AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013350

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013350 MtrunA17_Chr3g0095611 98.551 69 1 0 1 69 1 69 1.13e-45 147
MsaG013350 MtrunA17_Chr2g0288601 61.905 63 24 0 7 69 59 121 4.74e-24 89.4
MsaG013350 MtrunA17_Chr8g0379121 57.576 66 28 0 4 69 96 161 6.14e-23 92.0
MsaG013350 MtrunA17_Chr1g0162931 66.102 59 20 0 11 69 10 68 1.34e-22 89.4
MsaG013350 MtrunA17_Chr2g0320231 62.295 61 23 0 9 69 87 147 2.79e-22 89.7
MsaG013350 MtrunA17_Chr2g0283951 59.091 66 27 0 4 69 74 139 3.17e-22 89.7
MsaG013350 MtrunA17_Chr1g0210911 61.667 60 23 0 10 69 13 72 6.83e-22 88.2
MsaG013350 MtrunA17_Chr7g0243081 53.623 69 32 0 1 69 53 121 1.18e-21 87.8
MsaG013350 MtrunA17_Chr1g0190301 56.061 66 28 1 4 69 161 225 2.05e-19 82.0
MsaG013350 MtrunA17_Chr7g0274471 55.172 58 26 0 19 76 218 275 2.91e-18 79.0
MsaG013350 MtrunA17_Chr7g0261911 53.448 58 27 0 19 76 262 319 1.03e-17 77.4
MsaG013350 MtrunA17_Chr5g0417521 56.863 51 22 0 19 69 15 65 1.96e-17 76.3
MsaG013350 MtrunA17_Chr5g0409731 41.935 93 42 2 8 93 7 94 1.74e-16 73.2
MsaG013350 MtrunA17_Chr6g0461641 54.902 51 23 0 19 69 42 92 1.80e-16 73.9
MsaG013350 MtrunA17_Chr8g0356501 62.745 51 19 0 19 69 37 87 2.67e-16 73.2
MsaG013350 MtrunA17_Chr2g0321461 48.485 66 33 1 4 69 31 95 5.27e-16 72.4
MsaG013350 MtrunA17_Chr2g0310011 62.745 51 19 0 19 69 35 85 6.65e-16 72.0
MsaG013350 MtrunA17_Chr6g0479431 39.759 83 46 1 18 100 201 279 1.17e-15 71.2
MsaG013350 MtrunA17_Chr2g0291021 44.156 77 41 1 21 95 51 127 3.42e-15 70.1
MsaG013350 MtrunA17_Chr1g0175081 48.333 60 31 0 17 76 20 79 5.34e-15 65.5
MsaG013350 MtrunA17_Chr7g0258551 56.604 53 23 0 17 69 210 262 6.08e-15 69.3
MsaG013350 MtrunA17_Chr1g0197171 60.784 51 20 0 19 69 44 94 6.12e-15 68.9
MsaG013350 MtrunA17_Chr8g0366281 55.769 52 23 0 18 69 172 223 6.30e-15 69.3
MsaG013350 MtrunA17_Chr1g0154261 44.928 69 36 1 1 69 110 176 6.62e-15 68.9
MsaG013350 MtrunA17_Chr5g0410741 53.846 52 24 0 18 69 218 269 1.32e-14 68.6
MsaG013350 MtrunA17_Chr3g0109981 53.846 52 24 0 18 69 273 324 1.55e-14 68.6
MsaG013350 MtrunA17_Chr2g0290991 58.824 51 21 0 19 69 39 89 1.97e-14 67.8
MsaG013350 MtrunA17_Chr7g0254981 57.143 49 21 0 21 69 52 100 2.03e-14 67.4
MsaG013350 MtrunA17_Chr1g0175091 54.717 53 24 0 17 69 256 308 4.75e-14 67.0
MsaG013350 MtrunA17_Chr1g0175071 45.570 79 41 1 21 97 179 257 5.56e-14 66.6
