AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025540

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025540 MtrunA17_Chr5g0402611 99.369 317 1 1 1 316 1 317 0.0 636
MsaG025540 MtrunA17_Chr3g0115431 77.236 123 28 0 1 123 2 124 2.04e-66 207
MsaG025540 MtrunA17_Chr3g0097221 43.202 331 121 11 3 313 2 285 1.13e-61 198
MsaG025540 MtrunA17_Chr3g0117121 68.182 110 35 0 2 111 4 113 1.57e-49 163
MsaG025540 MtrunA17_Chr7g0227511 66.364 110 37 0 2 111 5 114 3.24e-49 162
MsaG025540 MtrunA17_Chr4g0058651 69.811 106 32 0 6 111 9 114 3.33e-49 162
MsaG025540 MtrunA17_Chr6g0449641 67.290 107 35 0 2 108 3 109 9.93e-49 159
MsaG025540 MtrunA17_Chr8g0353981 73.394 109 29 0 3 111 2 110 9.90e-47 157
MsaG025540 MtrunA17_Chr6g0449651 62.727 110 41 0 2 111 61 170 2.99e-46 155
MsaG025540 MtrunA17_Chr5g0437571 59.200 125 50 1 6 130 4 127 9.73e-45 150
MsaG025540 MtrunA17_Chr3g0106101 60.952 105 41 0 4 108 3 107 4.78e-43 146
MsaG025540 MtrunA17_Chr5g0438091 60.748 107 42 0 5 111 36 142 4.30e-42 144
MsaG025540 MtrunA17_Chr2g0311601 62.136 103 39 0 7 109 12 114 1.03e-41 142
MsaG025540 MtrunA17_Chr3g0114061 58.333 108 45 0 1 108 1 108 1.08e-41 142
MsaG025540 MtrunA17_Chr4g0043421 63.366 101 37 0 7 107 14 114 2.25e-41 142
MsaG025540 MtrunA17_Chr3g0129071 60.000 105 42 0 7 111 46 150 3.09e-40 140
MsaG025540 MtrunA17_Chr5g0437401 60.952 105 41 0 5 109 8 112 1.61e-39 137
MsaG025540 MtrunA17_Chr8g0374601 46.309 149 63 3 8 153 26 160 6.47e-39 139
MsaG025540 MtrunA17_Chr3g0113891 60.784 102 40 0 5 106 11 112 1.44e-38 135
MsaG025540 MtrunA17_Chr8g0374591 52.542 118 56 0 1 118 1 118 3.11e-38 132
MsaG025540 MtrunA17_Chr7g0260971 48.889 135 68 1 2 135 8 142 1.94e-36 130
MsaG025540 MtrunA17_Chr1g0200201 56.436 101 44 0 9 109 73 173 2.34e-36 130
MsaG025540 MtrunA17_Chr4g0030001 54.808 104 46 1 7 109 23 126 4.07e-36 128
MsaG025540 MtrunA17_Chr5g0432451 60.000 105 42 0 7 111 42 146 7.15e-36 129
MsaG025540 MtrunA17_Chr1g0184281 56.190 105 45 1 4 107 11 115 4.09e-34 124
MsaG025540 MtrunA17_Chr8g0374581 48.760 121 61 1 1 120 1 121 6.57e-34 124
MsaG025540 MtrunA17_Chr8g0351701 55.238 105 46 1 8 111 23 127 3.35e-33 122
MsaG025540 MtrunA17_Chr8g0351721 52.542 118 49 2 8 124 18 129 4.51e-33 121
