AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002943

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002943 MtrunA17_Chr1g0179781 100.000 200 0 0 1 200 4 203 3.94e-152 419
MsaG002943 MtrunA17_Chr7g0265291 78.607 201 40 2 1 199 4 203 1.01e-106 305
MsaG002943 MtrunA17_Chr5g0395181 55.612 196 79 4 4 199 21 208 1.98e-72 218
MsaG002943 MtrunA17_Chr5g0411151 54.680 203 79 4 4 199 35 231 5.65e-72 218
MsaG002943 MtrunA17_Chr8g0366581 55.340 206 73 5 4 199 33 229 3.40e-70 213
MsaG002943 MtrunA17_Chr4g0040071 53.465 202 81 4 4 199 15 209 3.94e-70 212
MsaG002943 MtrunA17_Chr2g0320521 38.136 236 100 7 1 198 4 231 7.78e-46 151
MsaG002943 MtrunA17_Chr4g0020811 50.714 140 59 4 1 131 4 142 3.80e-40 134
MsaG002943 MtrunA17_Chr2g0308401 50.714 140 59 4 1 131 2 140 4.85e-40 134
MsaG002943 MtrunA17_Chr2g0320561 46.951 164 74 6 1 155 1 160 3.90e-38 131
MsaG002943 MtrunA17_Chr2g0297251 34.375 224 117 5 4 199 37 258 4.41e-37 129
MsaG002943 MtrunA17_Chr2g0320551 47.857 140 63 3 1 131 2 140 2.94e-36 124
MsaG002943 MtrunA17_Chr7g0230511 38.608 158 93 4 2 158 7 161 5.35e-34 121
MsaG002943 MtrunA17_Chr4g0065041 42.188 128 72 2 4 131 8 133 1.84e-29 109
MsaG002943 MtrunA17_Chr8g0392151 36.054 147 70 6 6 131 15 158 4.85e-20 84.7
MsaG002943 MtrunA17_Chr5g0434331 30.303 198 101 7 4 198 43 206 3.62e-19 81.6
MsaG002943 MtrunA17_Chr8g0386511 32.075 159 96 3 43 198 4 153 4.01e-19 80.1
MsaG002943 MtrunA17_Chr4g0052451 42.169 83 42 1 56 132 10 92 1.05e-17 74.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002943 AT1G32700.1 53.769 199 86 3 4 199 12 207 3.19e-71 215
MsaG002943 AT2G27930.1 54.327 208 66 3 1 199 1 188 6.66e-68 206
MsaG002943 AT2G27930.4 54.327 208 66 3 1 199 1 188 6.66e-68 206
MsaG002943 AT1G76590.1 46.957 230 85 4 4 198 18 245 4.12e-65 201
MsaG002943 AT1G21000.2 45.923 233 86 6 4 198 13 243 1.69e-64 199
MsaG002943 AT1G21000.1 45.923 233 86 6 4 198 16 246 2.15e-64 199
MsaG002943 AT4G17900.2 51.471 204 81 7 4 199 20 213 3.08e-64 197
MsaG002943 AT4G17900.1 51.471 204 81 7 4 199 34 227 4.05e-64 198
MsaG002943 AT1G43000.2 45.540 213 99 5 1 198 13 223 1.45e-59 186
MsaG002943 AT1G43000.1 45.540 213 99 5 1 198 6 216 1.59e-59 186
MsaG002943 AT2G27930.3 61.290 155 51 1 1 146 1 155 8.56e-59 182
MsaG002943 AT2G27930.2 61.290 155 51 1 1 146 1 155 8.56e-59 182
MsaG002943 AT5G46710.3 48.744 199 97 4 4 198 12 209 2.04e-57 180
MsaG002943 AT5G46710.1 48.744 199 97 4 4 198 28 225 3.01e-57 180
MsaG002943 AT1G32700.2 52.632 171 75 3 32 199 1 168 1.24e-55 174
MsaG002943 AT5G46710.2 58.140 129 52 2 4 131 28 155 3.77e-49 157
MsaG002943 AT2G27930.5 52.318 151 43 3 58 199 61 191 9.46e-42 139
MsaG002943 AT2G27930.6 52.318 151 43 3 58 199 61 191 9.46e-42 139
MsaG002943 AT1G31040.1 34.802 227 113 8 4 198 19 242 4.46e-35 124
MsaG002943 AT3G60670.1 39.490 157 86 4 4 153 7 161 8.54e-31 113
MsaG002943 AT2G12646.1 43.750 128 70 2 4 131 6 131 1.97e-29 110
MsaG002943 AT2G12646.2 43.750 128 70 2 4 131 6 131 1.97e-29 110
MsaG002943 AT2G12646.3 43.077 130 72 2 2 131 1 128 2.05e-29 109
MsaG002943 AT2G01818.1 30.516 213 124 7 6 198 13 221 8.68e-23 91.7

