AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005816

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005816 MtrunA17_Chr1g0212151 91.808 354 22 1 1 354 1 347 0.0 653
MsaG005816 MtrunA17_Chr6g0457851 73.034 356 84 2 1 354 11 356 0.0 531
MsaG005816 MtrunA17_Chr6g0449861 61.389 360 120 6 1 354 9 355 1.57e-145 415
MsaG005816 MtrunA17_Chr6g0449851 57.020 349 109 4 1 349 1 308 7.59e-134 384
MsaG005816 MtrunA17_Chr4g0059631 41.935 155 87 1 1 155 1 152 4.56e-36 131
MsaG005816 MtrunA17_Chr1g0212471 32.973 185 123 1 1 185 1 184 2.81e-33 122
MsaG005816 MtrunA17_Chr4g0022641 35.000 200 117 3 1 200 1 187 6.67e-32 123
MsaG005816 MtrunA17_Chr2g0303981 38.365 159 93 2 3 160 5 159 1.87e-29 112
MsaG005816 MtrunA17_Chr5g0432691 34.454 119 70 4 1 118 1 112 6.61e-16 74.3
MsaG005816 MtrunA17_Chr3g0134451 33.945 109 64 3 1 109 1 101 4.08e-14 72.4
MsaG005816 MtrunA17_Chr4g0014321 35.897 117 60 4 1 116 1 103 2.13e-13 68.9
MsaG005816 MtrunA17_Chr3g0107381 23.478 230 153 8 1 216 1 221 2.67e-13 68.6
MsaG005816 MtrunA17_Chr8g0379021 30.921 152 94 5 2 144 12 161 6.70e-12 63.5
MsaG005816 MtrunA17_Chr2g0284911 25.238 210 138 6 1 203 16 213 8.43e-12 64.7
MsaG005816 MtrunA17_Chr2g0333981 25.714 140 100 2 1 136 11 150 2.31e-11 62.0
MsaG005816 MtrunA17_Chr2g0283941 31.481 108 66 4 2 108 3 103 3.14e-11 62.8
MsaG005816 MtrunA17_Chr3g0107351 31.897 116 70 4 3 116 2 110 5.05e-11 60.8
MsaG005816 MtrunA17_Chr8g0376821 35.802 81 40 1 1 69 1 81 5.15e-11 61.2
MsaG005816 MtrunA17_Chr1g0197321 42.188 64 32 2 1 64 1 59 5.56e-11 60.5
MsaG005816 MtrunA17_Chr3g0107331 30.909 110 69 3 3 111 2 105 9.56e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005816 AT5G55690.1 39.310 145 80 2 1 144 1 138 5.72e-25 102
MsaG005816 AT5G55690.2 39.310 145 80 2 1 144 1 138 5.72e-25 102
MsaG005816 AT5G58890.1 27.189 217 136 6 6 219 6 203 1.32e-18 85.5
MsaG005816 AT3G18650.1 34.815 135 74 5 16 144 31 157 2.98e-15 76.6
MsaG005816 AT1G22590.2 29.677 155 98 3 1 150 1 149 4.85e-13 67.0
MsaG005816 AT1G65300.1 33.636 110 64 4 5 112 4 106 5.99e-13 68.9
MsaG005816 AT1G65330.1 33.333 111 67 4 3 112 2 106 1.01e-12 68.2
MsaG005816 AT3G05860.3 28.426 197 117 6 1 185 1 185 1.06e-12 67.8
MsaG005816 AT5G23260.3 26.087 207 130 6 1 202 1 189 1.09e-12 67.4
MsaG005816 AT3G05860.2 37.662 77 42 2 1 77 1 71 1.21e-12 66.6
MsaG005816 AT3G05860.1 37.662 77 42 2 1 77 1 71 1.80e-12 67.0
MsaG005816 AT2G28700.1 27.647 170 103 6 1 164 1 156 2.33e-12 67.8
MsaG005816 AT2G40210.1 32.692 104 63 3 1 103 1 98 2.64e-12 67.8
MsaG005816 AT5G23260.1 25.000 216 130 6 1 202 17 214 7.79e-12 65.5