MsaG025540 MtrunA17_Chr7g0245871 60.417 96 37 1 8 102 27 122 8.65e-33 121
MsaG025540 MtrunA17_Chr6g0460951 52.427 103 48 1 7 108 39 141 8.82e-32 118
MsaG025540 MtrunA17_Chr7g0225111 48.544 103 53 0 7 109 4 106 1.27e-31 114
MsaG025540 MtrunA17_Chr7g0261031 53.922 102 46 1 1 101 1 102 1.29e-30 115
MsaG025540 MtrunA17_Chr5g0444351 46.602 103 55 0 9 111 6 108 2.35e-30 112
MsaG025540 MtrunA17_Chr5g0435641 52.577 97 45 1 7 102 6 102 6.74e-30 112
MsaG025540 MtrunA17_Chr1g0184271 51.456 103 49 1 8 109 12 114 4.52e-29 111
MsaG025540 MtrunA17_Chr6g0452661 46.667 105 55 1 6 109 7 111 1.85e-28 110
MsaG025540 MtrunA17_Chr6g0452671 42.574 101 58 0 5 105 8 108 1.12e-26 104
MsaG025540 MtrunA17_Chr6g0452691 45.794 107 57 1 5 110 6 112 8.56e-26 101
MsaG025540 MtrunA17_Chr4g0059901 46.000 100 54 0 9 108 11 110 2.68e-25 102
MsaG025540 MtrunA17_Chr4g0055441 37.879 132 77 3 9 139 3 130 7.05e-25 98.2
MsaG025540 MtrunA17_Chr7g0245861 57.303 89 35 2 6 91 10 98 9.82e-25 97.4
MsaG025540 MtrunA17_Chr6g0460941 48.315 89 45 1 8 95 7 95 1.24e-23 92.8
MsaG025540 MtrunA17_Chr8g0342351 38.835 103 63 0 9 111 13 115 2.17e-22 94.4
MsaG025540 MtrunA17_Chr5g0439111 40.952 105 61 1 6 109 7 111 9.33e-21 89.4
MsaG025540 MtrunA17_Chr4g0040831 39.785 93 56 0 9 101 16 108 9.92e-20 85.5
MsaG025540 MtrunA17_Chr2g0330201 35.294 102 66 0 9 110 20 121 1.82e-18 84.0
MsaG025540 MtrunA17_Chr2g0326041 63.830 47 17 0 7 53 32 78 6.43e-18 77.4
MsaG025540 MtrunA17_Chr4g0046201 34.884 86 56 0 9 94 7 92 1.41e-14 72.4
MsaG025540 MtrunA17_Chr2g0326051 53.571 56 26 0 53 108 5 60 1.09e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025540 AT5G66870.1 53.689 244 83 7 3 229 2 232 2.81e-69 218
MsaG025540 AT2G23660.2 43.226 310 129 12 5 303 2 275 2.78e-65 208
MsaG025540 AT2G23660.3 43.226 310 129 12 5 303 2 275 2.78e-65 208
MsaG025540 AT2G23660.1 43.226 310 129 12 5 303 2 275 2.78e-65 208
MsaG025540 AT1G65620.1 77.273 110 25 0 2 111 3 112 9.04e-50 164
MsaG025540 AT1G65620.4 77.273 110 25 0 2 111 3 112 9.04e-50 164
MsaG025540 AT1G65620.3 77.273 110 25 0 2 111 3 112 9.04e-50 164
MsaG025540 AT1G65620.5 77.273 110 25 0 2 111 3 112 9.04e-50 164
MsaG025540 AT1G65620.2 77.273 110 25 0 2 111 3 112 9.04e-50 164
MsaG025540 AT5G63090.4 62.400 125 47 0 2 126 5 129 1.35e-49 164
