AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038369


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038369 MtrunA17_Chr7g0245861 99.010 101 1 0 1 101 1 101 4.23e-71 212
MsaG038369 MtrunA17_Chr8g0351721 63.077 195 60 6 4 194 10 196 1.38e-67 206
MsaG038369 MtrunA17_Chr8g0351701 72.642 106 27 2 11 116 22 125 3.43e-52 167
MsaG038369 MtrunA17_Chr7g0245871 67.619 105 32 2 12 116 27 129 3.85e-46 152
MsaG038369 MtrunA17_Chr7g0261031 65.546 119 36 4 10 125 6 122 1.22e-45 150
MsaG038369 MtrunA17_Chr1g0184271 54.225 142 60 4 12 151 12 150 5.18e-45 149
MsaG038369 MtrunA17_Chr7g0260971 65.487 113 37 2 4 116 6 116 2.00e-44 147
MsaG038369 MtrunA17_Chr1g0184281 58.065 124 50 2 10 133 13 134 6.78e-42 140
MsaG038369 MtrunA17_Chr6g0460951 62.385 109 37 3 12 120 40 144 7.14e-40 135
MsaG038369 MtrunA17_Chr5g0435641 61.616 99 36 2 10 108 5 101 2.31e-39 133
MsaG038369 MtrunA17_Chr5g0437571 46.386 166 76 5 9 164 3 165 2.87e-37 127
MsaG038369 MtrunA17_Chr3g0114061 42.857 161 78 3 6 155 2 159 2.98e-35 121
MsaG038369 MtrunA17_Chr2g0311601 53.509 114 44 3 8 115 3 113 8.79e-34 117
MsaG038369 MtrunA17_Chr7g0227511 53.043 115 51 2 12 126 11 122 6.46e-33 116
MsaG038369 MtrunA17_Chr3g0106101 51.402 107 49 2 9 115 4 107 3.25e-32 114
MsaG038369 MtrunA17_Chr4g0058651 58.586 99 38 2 10 108 9 104 1.03e-31 113
MsaG038369 MtrunA17_Chr3g0117121 55.660 106 44 2 10 115 8 110 2.07e-31 112
MsaG038369 MtrunA17_Chr6g0449641 53.704 108 47 2 12 119 9 113 2.77e-31 111
MsaG038369 MtrunA17_Chr4g0043421 54.902 102 43 2 12 113 15 113 3.69e-31 111
MsaG038369 MtrunA17_Chr4g0030001 42.958 142 67 3 11 141 23 161 5.76e-31 111
MsaG038369 MtrunA17_Chr5g0437401 51.923 104 47 2 13 116 12 112 1.88e-30 110
MsaG038369 MtrunA17_Chr5g0438091 43.038 158 78 5 12 162 39 191 2.11e-29 107
MsaG038369 MtrunA17_Chr3g0097221 52.778 108 48 2 12 119 7 111 1.34e-28 108
MsaG038369 MtrunA17_Chr6g0449651 50.943 106 49 2 10 115 65 167 6.42e-28 103
MsaG038369 MtrunA17_Chr3g0115431 50.926 108 50 2 9 116 6 110 1.49e-27 103
MsaG038369 MtrunA17_Chr3g0113891 50.000 100 47 2 13 112 15 111 1.59e-27 102
MsaG038369 MtrunA17_Chr5g0402611 40.698 172 66 5 12 183 8 143 2.32e-27 105
MsaG038369 MtrunA17_Chr1g0200201 50.485 103 48 2 13 115 73 172 8.63e-27 102
MsaG038369 MtrunA17_Chr3g0129071 50.962 104 48 2 12 115 47 147 1.01e-26 102
MsaG038369 MtrunA17_Chr6g0460941 55.556 90 38 2 12 101 7 94 1.58e-26 97.4
MsaG038369 MtrunA17_Chr5g0432451 53.846 104 45 2 12 115 43 143 5.06e-23 92.0
MsaG038369 MtrunA17_Chr5g0444351 42.453 106 58 2 11 116 4 106 1.73e-22 88.6
MsaG038369 MtrunA17_Chr8g0353981 49.550 111 53 2 12 122 7 114 8.07e-22 89.0
MsaG038369 MtrunA17_Chr7g0225111 38.462 104 61 2 13 116 6 106 2.51e-20 82.0
MsaG038369 MtrunA17_Chr8g0374601 39.048 105 61 2 12 116 26 127 2.05e-17 78.2
MsaG038369 MtrunA17_Chr8g0374591 40.952 105 59 2 12 116 8 109 6.40e-17 73.6
MsaG038369 MtrunA17_Chr8g0342351 37.736 106 63 2 13 118 13 115 1.02e-15 73.2
MsaG038369 MtrunA17_Chr2g0330201 37.143 105 63 2 13 117 20 121 1.13e-15 73.6
MsaG038369 MtrunA17_Chr6g0452691 39.623 106 60 3 13 117 10 112 2.55e-15 70.9
MsaG038369 MtrunA17_Chr8g0374581 36.538 104 64 1 12 115 8 109 8.09e-15 70.1
MsaG038369 MtrunA17_Chr4g0040831 40.625 96 54 2 13 108 16 108 9.36e-15 69.7