MsaG005816 AT2G42830.1 28.387 155 96 5 1 152 16 158 1.12e-11 64.7
MsaG005816 AT2G42830.2 28.387 155 96 5 1 152 16 158 1.22e-11 64.7
MsaG005816 AT5G23260.2 24.434 221 130 6 1 202 1 203 2.24e-11 63.9
MsaG005816 AT5G23260.4 24.434 221 130 6 1 202 17 219 3.41e-11 63.5
MsaG005816 AT5G26650.1 30.088 113 72 4 5 116 3 109 3.49e-11 64.3
MsaG005816 AT4G09960.1 27.215 158 98 5 1 154 1 145 4.18e-11 62.8
MsaG005816 AT4G09960.6 27.215 158 98 5 1 154 2 146 4.79e-11 62.4
MsaG005816 AT4G09960.5 27.848 158 97 5 1 154 11 155 4.87e-11 62.8
MsaG005816 AT2G03060.3 23.864 176 119 5 1 173 1 164 5.76e-11 63.5
MsaG005816 AT2G03060.7 23.864 176 119 5 1 173 1 164 5.76e-11 63.5
MsaG005816 AT2G03060.1 23.864 176 119 5 1 173 1 164 5.76e-11 63.5
MsaG005816 AT2G03060.2 23.864 176 119 5 1 173 1 164 7.97e-11 63.2
MsaG005816 AT5G13790.2 31.967 122 74 3 1 122 1 113 8.44e-11 62.4

Find 80 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCCTTTCCATATTGATTT+TGG 0.055519 1:+85473449 None:intergenic
CAACATGGATTTCAACTTAA+TGG 0.148999 1:-85473309 MsaT005816.1:CDS
TTGATGTTAATGGGGCTATT+TGG 0.157009 1:-85473536 MsaT005816.1:CDS
TTGTCCTTAGGCCATGTTTC+AGG 0.193367 1:+85474119 None:intergenic
TACAAGAATATTGATGTTAA+TGG 0.237026 1:-85473546 MsaT005816.1:CDS
AAATCCTCGACCTACAAAAT+TGG 0.237707 1:+85474148 None:intergenic
GCATTTCCATTGTAATAGTA+TGG 0.257144 1:+85473396 None:intergenic
ACTTCCGTGATTTCTCCTTT+TGG 0.266267 1:+85474264 None:intergenic
TGATGTTAATGGGGCTATTT+GGG 0.293419 1:-85473535 MsaT005816.1:CDS
ACAAGAATATTGATGTTAAT+GGG 0.303821 1:-85473545 MsaT005816.1:CDS
GGTTATCAGGACCGATGCTT+CGG 0.326389 1:-85473477 MsaT005816.1:CDS
GATATTATTTGCTAGCAAAC+TGG 0.357133 1:-85473898 MsaT005816.1:CDS
AATGAATCTTTCAATTCTCT+TGG 0.359377 1:-85473933 MsaT005816.1:CDS
GATTTGAGAGATTCTGAAAA+GGG 0.362382 1:+85473334 None:intergenic
GGGTCGTGGAAGAATATCTA+TGG 0.367126 1:-85474294 MsaT005816.1:CDS
ATTAACATCAATATTCTTGT+AGG 0.368101 1:+85473548 None:intergenic
TGGGGCTATTTGGGCCAATC+AGG 0.368127 1:-85473526 MsaT005816.1:CDS
TCTTGAACATCATAGATCTT+AGG 0.373714 1:+85474041 None:intergenic
ATGGTGCGAGCTTTGTATAT+TGG 0.377737 1:+85473608 None:intergenic
CGGGCTTCCCAAAATCAATA+TGG 0.380849 1:-85473457 MsaT005816.1:CDS
ATCATTAGCATTAACCTGAT+TGG 0.383785 1:+85473512 None:intergenic
GTTATCAGGACCGATGCTTC+GGG 0.385864 1:-85473476 MsaT005816.1:CDS
TATGCTAAAAGAAGATCATA+AGG 0.417664 1:-85473841 MsaT005816.1:CDS
AAGGAAGGATGGAGCTGAAA+AGG 0.426747 1:-85473433 MsaT005816.1:CDS
TTATCACTAATATTCATCAT+TGG 0.435936 1:+85473693 None:intergenic
AACATCAACATCACAAAGAA+TGG 0.436469 1:+85474190 None:intergenic
ACTATAACACAACAAATGAT+AGG 0.448494 1:-85474067 MsaT005816.1:CDS