MsaG025540 AT5G63090.3 62.400 125 47 0 2 126 5 129 1.35e-49 164
MsaG025540 AT5G63090.2 62.400 125 47 0 2 126 5 129 1.35e-49 164
MsaG025540 AT5G63090.1 62.400 125 47 0 2 126 5 129 1.35e-49 164
MsaG025540 AT3G27650.1 64.602 113 40 0 1 113 32 144 2.46e-49 162
MsaG025540 AT2G30130.1 60.185 108 43 0 1 108 1 108 4.31e-43 147
MsaG025540 AT2G30340.2 52.381 126 55 1 7 132 52 172 7.23e-40 141
MsaG025540 AT2G30340.1 52.381 126 55 1 7 132 51 171 7.28e-40 141
MsaG025540 AT1G07900.1 50.388 129 62 1 7 133 32 160 1.12e-39 138
MsaG025540 AT1G31320.1 69.318 88 27 0 7 94 12 99 1.86e-39 137
MsaG025540 AT1G16530.1 60.194 103 40 1 7 108 13 115 5.18e-38 133
MsaG025540 AT2G28500.1 56.311 103 45 0 7 109 54 156 9.14e-38 134
MsaG025540 AT3G26660.1 52.941 102 48 0 9 110 6 107 2.46e-37 130
MsaG025540 AT3G26620.1 52.941 102 48 0 9 110 6 107 3.25e-37 129
MsaG025540 AT2G40470.2 60.000 105 42 0 7 111 19 123 2.22e-36 130
MsaG025540 AT2G40470.1 60.000 105 42 0 7 111 44 148 2.89e-36 130
MsaG025540 AT3G11090.1 55.963 109 48 0 5 113 8 116 5.57e-36 127
MsaG025540 AT4G00210.1 53.719 121 49 2 2 121 5 119 1.53e-35 128
MsaG025540 AT3G50510.1 45.455 143 73 3 6 146 10 149 1.84e-34 125
MsaG025540 AT3G50510.2 45.455 143 73 3 6 146 10 149 1.84e-34 125
MsaG025540 AT3G03760.1 56.311 103 44 1 7 108 50 152 4.80e-34 126
MsaG025540 AT2G42430.1 51.376 109 52 1 2 109 9 117 5.48e-32 120
MsaG025540 AT4G00220.1 55.446 101 44 1 11 110 20 120 1.89e-30 115
MsaG025540 AT2G45410.1 48.872 133 55 3 11 136 19 145 2.41e-30 114
MsaG025540 AT3G58190.1 52.427 103 48 1 8 109 11 113 5.58e-30 114
MsaG025540 AT5G35900.1 41.912 136 72 3 9 142 6 136 1.03e-29 112
MsaG025540 AT2G31310.1 50.000 102 50 1 7 107 6 107 8.35e-29 109
MsaG025540 AT2G45420.1 52.475 101 47 1 11 110 40 140 1.97e-28 110
MsaG025540 AT5G06080.1 52.000 100 47 1 3 101 2 101 1.91e-27 105
MsaG025540 AT2G42440.1 48.113 106 54 1 3 107 2 107 4.66e-27 106
MsaG025540 AT3G13850.1 40.777 103 61 0 9 111 37 139 2.48e-25 102
MsaG025540 AT3G47870.1 36.937 111 70 0 1 111 29 139 5.41e-24 100
MsaG025540 AT1G72980.1 42.056 107 62 0 2 108 7 113 7.39e-24 97.4
MsaG025540 AT4G22700.1 38.679 106 63 2 9 113 6 110 1.93e-19 85.1
MsaG025540 AT1G06280.1 38.947 95 58 0 9 103 25 119 6.07e-18 81.3
