40e-31 112
MsaG030527 AT5G63090.3 45.133 113 61 1 6 118 10 121 6.40e-31 112
MsaG030527 AT5G63090.2 45.133 113 61 1 6 118 10 121 6.40e-31 112
MsaG030527 AT5G63090.1 45.133 113 61 1 6 118 10 121 6.40e-31 112
MsaG030527 AT1G07900.1 35.484 155 92 3 6 159 32 179 3.59e-30 110
MsaG030527 AT1G16530.1 46.226 106 55 2 6 110 13 117 5.95e-30 108
MsaG030527 AT3G27650.1 44.737 114 58 2 6 119 38 146 9.71e-29 105
MsaG030527 AT2G30130.1 45.045 111 56 2 5 111 6 115 1.87e-28 106
MsaG030527 AT3G11090.1 40.952 105 61 1 5 109 9 112 3.56e-28 104
MsaG030527 AT2G30340.1 41.667 120 67 2 6 125 51 167 2.32e-27 105
MsaG030527 AT2G23660.2 46.602 103 54 1 5 107 3 104 2.32e-27 106
MsaG030527 AT2G23660.3 46.602 103 54 1 5 107 3 104 2.32e-27 106
MsaG030527 AT2G23660.1 46.602 103 54 1 5 107 3 104 2.32e-27 106
MsaG030527 AT2G30340.2 41.667 120 67 2 6 125 52 168 2.95e-27 104
MsaG030527 AT5G66870.1 43.925 107 59 1 1 107 1 106 4.17e-27 105
MsaG030527 AT3G50510.1 41.905 105 60 1 1 105 6 109 1.50e-26 101
MsaG030527 AT3G50510.2 41.905 105 60 1 1 105 6 109 1.50e-26 101
MsaG030527 AT1G31320.1 41.228 114 59 2 5 111 11 123 6.62e-26 99.0
MsaG030527 AT2G28500.1 42.268 97 55 1 6 102 54 149 1.08e-25 100
MsaG030527 AT3G26660.1 38.000 100 61 1 8 107 6 104 4.97e-24 92.4
MsaG030527 AT3G26620.1 38.000 100 61 1 8 107 6 104 6.78e-24 92.0
MsaG030527 AT1G65620.1 46.789 109 55 2 1 107 1 108 2.41e-23 92.8
MsaG030527 AT1G65620.4 46.789 109 55 2 1 107 1 108 2.41e-23 92.8
MsaG030527 AT1G65620.3 46.789 109 55 2 1 107 1 108 2.41e-23 92.8
MsaG030527 AT1G65620.5 46.789 109 55 2 1 107 1 108 2.41e-23 92.8
MsaG030527 AT1G65620.2 46.789 109 55 2 1 107 1 108 2.41e-23 92.8
MsaG030527 AT2G40470.2 46.154 104 55 1 6 109 19 121 2.08e-22 90.5
MsaG030527 AT2G40470.1 47.059 102 53 1 6 107 44 144 3.51e-22 90.5
MsaG030527 AT1G72980.1 38.835 103 62 1 5 107 11 112 2.72e-20 85.5
MsaG030527 AT5G35900.1 40.594 101 59 1 5 105 3 102 4.03e-19 82.0
MsaG030527 AT3G13850.1 31.818 132 88 2 8 138 37 167 9.02e-19 82.4
MsaG030527 AT3G47870.1 31.068 103 70 1 5 107 34 135 1.01e-15 74.7
MsaG030527 AT1G06280.1 44.000 75 41 1 8 82 25 98 2.31e-15 72.0