AGATTTGAGAGATTCTGAAA+AGG 0.451030 1:+85473333 None:intergenic
AATCCTCGACCTACAAAATT+GGG 0.455489 1:+85474149 None:intergenic
TTAACATCAATATTCTTGTA+GGG 0.460944 1:+85473549 None:intergenic
GGGAGAGTGTGCAAGGCAAT+AGG 0.469982 1:+85473354 None:intergenic
ATGCTAATGATACCTACAAT+GGG 0.473473 1:-85473500 MsaT005816.1:CDS
TAGTTTCTCTTTACGCACTT+TGG 0.478267 1:+85473977 None:intergenic
CAAGCTCATATGTTCATGAA+TGG 0.478657 1:-85473264 MsaT005816.1:CDS
ATCTATGGAACTCATCCAAA+AGG 0.478947 1:-85474279 MsaT005816.1:CDS
GAAGGTTGAGAGCTTTGTCC+CGG 0.483719 1:+85473642 None:intergenic
TTGAAAGATTCATTCCAAGT+TGG 0.490806 1:+85473942 None:intergenic
TCACTAATATTCATCATTGG+AGG 0.494747 1:+85473696 None:intergenic
ATCAATATGGAAAGGAAGGA+TGG 0.505258 1:-85473444 MsaT005816.1:CDS
CAAAATCAATATGGAAAGGA+AGG 0.508161 1:-85473448 MsaT005816.1:CDS
GGAGGATATGTTTGTGCTTG+AGG 0.512165 1:+85473714 None:intergenic
GTCAACATTTCAAAAGAGAA+AGG 0.514992 1:-85474243 MsaT005816.1:CDS
TTGAAGTGGCCAAAACCCTA+AGG 0.517435 1:+85473665 None:intergenic
CTTGGATTTGCGGTCAAGGA+AGG 0.534446 1:+85473768 None:intergenic
CTCATATGTTCATGAATGGA+AGG 0.537554 1:-85473260 MsaT005816.1:CDS
TCGTCACCATACTATTACAA+TGG 0.539170 1:-85473402 MsaT005816.1:CDS
TAAAGATGATGTATCCAACT+TGG 0.548629 1:-85473956 MsaT005816.1:CDS
GTAACTTGGATTTGCGGTCA+AGG 0.551618 1:+85473764 None:intergenic
ATGAGATTGAAGTAGTAACT+TGG 0.551706 1:+85473750 None:intergenic
ATCTTTCAATTCTCTTGGAG+CGG 0.552140 1:-85473928 MsaT005816.1:CDS
ACTTAATGGATTCAATGCTA+AGG 0.552446 1:-85473295 MsaT005816.1:CDS
GAAGTAGTAACTTGGATTTG+CGG 0.553040 1:+85473758 None:intergenic
ATATTGGAAATCAAAGAAGA+AGG 0.553651 1:+85473624 None:intergenic
ATGCTAAAAGAAGATCATAA+GGG 0.556585 1:-85473840 MsaT005816.1:CDS
ACATTTCAAAAGAGAAAGGA+AGG 0.560555 1:-85474239 MsaT005816.1:CDS
GAGCTTTGTCCCGGTTGAAG+TGG 0.560628 1:+85473651 None:intergenic
AATGCTAATGATACCTACAA+TGG 0.561788 1:-85473501 MsaT005816.1:CDS
TGAAGTGGCCAAAACCCTAA+GGG 0.571128 1:+85473666 None:intergenic
TATTCGTAGAAAATGGGTCG+TGG 0.573273 1:-85474308 None:intergenic
TTCCCAAAATCAATATGGAA+AGG 0.576621 1:-85473452 MsaT005816.1:CDS
CTCGCACCATGTGGAGTCTG+AGG 0.578924 1:-85473595 MsaT005816.1:CDS
ATATGTTTGTGCTTGAGGCA+TGG 0.580081 1:+85473719 None:intergenic
CTGAAAAGGGAGAGTGTGCA+AGG 0.587535 1:+85473347 None:intergenic
CACCATGTGGAGTCTGAGGA+GGG 0.590680 1:-85473591 MsaT005816.1:CDS
TAACATCAATATTCTTGTAG+GGG 0.591713 1:+85473550 None:intergenic
TCATCCAAAAGGAGAAATCA+CGG 0.593512 1:-85474268 MsaT005816.1:CDS
CAAGAATATTGATGTTAATG+GGG 0.607609 1:-85473544 MsaT005816.1:CDS
TGAACCTGAAACATGGCCTA+AGG 0.608253 1:-85474123 MsaT005816.1:CDS