MsaG013350 MtrunA17_Chr4g0042451 50.980 51 25 0 19 69 17 67 1.13e-13 65.9
MsaG013350 MtrunA17_Chr4g0009991 54.717 53 23 1 17 69 65 116 2.24e-13 62.0
MsaG013350 MtrunA17_Chr7g0258531 53.704 54 25 0 21 74 215 268 4.94e-13 63.9
MsaG013350 MtrunA17_Chr7g0242521 45.122 82 39 2 6 84 3 81 5.42e-13 63.2
MsaG013350 MtrunA17_Chr4g0009901 50.847 59 28 1 11 69 160 217 1.88e-12 62.0
MsaG013350 MtrunA17_Chr1g0161431 56.604 53 22 1 17 69 198 249 1.15e-11 60.5
MsaG013350 MtrunA17_Chr4g0031961 49.180 61 30 1 9 69 121 180 4.96e-11 58.2
MsaG013350 MtrunA17_Chr4g0045361 49.057 53 27 0 17 69 272 324 8.72e-11 57.8
MsaG013350 MtrunA17_Chr4g0074421 49.153 59 29 1 18 76 132 189 9.51e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013350 AT2G02060.2 60.000 70 28 0 4 73 14 83 1.81e-23 91.7
MsaG013350 AT2G02060.1 60.000 70 28 0 4 73 14 83 1.81e-23 91.7
MsaG013350 AT2G40260.1 61.765 68 25 1 3 69 65 132 9.88e-23 91.7
MsaG013350 AT1G14600.1 56.164 73 32 0 2 74 6 78 1.69e-22 89.0
MsaG013350 AT2G42660.1 61.017 59 23 0 11 69 42 100 1.06e-21 87.0
MsaG013350 AT4G04605.1 58.730 63 26 0 11 73 6 68 2.71e-21 85.1
MsaG013350 AT2G38300.1 57.812 64 27 0 6 69 41 104 7.72e-21 85.9
MsaG013350 AT4G04555.1 57.627 59 25 0 11 69 6 64 6.30e-18 73.6
MsaG013350 AT4G04580.1 52.542 59 28 0 11 69 6 64 1.48e-17 74.3
MsaG013350 AT3G04030.1 35.593 118 68 3 1 115 28 140 6.00e-17 75.5
MsaG013350 AT4G28610.1 55.357 56 25 0 21 76 227 282 6.28e-17 75.5
MsaG013350 AT3G04030.3 35.593 118 68 3 1 115 28 140 7.25e-17 75.5
MsaG013350 AT4G13640.1 56.667 60 26 0 19 78 37 96 1.09e-16 73.9
MsaG013350 AT4G13640.2 56.667 60 26 0 19 78 37 96 1.16e-16 73.9
MsaG013350 AT5G45580.1 55.556 54 24 0 16 69 4 57 1.57e-16 73.2
MsaG013350 AT5G45580.2 55.556 54 24 0 16 69 20 73 1.59e-16 73.6
MsaG013350 AT2G01060.1 53.623 69 28 2 1 69 1 65 1.76e-16 73.6
MsaG013350 AT3G24120.1 62.745 51 19 0 19 69 41 91 2.26e-16 73.2
MsaG013350 AT3G24120.2 62.745 51 19 0 19 69 41 91 2.32e-16 73.2
MsaG013350 AT5G18240.2 47.826 69 35 1 1 69 28 95 3.83e-16 73.2
MsaG013350 AT5G18240.3 47.826 69 35 1 1 69 28 95 3.83e-16 73.2
MsaG013350 AT5G18240.1 47.826 69 35 1 1 69 28 95 4.21e-16 73.2
MsaG013350 AT5G18240.4 47.826 69 35 1 1 69 28 95 4.21e-16 73.2
MsaG013350 AT1G79430.2 62.745 51 19 0 19 69 34 84 4.25e-16 73.2
MsaG013350 AT5G18240.5 47.826 69 35 1 1 69 28 95 4.44e-16 73.2