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAAGTTCGTTTCTGTTCTT+TGG 0.184177 1:+49617869 MsaT002943.1:CDS
AGAAGTGGTTTGAGCCATTT+AGG 0.226031 1:-49617382 None:intergenic
AGAAACGAACTTGGTCTAAA+AGG 0.306972 1:-49617860 None:intergenic
ATTCCTCATAGGGCTCCTTT+TGG 0.317747 1:+49618485 MsaT002943.1:CDS
ACACAATGTTGGTTCCTAAA+TGG 0.324494 1:+49617368 None:intergenic
CAAGGATCATCAAGTCATTC+AGG 0.333682 1:+49617525 MsaT002943.1:CDS
TTTCTTCTCCTTGCGTTTGA+AGG 0.347275 1:-49618458 None:intergenic
CAAGTTCGTTTCTGTTCTTT+GGG 0.351554 1:+49617870 MsaT002943.1:CDS
CTTGTAGGAATAAAGAGAAA+TGG 0.373461 1:+49618302 MsaT002943.1:CDS
TTTCTGTTCTTTGGGATGTA+AGG 0.374729 1:+49617878 MsaT002943.1:CDS
CAGAAAATGTTGGACATTAG+TGG 0.376562 1:+49617729 MsaT002943.1:CDS
GGAGGTGTTGGAGGAGTTGC+TGG 0.378339 1:-49618437 None:intergenic
GAGAGGCCTCAACCAAAATC+TGG 0.407501 1:+49617798 MsaT002943.1:CDS
GAAGAAAAGGGATTCCTCAT+AGG 0.407985 1:+49618474 MsaT002943.1:CDS
CAATGATTGAATTAGCTTGT+AGG 0.416656 1:+49618287 MsaT002943.1:intron
TTGTAGGAATAAAGAGAAAT+GGG 0.420634 1:+49618303 MsaT002943.1:CDS
TCAAACGCAAGGAGAAGAAA+AGG 0.442491 1:+49618461 MsaT002943.1:CDS
CCTTACATTTGTGAGATTTG+TGG 0.451494 1:+49617831 MsaT002943.1:CDS
CTTGCGTTTGAAGGAGGTGT+TGG 0.453994 1:-49618449 None:intergenic
CCAAAGAACAGAAACGAACT+TGG 0.484387 1:-49617869 None:intergenic
CCACAAATCTCACAAATGTA+AGG 0.486176 1:-49617831 None:intergenic
TAAAATGACTAGGGTCCAAA+AGG 0.492758 1:-49618500 None:intergenic
GCGTTTGAAGGAGGTGTTGG+AGG 0.501278 1:-49618446 None:intergenic
CTTCTCCTTGCGTTTGAAGG+AGG 0.504177 1:-49618455 None:intergenic
GAGGTATCAACAATGGAAGA+AGG 0.508623 1:+49618359 MsaT002943.1:CDS
GGCTGAAATTCAGAAAATGT+TGG 0.529817 1:+49617719 MsaT002943.1:CDS
ATTTGTGAGATTTGTGGAAG+AGG 0.530195 1:+49617837 MsaT002943.1:CDS
AAGAAAAGGGATTCCTCATA+GGG 0.544259 1:+49618475 MsaT002943.1:CDS
CAAACGCAAGGAGAAGAAAA+GGG 0.546728 1:+49618462 MsaT002943.1:CDS
AGAACGACAATAGAAGCAAA+AGG 0.552138 1:-49617494 None:intergenic
AGGTATCAACAATGGAAGAA+GGG 0.569523 1:+49618360 MsaT002943.1:CDS
GGTCCAAAAGGAGCCCTATG+AGG 0.587771 1:-49618488 None:intergenic
TTTAGATGCAAATAACAATG+AGG 0.589036 1:+49618340 MsaT002943.1:CDS
CTTCATATCATGATGTAGTG+AGG 0.591334 1:+49617694 MsaT002943.1:CDS
GGATTCACGCTGACGCCGCA+AGG 0.591752 1:+49617431 MsaT002943.1:CDS
TAACAATGAGGTATCAACAA+TGG 0.597297 1:+49618352 MsaT002943.1:CDS
TTCATATCATGATGTAGTGA+GGG 0.599632 1:+49617695 MsaT002943.1:CDS
TTGTCGTTCTTCAAAACACA+AGG 0.606276 1:+49617507 MsaT002943.1:CDS
CAACACCTCCTTCAAACGCA+AGG 0.609547 1:+49618450 MsaT002943.1:CDS
TTGCGTGAAGGCTCACAACA+AGG 0.621390 1:+49618407 MsaT002943.1:CDS
CATGTTACATTCACTCCTTG+CGG 0.659509 1:-49617446 None:intergenic
CAAGAAGAAGAATTGCGTGA+AGG 0.666815 1:+49618395 MsaT002943.1:CDS
ATATCATGATGTAGTGAGGG+TGG 0.676670 1:+49617698 MsaT002943.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 49617373 49618514 49617373 ID=MsaG002943
Chr1 mRNA 49617373 49618514 49617373 ID=MsaT002943.1;Parent=MsaG002943
Chr1 exon 49617373 49617546 49617373 ID=MsaT002943.1.exon1;Parent=MsaT002943.1
Chr1 CDS 49617373 49617546 49617373 ID=cds.MsaT002943.1;Parent=MsaT002943.1
Chr1 exon 49617684 49617899 49617684 ID=MsaT002943.1.exon2;Parent=MsaT002943.1
Chr1 CDS 49617684 49617899 49617684 ID=cds.MsaT002943.1;Parent=MsaT002943.1
Chr1 exon 49618302 49618514 49618302 ID=MsaT002943.1.exon3;Parent=MsaT002943.1
Chr1 CDS 49618302 49618514 49618302 ID=cds.MsaT002943.1;Parent=MsaT002943.1
Gene Sequence