MsaG038369 MtrunA17_Chr4g0059901 37.143 105 63 2 13 117 11 112 1.27e-14 70.1
MsaG038369 MtrunA17_Chr6g0452671 33.929 112 70 3 1 112 1 108 1.74e-13 66.2
MsaG038369 MtrunA17_Chr6g0452661 34.906 106 58 5 13 110 10 112 2.05e-12 63.9
MsaG038369 MtrunA17_Chr2g0326051 51.786 56 27 0 60 115 5 60 1.58e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038369 AT2G45410.1 71.429 119 31 3 15 132 19 135 4.37e-53 168
MsaG038369 AT4G00210.1 63.971 136 43 3 10 141 9 142 2.22e-52 167
MsaG038369 AT2G45420.1 75.238 105 24 2 15 119 40 142 1.48e-48 159
MsaG038369 AT4G00220.1 69.524 105 30 2 15 119 20 122 1.04e-45 150
MsaG038369 AT3G03760.1 68.468 111 32 3 12 122 51 158 6.04e-45 150
MsaG038369 AT3G58190.1 57.851 121 49 2 12 132 11 129 8.10e-45 148
MsaG038369 AT2G42430.1 56.934 137 48 4 10 137 13 147 4.59e-44 147
MsaG038369 AT2G42440.1 55.200 125 49 3 10 129 5 127 1.09e-42 143
MsaG038369 AT5G06080.1 48.026 152 64 4 10 151 5 151 1.14e-40 136
MsaG038369 AT2G31310.1 58.879 107 42 2 10 116 5 109 1.64e-39 134
MsaG038369 AT2G30130.1 50.407 123 57 3 6 128 2 120 1.04e-33 119
MsaG038369 AT5G63090.4 57.143 105 42 2 12 116 11 112 1.79e-31 113
MsaG038369 AT5G63090.3 57.143 105 42 2 12 116 11 112 1.79e-31 113
MsaG038369 AT5G63090.2 57.143 105 42 2 12 116 11 112 1.79e-31 113
MsaG038369 AT5G63090.1 57.143 105 42 2 12 116 11 112 1.79e-31 113
MsaG038369 AT1G16530.1 49.153 118 55 2 11 125 13 128 2.50e-31 112
MsaG038369 AT3G27650.1 53.846 104 45 2 12 115 39 139 2.80e-30 109
MsaG038369 AT1G07900.1 40.741 162 82 5 11 164 32 187 1.53e-29 108
MsaG038369 AT3G11090.1 41.290 155 83 5 13 163 12 162 2.10e-29 107
MsaG038369 AT2G28500.1 50.962 104 48 2 12 115 55 155 8.68e-29 107
MsaG038369 AT5G66870.1 49.635 137 54 5 12 136 7 140 5.88e-28 107
MsaG038369 AT1G31320.1 53.333 90 39 2 12 101 13 99 9.27e-28 103
MsaG038369 AT3G26660.1 44.762 105 55 2 13 117 6 107 2.44e-27 100
MsaG038369 AT3G26620.1 44.762 105 55 2 13 117 6 107 4.14e-27 100
MsaG038369 AT2G23660.2 47.115 104 52 2 12 115 5 105 3.98e-25 99.8
MsaG038369 AT2G23660.3 47.115 104 52 2 12 115 5 105 3.98e-25 99.8
MsaG038369 AT2G23660.1 47.115 104 52 2 12 115 5 105 3.98e-25 99.8
MsaG038369 AT2G30340.1 48.077 104 51 2 12 115 52 152 1.04e-24 97.8
MsaG038369 AT2G30340.2 48.077 104 51 2 12 115 53 153 1.15e-24 97.8
MsaG038369 AT3G50510.1 43.636 110 59 2 7 116 7 113 4.69e-23 91.7
MsaG038369 AT3G50510.2 43.636 110 59 2 7 116 7 113 4.69e-23 91.7
MsaG038369 AT2G40470.2 52.885 104 46 2 12 115 20 120 4.88e-22 89.0
MsaG038369 AT2G40470.1 52.885 104 46 2 12 115 45 145 5.25e-22 89.7
MsaG038369 AT1G65620.1 52.381 105 47 2 12 116 9 110 6.23e-22 89.0
MsaG038369 AT1G65620.4 52.381 105 47 2 12 116 9 110 6.23e-22 89.0
MsaG038369 AT1G65620.3 52.381 105 47 2 12 116 9 110 6.23e-22 89.0
MsaG038369 AT1G65620.5 52.381 105 47 2 12 116 9 110 6.23e-22 89.0
MsaG038369 AT1G65620.2 52.381 105 47 2 12 116 9 110 6.23e-22 89.0
MsaG038369 AT1G72980.1 35.772 123 74 3 9 129 8 127 2.55e-15 71.6
MsaG038369 AT5G35900.1 33.043 115 74 2 13 127 6 117 4.23e-15 70.9
MsaG038369 AT3G13850.1 33.898 118 75 2 13 130 37 151 7.07e-15 71.2
MsaG038369 AT3G47870.1 29.907 107 72 2 11 117 35 138 2.39e-12 64.7
MsaG038369 AT1G06280.1 41.558 77 42 2 13 89 25 98 2.64e-12 63.5