MsaG013350 AT3G12730.1 60.784 51 20 0 19 69 23 73 8.12e-16 70.9
MsaG013350 AT5G42630.2 46.154 65 33 1 18 82 104 166 3.21e-15 69.3
MsaG013350 AT2G20400.2 53.571 56 26 0 21 76 233 288 3.32e-15 70.5
MsaG013350 AT2G20400.1 53.571 56 26 0 21 76 233 288 3.41e-15 70.5
MsaG013350 AT5G42630.1 46.154 65 33 1 18 82 104 166 5.93e-15 69.3
MsaG013350 AT1G32240.2 53.846 52 24 0 18 69 212 263 9.86e-15 69.3
MsaG013350 AT5G29000.4 46.479 71 37 1 6 76 219 288 1.09e-14 68.9
MsaG013350 AT1G32240.1 53.846 52 24 0 18 69 212 263 1.10e-14 69.3
MsaG013350 AT5G29000.1 46.479 71 37 1 6 76 176 245 1.18e-14 68.9
MsaG013350 AT5G29000.3 46.479 71 37 1 6 76 176 245 1.18e-14 68.9
MsaG013350 AT5G29000.2 46.479 71 37 1 6 76 219 288 1.27e-14 68.9
MsaG013350 AT5G16560.1 53.846 52 24 0 18 69 218 269 1.40e-14 68.9
MsaG013350 AT3G04450.3 48.333 60 30 1 17 76 237 295 1.46e-14 68.6
MsaG013350 AT3G04450.1 48.333 60 30 1 17 76 237 295 1.84e-14 68.6
MsaG013350 AT3G04450.4 48.333 60 30 1 17 76 197 255 2.03e-14 68.6
MsaG013350 AT3G04450.2 48.333 60 30 1 17 76 197 255 2.03e-14 68.6
MsaG013350 AT4G17695.1 50.000 52 26 0 18 69 163 214 2.20e-14 68.2
MsaG013350 AT2G06020.1 48.214 56 29 0 14 69 81 136 3.38e-14 67.4
MsaG013350 AT5G06800.3 53.571 56 26 0 21 76 194 249 4.04e-14 67.0
MsaG013350 AT3G13040.3 57.143 49 21 0 21 69 243 291 6.54e-14 67.0
MsaG013350 AT3G13040.1 57.143 49 21 0 21 69 243 291 6.54e-14 67.0
MsaG013350 AT3G13040.2 57.143 49 21 0 21 69 243 291 6.54e-14 67.0
MsaG013350 AT3G04030.2 33.898 118 69 4 1 115 28 139 6.66e-14 67.0
MsaG013350 AT5G06800.2 53.571 56 26 0 21 76 194 249 7.84e-14 66.6
MsaG013350 AT5G06800.1 53.571 56 26 0 21 76 194 249 7.91e-14 66.6
MsaG013350 AT1G69580.2 49.020 51 26 0 19 69 34 84 1.44e-13 65.9
MsaG013350 AT1G69580.1 49.020 51 26 0 19 69 34 84 1.45e-13 65.9
MsaG013350 AT5G44190.1 54.717 53 23 1 18 70 146 197 2.85e-11 59.3
MsaG013350 AT5G44190.2 55.769 52 22 1 18 69 146 196 5.58e-11 58.5
MsaG013350 AT3G62670.1 45.588 68 32 2 17 79 209 276 6.07e-11 58.5

Find 21 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTACCTTTGGGGTGAACAAC+TGG 0.338441 3:-49907333 None:intergenic
ATCATATTCAAAATGTGTTT+AGG 0.358434 3:-49904908 None:intergenic
ACAAAGTATTGATGAAGTTC+CGG 0.415452 3:-49904568 None:intergenic
GTTCAAACTGTTGAAAGTCT+TGG 0.422209 3:+49904589 MsaT013350.1:CDS
AACTATTCTTGCACCAACAC+TGG 0.497047 3:+49907271 MsaT013350.1:CDS