MsaG025540 AT2G19820.1 34.021 97 63 1 7 102 11 107 1.65e-13 66.6
MsaG025540 AT3G27940.3 27.826 115 83 0 7 121 4 118 6.36e-12 63.2
MsaG025540 AT3G27940.1 27.826 115 83 0 7 121 4 118 6.36e-12 63.2
MsaG025540 AT3G27940.2 27.826 115 83 0 7 121 4 118 6.36e-12 63.2

Find 75 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATCAATTGTCTCCTTCTT+TGG 0.211819 5:+9685442 MsaT025540.1:CDS
ATTGTCTCCTTCTTTGGCTT+TGG 0.232947 5:+9685448 MsaT025540.1:CDS
CGGCTGAGGGATCCGGTTTA+TGG 0.239083 5:+9684951 MsaT025540.1:CDS
TTGTCTCCTTCTTTGGCTTT+GGG 0.248585 5:+9685449 MsaT025540.1:CDS
GCGGGAACACCACCATTATA+AGG 0.269383 5:-9685149 None:intergenic
AATTCTCTTTACCCTTATAA+TGG 0.295168 5:+9685137 MsaT025540.1:CDS
GCAACACCAACAGCAGAAAC+TGG 0.315263 5:-9685416 None:intergenic
AAGGAACTTGCTACTTATAT+TGG 0.327213 5:+9685044 MsaT025540.1:CDS
CAGCAGCATAATAACCCTTT+TGG 0.373437 5:+9685113 MsaT025540.1:CDS
TCATCATCATCTTCCACTTC+AGG 0.390138 5:+9685556 MsaT025540.1:CDS
TGTACATATGCAAATCTTTG+AGG 0.398921 5:-9684828 None:intergenic
TCTAATTCTTCTGCTGGTGG+TGG 0.400810 5:+9685377 MsaT025540.1:CDS
TCAGTTTCTAATTCTTCTGC+TGG 0.413224 5:+9685371 MsaT025540.1:CDS
GTCTGTTGTTGATGAGTTTG+TGG 0.423662 5:-9685617 None:intergenic
ATGAGGCCGAGGCGCGGCTG+AGG 0.424591 5:+9684937 MsaT025540.1:CDS
GCCGCAGCAGGCGTCTGCTG+CGG 0.439247 5:-9685206 None:intergenic
GGTTAAGTCGTTGGCTTATG+AGG 0.447260 5:+9684920 MsaT025540.1:CDS
CGAGGCGCGGCTGAGGGATC+CGG 0.449579 5:+9684944 MsaT025540.1:CDS
ATTGGTCCTCAGGCGCTTCA+AGG 0.451437 5:+9685062 MsaT025540.1:CDS
CCGCAGCAGGCGTCTGCTGC+GGG 0.454243 5:-9685205 None:intergenic
TGCTACTTATATTGGTCCTC+AGG 0.459742 5:+9685052 MsaT025540.1:CDS
CTAATTCTTCTGCTGGTGGT+GGG 0.463044 5:+9685378 MsaT025540.1:CDS
TTGTGCACCCGCGGTTACCG+CGG 0.464714 5:-9685168 None:intergenic
CGGGAACACCACCATTATAA+GGG 0.465460 5:-9685148 None:intergenic
ATCTGATGTTGAGCCGCAGC+AGG 0.471893 5:-9685218 None:intergenic
GATCTTGGAAGCTCAACAAT+TGG 0.474204 5:+9685238 MsaT025540.1:CDS
CAGCAGAAACTGGGGACACT+TGG 0.475268 5:-9685406 None:intergenic
GGTAACCGCGGGTGCACAAA+TGG 0.477206 5:+9685172 MsaT025540.1:CDS
GGCTGTGCTTGCTTCTGTTG+TGG 0.478322 5:-9685596 None:intergenic
GCAAATCTTTGAGGATTGTC+CGG 0.480888 5:-9684819 None:intergenic