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTAGAGAGAGAGATGGATTT+GGG 0.204949 7:-75694500 None:intergenic
AGGGCTACTGACCCTGTTTA+TGG 0.239262 7:-75694245 MsaT038369.1:CDS
TTTAGAGAGAGAGATGGATT+TGG 0.290229 7:-75694501 None:intergenic
AAGGCAAAGCTTGGAATTCC+TGG 0.322902 7:+75691685 None:intergenic
GGGTGTGGGGATGACGGTGG+TGG 0.353668 7:-75694479 MsaT038369.1:CDS
AGAGAGATGGATTTGGGGTG+TGG 0.373011 7:-75694494 None:intergenic
GTCATGAAGTTGTTGATTAT+AGG 0.378812 7:+75691707 None:intergenic
TGACCTGATGACTCAAAATA+TGG 0.381006 7:+75694395 None:intergenic
CTTTGAGGCTGTTGAAATTG+AGG 0.406522 7:+75691876 None:intergenic
TGAGCAACACAACCATAAAC+AGG 0.407283 7:+75694233 None:intergenic
GAGAGATGGATTTGGGGTGT+GGG 0.427932 7:-75694493 None:intergenic
GCTGCAGTTCATAAGGTGTT+TGG 0.429613 7:-75694356 MsaT038369.1:CDS
TTGGGGTGTGGGGATGACGG+TGG 0.437721 7:-75694482 MsaT038369.1:CDS
CCTCTTTGCTCTTCAACAAC+AGG 0.440953 7:-75694210 MsaT038369.1:intron
GCATCAAGACGCTTATGAAC+TGG 0.441293 7:+75694299 None:intergenic
GATTTGGGGTGTGGGGATGA+CGG 0.456260 7:-75694485 MsaT038369.1:CDS
AAAATTCTCAAGGCAAAGCT+TGG 0.480367 7:+75691676 None:intergenic
TGATTATAGGAATAGTATGA+TGG 0.495256 7:+75691720 None:intergenic
TCTGCTATGAGGCTCTTGCT+AGG 0.495453 7:-75694265 MsaT038369.1:CDS
CTGCTATGAGGCTCTTGCTA+GGG 0.502068 7:-75694264 MsaT038369.1:CDS
GCGATTCAATATTGAAAGAC+GGG 0.503238 7:+75691911 None:intergenic
AGTAAGGATGAATGCAAAGT+TGG 0.505000 7:+75691840 None:intergenic
TCTTACATGTCCATGCACTT+TGG 0.510678 7:-75691789 MsaT038369.1:CDS
GGTGTGGGGATGACGGTGGT+GGG 0.515639 7:-75694478 MsaT038369.1:CDS
TGAAAGACGGGCTTGTACAT+AGG 0.516839 7:+75691923 None:intergenic
TGTTGTTACTCTCTGCTATG+AGG 0.534536 7:-75694276 MsaT038369.1:CDS
TAGAGAGAGAGATGGATTTG+GGG 0.538982 7:-75694499 None:intergenic
AGAGATGGATTTGGGGTGTG+GGG 0.541784 7:-75694492 None:intergenic
GGTGATATTGAAGAGCTTTG+AGG 0.552521 7:+75691861 None:intergenic
TTGAGAAGAAAGTGTGTGAA+AGG 0.553888 7:-75694434 MsaT038369.1:CDS
TGATGACAAATGATGAAGTA+AGG 0.555832 7:+75691824 None:intergenic
GATGACGGTGGTGGGCCTTG+TGG 0.575954 7:-75694470 MsaT038369.1:CDS
TGCGATTCAATATTGAAAGA+CGG 0.576843 7:+75691910 None:intergenic
AAGAGGATGACCAAAGTGCA+TGG 0.603188 7:+75691779 None:intergenic
TAATCAACAACTTCATGACC+AGG 0.619495 7:-75691703 MsaT038369.1:CDS
CCTGTTGTTGAAGAGCAAAG+AGG 0.633272 7:+75694210 None:intergenic
GAGCAACACAACCATAAACA+GGG 0.707824 7:+75694234 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 75691683 75694510 75691683 ID=MsaG038369
Chr7 mRNA 75691683 75694510 75691683 ID=MsaT038369.1;Parent=MsaG038369
Chr7 exon 75691683 75691970 75691683 ID=MsaT038369.1.exon2;Parent=MsaT038369.1
Chr7 CDS 75691683 75691970 75691683 ID=cds.MsaT038369.1;Parent=MsaT038369.1
Chr7 exon 75694211 75694510 75694211 ID=MsaT038369.1.exon1;Parent=MsaT038369.1
Chr7 CDS 75694211 75694510 75694211 ID=cds.MsaT038369.1;Parent=MsaT038369.1
Gene Sequence