AACAATAATTCTAAGAGAAG+TGG 0.514149 3:+49904499 MsaT013350.1:CDS
TTGAATATGATGCAAGTGAA+GGG 0.529830 3:+49904920 MsaT013350.1:CDS
CAAAACAGCCACGCCTTCGA+TGG 0.531209 3:+49904542 MsaT013350.1:CDS
TTTGAATATGATGCAAGTGA+AGG 0.533245 3:+49904919 MsaT013350.1:CDS
GGTGAACAACTGGAGCAGAT+TGG 0.536299 3:-49907323 None:intergenic
TCCGGTGTCCATCGAAGGCG+TGG 0.541150 3:-49904550 None:intergenic
CCATATTAAAAGTCATCTCC+AGG 0.551481 3:+49904955 MsaT013350.1:CDS
TTTGATAAAATTTACCTTTG+GGG 0.582723 3:-49907344 None:intergenic
GAAGTTCCGGTGTCCATCGA+AGG 0.585063 3:-49904555 None:intergenic
CAAACTGTTGAAAGTCTTGG+TGG 0.585108 3:+49904592 MsaT013350.1:CDS
GCTCCAGTTGTTCACCCCAA+AGG 0.588268 3:+49907330 MsaT013350.1:CDS
ACCAACACTGGAAGAAAACA+AGG 0.606646 3:+49907283 MsaT013350.1:CDS
GCCACGCCTTCGATGGACAC+CGG 0.606915 3:+49904549 MsaT013350.1:CDS
TTAGATGTACAGGAACGTGA+AGG 0.615592 3:+49907244 MsaT013350.1:intron
TAGATGTACAGGAACGTGAA+GGG 0.615844 3:+49907245 MsaT013350.1:intron
TGAATATGATGCAAGTGAAG+GGG 0.650743 3:+49904921 MsaT013350.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 49904493 49908883 49904493 ID=MsaG013350
Chr3 mRNA 49904493 49908883 49904493 ID=MsaT013350.1;Parent=MsaG013350
Chr3 exon 49904493 49904622 49904493 ID=MsaT013350.1.exon1;Parent=MsaT013350.1
Chr3 CDS 49904493 49904622 49904493 ID=cds.MsaT013350.1;Parent=MsaT013350.1
Chr3 exon 49904900 49904976 49904900 ID=MsaT013350.1.exon2;Parent=MsaT013350.1
Chr3 CDS 49904900 49904976 49904900 ID=cds.MsaT013350.1;Parent=MsaT013350.1
Chr3 exon 49907256 49907351 49907256 ID=MsaT013350.1.exon3;Parent=MsaT013350.1
Chr3 CDS 49907256 49907351 49907256 ID=cds.MsaT013350.1;Parent=MsaT013350.1
Chr3 exon 49908821 49908883 49908821 ID=MsaT013350.1.exon4;Parent=MsaT013350.1
Chr3 CDS 49908821 49908883 49908821 ID=cds.MsaT013350.1;Parent=MsaT013350.1
Gene Sequence

>MsaT013350.1

ATGAAGAACAATAATTCTAAGAGAAGTGGTGTAAGAAAATACCACAAATCAAAACAGCCACGCCTTCGATGGACACCGGAACTTCATCAATACTTTGTTCAAACTGTTGAAAGTCTTGGTGGAAAAGATAAGGCTAGTCCTAAACACATTTTGAATATGATGCAAGTGAAGGGGTTGAGAATCTCCCATATTAAAAGTCATCTCCAGGAACGTGAAGGGACAAACTATTCTTGCACCAACACTGGAAGAAAACAAGGCACAATTCAATCATCTTCCAATCTGCTCCAGTTGTTCACCCCAAAGATCGAGGAATATCAATCAAGAACTTCAACCTTTACACAACAAAAGACTTTCACAAGCAAGTGA
Protein sequence

>MsaT013350.1

MKNNNSKRSGVRKYHKSKQPRLRWTPELHQYFVQTVESLGGKDKASPKHILNMMQVKGLRISHIKSHLQEREGTNYSCTNTGRKQGTIQSSSNLLQLFTPKIEEYQSRTSTFTQQKTFTSK*