GGTGTTCCCGCGGTAACCGC+GGG 0.482391 5:+9685161 MsaT025540.1:CDS
GGGTAAAGAGAATTACCAAA+AGG 0.483287 5:-9685128 None:intergenic
TGAACTTAATAATGCTAAGA+AGG 0.486169 5:+9685025 MsaT025540.1:CDS
CAACACCAACAGCAGAAACT+GGG 0.487780 5:-9685415 None:intergenic
TGCGGCTCAACATCAGATCT+TGG 0.495170 5:+9685223 MsaT025540.1:CDS
GATCCGGTTTATGGTTGTGT+TGG 0.495699 5:+9684960 MsaT025540.1:CDS
AGACCAACACAACCATAAAC+CGG 0.496772 5:-9684963 None:intergenic
GTGTCCCCAGTTTCTGCTGT+TGG 0.507305 5:+9685410 MsaT025540.1:CDS
GTGCGGCGTGTAAGTTTCTC+CGG 0.509242 5:+9684754 MsaT025540.1:CDS
GGTAAAGAGAATTACCAAAA+GGG 0.512111 5:-9685127 None:intergenic
AGCGAGGAGTGTAGGAGTGT+TGG 0.514933 5:+9685644 MsaT025540.1:CDS
TGTGCACCCGCGGTTACCGC+GGG 0.515303 5:-9685167 None:intergenic
CATAAGCTAAGAGCTATTCA+AGG 0.519225 5:+9685002 MsaT025540.1:CDS
TGATGACGCGGTTAAGTCGT+TGG 0.519238 5:+9684911 MsaT025540.1:CDS
GGATTGTCCGGTGGAAAATA+CGG 0.519970 5:-9684807 None:intergenic
CGGATCCCTCAGCCGCGCCT+CGG 0.522353 5:-9684943 None:intergenic
TGAGGCCGAGGCGCGGCTGA+GGG 0.524798 5:+9684938 MsaT025540.1:CDS
GTTTCTAATTCTTCTGCTGG+TGG 0.536833 5:+9685374 MsaT025540.1:CDS
GAGTGTAGGAGTGTTGGACT+TGG 0.536956 5:+9685650 MsaT025540.1:CDS
AGACGGAAAGCGAGGAGTGT+AGG 0.539133 5:+9685636 MsaT025540.1:CDS
GTTTAGTGGTGGGTTTGATG+TGG 0.541632 5:+9685346 MsaT025540.1:CDS
AAAGATCCCAAAGCCAAAGA+AGG 0.541675 5:-9685455 None:intergenic
TGTTGCTGAAGAATCGTTGT+GGG 0.541846 5:-9685089 None:intergenic
CCCGCAGCAGACGCCTGCTG+CGG 0.542542 5:+9685205 MsaT025540.1:CDS
TCTCTTTACCCTTATAATGG+TGG 0.546514 5:+9685140 MsaT025540.1:CDS
GTCGTTGGCTTATGAGGCCG+AGG 0.551333 5:+9684926 MsaT025540.1:CDS
TGGTGTTCCCGCGGTAACCG+CGG 0.556227 5:+9685160 MsaT025540.1:CDS
CAACAAGCACAACAAGGACA+AGG 0.557226 5:+9685500 MsaT025540.1:CDS
CGCGACGCAGCGTGATGACG+CGG 0.567241 5:+9684899 MsaT025540.1:CDS
ATCATCAAATTCACCGTGTG+CGG 0.568953 5:+9684737 MsaT025540.1:CDS
AACACCAACAGCAGAAACTG+GGG 0.572504 5:-9685414 None:intergenic
TGTGCTTGCTTCTGTTGTGG+TGG 0.587755 5:-9685593 None:intergenic
AGTAATAGCTGAGCCTGAAG+TGG 0.590089 5:-9685569 None:intergenic
TGGCTTATGAGGCCGAGGCG+CGG 0.601042 5:+9684931 MsaT025540.1:CDS
CTGTTGCTGAAGAATCGTTG+TGG 0.605192 5:-9685090 None:intergenic
AAATTTGAAAATCAACAAGA+AGG 0.611014 5:-9685674 None:intergenic