>MsaT038369.1

ATGGATTTGGGGTGTGGGGATGACGGTGGTGGGCCTTGTGGTGCTTGCAAGTTTTTGAGAAGAAAGTGTGTGAAAGGTTGTTGCATATTTGCACCATATTTTGAGTCATCAGGTCAAGGAAGTGCTCATTTTGCTGCAGTTCATAAGGTGTTTGGTGCTAGCAATGCTGCTAAGCTACTCACACGTATTCCAGTTCATAAGCGTCTTGATGCTGTTGTTACTCTCTGCTATGAGGCTCTTGCTAGGGCTACTGACCCTGTTTATGGTTGTGTTGCTCACCTCTTTGCTCTTCAACAACAGGTTGTGGAGTTGCAAGCAGAGTTAGCCTATGTACAAGCCCGTCTTTCAATATTGAATCGCATCTCTGAAGATCCTCAATTTCAACAGCCTCAAAGCTCTTCAATATCACCAACTTTGCATTCATCCTTACTTCATCATTTGTCATCAAGCAATGAAACTTCTTACATGTCCATGCACTTTGGTCATCCTCTTCAAAATGATCAATATCATCGAACACCTTTTGAAAATCCATCATACTATTCCTATAATCAACAACTTCATGACCAGGAATTCCAAGCTTTGCCTTGA

Protein sequence

>MsaT038369.1

MDLGCGDDGGGPCGACKFLRRKCVKGCCIFAPYFESSGQGSAHFAAVHKVFGASNAAKLLTRIPVHKRLDAVVTLCYEALARATDPVYGCVAHLFALQQQVVELQAELAYVQARLSILNRISEDPQFQQPQSSSISPTLHSSLLHHLSSSNETSYMSMHFGHPLQNDQYHRTPFENPSYYSYNQQLHDQEFQALP*