>MsaT002943.1

ATGTTGGTTCCTAAATGGCTCAAACCACTTCTTAGTACACCATTTTTCAACGAGTGTCGGATTCACGCTGACGCCGCAAGGAGTGAATGTAACATGTTTTGTCTAGATTGCAATGTTGATGCCTTTTGCTTCTATTGTCGTTCTTCAAAACACAAGGATCATCAAGTCATTCAGATAAGACGATCTTCATATCATGATGTAGTGAGGGTGGCTGAAATTCAGAAAATGTTGGACATTAGTGGAGTACAAACTTATGTGATCAATAGTGCTAGAGTTTTGTTTCTGAATGAGAGGCCTCAACCAAAATCTGGAAAAGCAGTTCCTTACATTTGTGAGATTTGTGGAAGAGGCCTTTTAGACCAAGTTCGTTTCTGTTCTTTGGGATGTAAGCTTGTAGGAATAAAGAGAAATGGGAATGCAAGCTTTGTTTTAGATGCAAATAACAATGAGGTATCAACAATGGAAGAAGGGATGTCAAGACAACAAGAAGAAGAATTGCGTGAAGGCTCACAACAAGGCATGTATCCAGCAACTCCTCCAACACCTCCTTCAAACGCAAGGAGAAGAAAAGGGATTCCTCATAGGGCTCCTTTTGGACCCTAG
Protein sequence

>MsaT002943.1

MLVPKWLKPLLSTPFFNECRIHADAARSECNMFCLDCNVDAFCFYCRSSKHKDHQVIQIRRSSYHDVVRVAEIQKMLDISGVQTYVINSARVLFLNERPQPKSGKAVPYICEICGRGLLDQVRFCSLGCKLVGIKRNGNASFVLDANNNEVSTMEEGMSRQQEEELREGSQQGMYPATPPTPPSNARRRKGIPHRAPFGP*