ACAAACTCATCAACAACAGA+CGG 0.618822 5:+9685619 MsaT025540.1:CDS
AATCACCATTTGTGCACCCG+CGG 0.620661 5:-9685177 None:intergenic
GGAATACCTTGAAGCGCCTG+AGG 0.633316 5:-9685068 None:intergenic
CACATGCAACAAGCACAACA+AGG 0.635119 5:+9685494 MsaT025540.1:CDS
AGAAACTTACACGCCGCACA+CGG 0.639705 5:-9684750 None:intergenic
CAAGCACAACAAGGACAAGG+AGG 0.641075 5:+9685503 MsaT025540.1:CDS
TTATAATGGTGGTGTTCCCG+CGG 0.653196 5:+9685151 MsaT025540.1:CDS
AATCTTTGAGGATTGTCCGG+TGG 0.653598 5:-9684816 None:intergenic
TCAACAACAGACGGAAAGCG+AGG 0.658343 5:+9685628 MsaT025540.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 9684729 9685685 9684729 ID=MsaG025540
Chr5 mRNA 9684729 9685685 9684729 ID=MsaT025540.1;Parent=MsaG025540
Chr5 exon 9684729 9685685 9684729 ID=MsaT025540.1.exon1;Parent=MsaT025540.1
Chr5 CDS 9684729 9685685 9684729 ID=cds.MsaT025540.1;Parent=MsaT025540.1
Gene Sequence

>MsaT025540.1

ATGTCGTCATCATCAAATTCACCGTGTGCGGCGTGTAAGTTTCTCCGGCGAAAATGCACTCAAGAGTGTGTTTTTGCACCGTATTTTCCACCGGACAATCCTCAAAGATTTGCATATGTACACAAAGTTTTTGGAGCTAGTAACGTGGCTAAGCTGTTAAACGAGCTTAACGCGACGCAGCGTGATGACGCGGTTAAGTCGTTGGCTTATGAGGCCGAGGCGCGGCTGAGGGATCCGGTTTATGGTTGTGTTGGTCTTATTTCACTTCTTCAGCATAAGCTAAGAGCTATTCAAGGTGAACTTAATAATGCTAAGAAGGAACTTGCTACTTATATTGGTCCTCAGGCGCTTCAAGGTATTCCCACAACGATTCTTCAGCAACAGCAGCAGCATAATAACCCTTTTGGTAATTCTCTTTACCCTTATAATGGTGGTGTTCCCGCGGTAACCGCGGGTGCACAAATGGTGATTCGTGACCCGCAGCAGACGCCTGCTGCGGCTCAACATCAGATCTTGGAAGCTCAACAATTGGCTGCTGCTGTTGCTGCTAGAGAGCAGCAAGAGATTTTTAGGACTTTTGAGAATCAACAACAGCAGCAACAGCAAGAGTTTTTGAGGTTTAGTGGTGGGTTTGATGTGGATTCAGTTTCTAATTCTTCTGCTGGTGGTGGGTTCAACCAAGTGTCCCCAGTTTCTGCTGTTGGTGTTGCTGCTGATCAATTGTCTCCTTCTTTGGCTTTGGGATCTTTTGATAACACTTATCATCACATGCAACAAGCACAACAAGGACAAGGAGGAGAATCTCATAATCTTCATCATCATCATAATCATCATCATCTTCCACTTCAGGCTCAGCTATTACTTCCACCACAACAGAAGCAAGCACAGCCACAAACTCATCAACAACAGACGGAAAGCGAGGAGTGTAGGAGTGTTGGACTTGGTCCTTCTTGTTGA
Protein sequence

>MsaT025540.1

MSSSSNSPCAACKFLRRKCTQECVFAPYFPPDNPQRFAYVHKVFGASNVAKLLNELNATQRDDAVKSLAYEAEARLRDPVYGCVGLISLLQHKLRAIQGELNNAKKELATYIGPQALQGIPTTILQQQQQHNNPFGNSLYPYNGGVPAVTAGAQMVIRDPQQTPAAAQHQILEAQQLAAAVAAREQQEIFRTFENQQQQQQQEFLRFSGGFDVDSVSNSSAGGGFNQVSPVSAVGVAADQLSPSLALGSFDNTYHHMQQAQQGQGGESHNLHHHHNHHHLPLQAQLLLPPQQKQAQPQTHQQQTESEECRSVGLGPSC*