CTATTACAATGGAAATGCAA+TGG 0.613734 1:-85473391 MsaT005816.1:CDS
GCACCATGTGGAGTCTGAGG+AGG 0.614956 1:-85473592 MsaT005816.1:CDS
GATTTGCTGAACCTGAAACA+TGG 0.621087 1:-85474130 MsaT005816.1:CDS
TACCCTCCTCAGACTCCACA+TGG 0.630866 1:+85473589 None:intergenic
AAGGACAAAAGAGAGGTGCA+TGG 0.644602 1:-85474104 MsaT005816.1:CDS
GAAGTGGCCAAAACCCTAAG+GGG 0.646061 1:+85473667 None:intergenic
AATCTCTCAAATCTACAACA+TGG 0.661149 1:-85473324 MsaT005816.1:CDS
TATACAAAGCTCGCACCATG+TGG 0.663687 1:-85473604 MsaT005816.1:CDS
GCTAATGATACCTACAATGG+GGG 0.667333 1:-85473498 MsaT005816.1:CDS
TGCTAATGATACCTACAATG+GGG 0.672222 1:-85473499 MsaT005816.1:CDS
ATGGCCTAAGGACAAAAGAG+AGG 0.693604 1:-85474111 MsaT005816.1:CDS
AATAGCTCATGAATCACACA+AGG 0.705760 1:-85473811 MsaT005816.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 85473254 85474318 85473254 ID=MsaG005816
Chr1 mRNA 85473254 85474318 85473254 ID=MsaT005816.1;Parent=MsaG005816
Chr1 exon 85473254 85474318 85473254 ID=MsaT005816.1.exon1;Parent=MsaT005816.1
Chr1 CDS 85473254 85474318 85473254 ID=cds.MsaT005816.1;Parent=MsaT005816.1
Gene Sequence

>MsaT005816.1

ATGGGTCGTGGAAGAATATCTATGGAACTCATCCAAAAGGAGAAATCACGGAAGTCAACATTTCAAAAGAGAAAGGAAGGATTAATGAAAAAAGTGAATGAATTTTCCATTCTTTGTGATGTTGATGTTTGTGTAGTTCTCTATGCTCCCAATTTTGTAGGTCGAGGATTTGCTGAACCTGAAACATGGCCTAAGGACAAAAGAGAGGTGCATGGAATCCTTCAAAAGTACTATAACACAACAAATGATAGGCGTCCTAAGATCTATGATGTTCAAGAGTATTTTAAGGAAAGGATGAGAAAACTTGAATTTGAGATTTCCAAAGTGCGTAAAGAGAAACTAAAGATGATGTATCCAACTTGGAATGAATCTTTCAATTCTCTTGGAGCGGAACAACTGATATTATTTGCTAGCAAACTGGAAGCTAAGCTTGATGCTTGTAATCAAAAGAAGCATATGCTAAAAGAAGATCATAAGGGAAAAACAATAGCTCATGAATCACACAAGGTAGATAAACTTATCAGTACTCCTTCCTTGACCGCAAATCCAAGTTACTACTTCAATCTCATGCAAAATTCCATGCCTCAAGCACAAACATATCCTCCAATGATGAATATTAGTGATAAAAACCCCTTAGGGTTTTGGCCACTTCAACCGGGACAAAGCTCTCAACCTTCTTCTTTGATTTCCAATATACAAAGCTCGCACCATGTGGAGTCTGAGGAGGGTAGATTTGTGCAGTCTTACCCCTACAAGAATATTGATGTTAATGGGGCTATTTGGGCCAATCAGGTTAATGCTAATGATACCTACAATGGGGGTTATCAGGACCGATGCTTCGGGCTTCCCAAAATCAATATGGAAAGGAAGGATGGAGCTGAAAAGGATGAAAACTCGTCACCATACTATTACAATGGAAATGCAATGGCAATGCAATCAAATCCTATTGCCTTGCACACTCTCCCTTTTCAGAATCTCTCAAATCTACAACATGGATTTCAACTTAATGGATTCAATGCTAAGGATATTCTGCAAGCTCATATGTTCATGAATGGAAGGAAGTAG
Protein sequence

>MsaT005816.1

MGRGRISMELIQKEKSRKSTFQKRKEGLMKKVNEFSILCDVDVCVVLYAPNFVGRGFAEPETWPKDKREVHGILQKYYNTTNDRRPKIYDVQEYFKERMRKLEFEISKVRKEKLKMMYPTWNESFNSLGAEQLILFASKLEAKLDACNQKKHMLKEDHKGKTIAHESHKVDKLISTPSLTANPSYYFNLMQNSMPQAQTYPPMMNISDKNPLGFWPLQPGQSSQPSSLISNIQSSHHVESEEGRFVQSYPYKNIDVNGAIWANQVNANDTYNGGYQDRCFGLPKINMERKDGAEKDENSSPYYYNGNAMAMQSNPIALHTLPFQNLSNLQHGFQLNGFNAKDILQAHMFMNGRK*