Find 44 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGACACACAACCATTAAT+TGG 0.284098 6:-9458687 None:intergenic
TTGAAGAAGAAGTGTATTAA+TGG 0.285388 6:+9458492 MsaT030527.1:CDS
GCAGCTGTGCACAAGGTCTT+TGG 0.289287 6:+9458564 MsaT030527.1:CDS
TTGTTGGTGGCAGCAAGAAC+AGG 0.345361 6:-9459297 None:intergenic
GCGGTGAATAGTTGGAATTT+TGG 0.347398 6:-9458613 None:intergenic
CATTAGTGCTTTGGAGAAAC+AGG 0.350270 6:+9458710 MsaT030527.1:CDS
CTGTTTCTCCAAAGCACTAA+TGG 0.365272 6:-9458709 None:intergenic
AGGATCGCTGATCCAATTAA+TGG 0.374552 6:+9458675 MsaT030527.1:CDS
CTCCAGGTTCTCTTATCATC+AGG 0.387227 6:+9459410 MsaT030527.1:CDS
TGTGTCCACCATTAGTGCTT+TGG 0.395836 6:+9458701 MsaT030527.1:CDS
TGAAGTTGTTCATGTTCATA+AGG 0.399289 6:-9459320 None:intergenic
TGCATCTTTGCACCCTACTT+TGG 0.409327 6:+9458516 MsaT030527.1:CDS
TGCACAGATACATTGAAGTT+TGG 0.428474 6:-9459210 None:intergenic
GATCCTGGCCTGAGCCTCAT+AGG 0.432336 6:-9458658 None:intergenic
GTAGCATTTGCTGATGCTGC+AGG 0.445401 6:-9459182 None:intergenic
GTTCATGTTCATAAGGTTGT+TGG 0.448098 6:-9459313 None:intergenic
GACTATAACCTATGAGGCTC+AGG 0.457119 6:+9458650 MsaT030527.1:CDS
ATTAATTGGATCAGCGATCC+TGG 0.479430 6:-9458673 None:intergenic
GATGGAAGGAGATGGATTGT+TGG 0.492226 6:-9459244 None:intergenic
GATGGATTGTTGGAGTATGC+TGG 0.496824 6:-9459234 None:intergenic
TTGCTGATGCTGCAGGTCTG+TGG 0.518208 6:-9459175 None:intergenic
AACATGAACAACTTCAACCC+TGG 0.523993 6:+9459327 MsaT030527.1:CDS
CATGTTCATGAGATCTTCGA+TGG 0.526356 6:-9459262 None:intergenic
CATGTTCATAAGGTTGTTGG+TGG 0.547943 6:-9459310 None:intergenic
AATGAAGACTATAACCTATG+AGG 0.550364 6:+9458644 MsaT030527.1:CDS
CAGATAAATCGACACCGTGT+GGG 0.552619 6:+9458457 MsaT030527.1:CDS
TCCATTGTAGTATCAAAACC+AGG 0.562905 6:-9459345 None:intergenic
TAACCTATGAGGCTCAGGCC+AGG 0.563627 6:+9458655 MsaT030527.1:CDS
TTCATGAGATCTTCGATGGA+AGG 0.566318 6:-9459258 None:intergenic
TAGCTTTGCAGCTGTGCACA+AGG 0.566837 6:+9458557 MsaT030527.1:CDS
AGATCTTCGATGGAAGGAGA+TGG 0.567577 6:-9459252 None:intergenic
CTCAAAGCTCTGTGATGATG+AGG 0.569176 6:-9459376 None:intergenic
TCCCTGATGATAAGAGAACC+TGG 0.572844 6:-9459412 None:intergenic
TCCAGGTTCTCTTATCATCA+GGG 0.596198 6:+9459411 MsaT030527.1:CDS
GCAGATAAATCGACACCGTG+TGG 0.608982 6:+9458456 MsaT030527.1:CDS
GGTGGAGGCACTGCAAGCAG+AGG 0.616998 6:+9459092 MsaT030527.1:intron
GGACAAGATCTTCAACACAT+TGG 0.623216 6:-9458592 None:intergenic
TGTTGGTGGCAGCAAGAACA+GGG 0.624562 6:-9459296 None:intergenic
TTTCTCCAAAGCACTAATGG+TGG 0.632553 6:-9458706 None:intergenic
AGATAAATCGACACCGTGTG+GGG 0.638818 6:+9458458 MsaT030527.1:CDS
AAGTGCTTGCAAGCCCCACA+CGG 0.644781 6:-9458471 None:intergenic
TCAAAGCTCTGTGATGATGA+GGG 0.650661 6:-9459375 None:intergenic
AAAGCTCAGCAGATGAACAA+CGG 0.670494 6:+9459126 MsaT030527.1:CDS
CCATTGTAGTATCAAAACCA+GGG 0.697403 6:-9459344 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 9458453 9459443 9458453 ID=MsaG030527
Chr6 mRNA 9458453 9459443 9458453 ID=MsaT030527.1;Parent=MsaG030527
Chr6 exon 9458453 9458731 9458453 ID=MsaT030527.1.exon1;Parent=MsaT030527.1
Chr6 CDS 9458453 9458731 9458453 ID=cds.MsaT030527.1;Parent=MsaT030527.1
Chr6 exon 9459093 9459443 9459093 ID=MsaT030527.1.exon2;Parent=MsaT030527.1
Chr6 CDS 9459093 9459443 9459093 ID=cds.MsaT030527.1;Parent=MsaT030527.1
Gene Sequence

>MsaT030527.1

ATGGCAGATAAATCGACACCGTGTGGGGCTTGCAAGCACTTGAAGAAGAAGTGTATTAATGGATGCATCTTTGCACCCTACTTTGGTAAAAAACAAAATGAAGCTAGCTTTGCAGCTGTGCACAAGGTCTTTGGTGCTGCCAATGTGTTGAAGATCTTGTCCAAAATTCCAACTATTCACCGCAAAAAAGCAATGAAGACTATAACCTATGAGGCTCAGGCCAGGATCGCTGATCCAATTAATGGTTGTGTGTCCACCATTAGTGCTTTGGAGAAACAGGTGGAGGCACTGCAAGCAGAGGTCTCAATGATGAAAGCTCAGCAGATGAACAACGGATTTGCATATGCGAATGCTCTTCAAACCACAGACCTGCAGCATCAGCAAATGCTACAGCAACCAAACTTCAATGTATCTGTGCAACCAGCATACTCCAACAATCCATCTCCTTCCATCGAAGATCTCATGAACATGAACAACTTCAACCCTGTTCTTGCTGCCACCAACAACCTTATGAACATGAACAACTTCAACCCTGGTTTTGATACTACAATGGAGACAGCACCCTCATCATCACAGAGCTTTGAGCCTTTTCAAAACTCCAGGTTCTCTTATCATCAGGGAGACAATTAA
Protein sequence

>MsaT030527.1

MADKSTPCGACKHLKKKCINGCIFAPYFGKKQNEASFAAVHKVFGAANVLKILSKIPTIHRKKAMKTITYEAQARIADPINGCVSTISALEKQVEALQAEVSMMKAQQMNNGFAYANALQTTDLQHQQMLQQPNFNVSVQPAYSNNPSPSIEDLMNMNNFNPVLAATNNLMNMNNFNPGFDTTMETAPSSSQSFEPFQNSRFSYHQGDN*