AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028063

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028063 MtrunA17_Chr5g0429521 95.765 307 13 0 1 307 1 307 0.0 615
MsaG028063 MtrunA17_Chr3g0104071 66.261 329 82 8 1 307 1 322 4.19e-149 421
MsaG028063 MtrunA17_Chr7g0241761 58.654 312 114 8 1 303 7 312 3.33e-117 340
MsaG028063 MtrunA17_Chr5g0436501 62.871 202 68 3 4 203 2 198 2.08e-86 260
MsaG028063 MtrunA17_Chr1g0162081 47.534 223 99 4 26 236 9 225 2.13e-58 189
MsaG028063 MtrunA17_Chr1g0210471 50.282 177 79 2 27 200 22 192 2.12e-56 182
MsaG028063 MtrunA17_Chr4g0062741 44.538 238 94 5 29 233 8 240 3.63e-56 184
MsaG028063 MtrunA17_Chr8g0365011 38.743 191 84 4 23 199 2 173 2.32e-38 137
MsaG028063 MtrunA17_Chr4g0055931 58.182 110 36 2 90 196 57 159 6.13e-32 121
MsaG028063 MtrunA17_Chr2g0331031 73.239 71 19 0 127 197 104 174 1.05e-31 121
MsaG028063 MtrunA17_Chr6g0488471 52.632 114 49 1 126 239 91 199 3.18e-31 118
MsaG028063 MtrunA17_Chr8g0389241 43.038 158 62 5 118 253 91 242 1.16e-30 116
MsaG028063 MtrunA17_Chr5g0415191 70.513 78 23 0 126 203 96 173 1.01e-28 112
MsaG028063 MtrunA17_Chr4g0059701 66.667 81 27 0 122 202 74 154 6.34e-27 107
MsaG028063 MtrunA17_Chr3g0135671 48.780 123 49 4 129 240 88 207 2.27e-26 103
MsaG028063 MtrunA17_Chr5g0440731 53.846 91 38 2 124 211 97 186 1.17e-24 100
MsaG028063 MtrunA17_Chr3g0092621 64.179 67 24 0 132 198 84 150 3.14e-24 96.7
MsaG028063 MtrunA17_Chr5g0440741 43.411 129 65 3 90 211 54 181 3.57e-24 99.4
MsaG028063 MtrunA17_Chr8g0364741 37.500 128 69 3 26 149 7 127 2.35e-23 93.2
MsaG028063 MtrunA17_Chr5g0409841 55.814 86 35 2 128 211 88 172 1.05e-22 94.4
MsaG028063 MtrunA17_Chr5g0432921 35.882 170 89 7 23 188 15 168 3.86e-22 92.4
MsaG028063 MtrunA17_Chr5g0432941 35.088 171 88 6 23 188 16 168 2.07e-21 90.5
MsaG028063 MtrunA17_Chr5g0409831 56.322 87 34 2 128 211 73 158 2.24e-20 87.8
MsaG028063 MtrunA17_Chr6g0452791 66.129 62 20 1 132 192 80 141 2.95e-20 86.3
MsaG028063 MtrunA17_Chr1g0155181 49.315 73 37 0 24 96 2 74 7.82e-20 82.4
MsaG028063 MtrunA17_Chr8g0373111 51.389 72 34 1 25 96 1 71 4.90e-19 79.7
MsaG028063 MtrunA17_Chr8g0373121 51.389 72 34 1 25 96 1 71 4.90e-19 79.7
MsaG028063 MtrunA17_Chr8g0373131 51.389 72 34 1 25 96 1 71 5.09e-19 79.7
MsaG028063 MtrunA17_Chr3g0144631 52.308 65 31 0 29 93 16 80 5.56e-19 79.7
MsaG028063 MtrunA17_Chr8g0364731 53.261 92 40 2 141 230 10 100 6.52e-19 82.8
MsaG028063 MtrunA17_Chr3g0141601 54.545 66 30 0 26 91 4 69 1.11e-18 79.3
MsaG028063 MtrunA17_Chr5g0404101 46.875 64 34 0 28 91 18 81 1.22e-18 79.3
MsaG028063 MtrunA17_Chr6g0449111 47.297 74 39 0 24 97 5 78 6.92e-18 77.0
MsaG028063 MtrunA17_Chr3g0081631 45.455 88 36 2 24 110 5 81 3.98e-16 72.4
MsaG028063 MtrunA17_Chr8g0373101 49.231 65 32 1 25 89 1 64 7.88e-16 71.2
MsaG028063 MtrunA17_Chr5g0404301 50.820 61 29 1 29 89 4 63 4.95e-15 68.6
MsaG028063 MtrunA17_Chr3g0113121 37.984 129 67 2 80 201 49 171 9.51e-15 72.0
MsaG028063 MtrunA17_Chr7g0255841 53.333 60 28 0 32 91 15 74 1.63e-14 68.2
MsaG028063 MtrunA17_Chr1g0192061 52.055 73 30 2 134 202 63 134 2.14e-13 67.4
MsaG028063 MtrunA17_Chr3g0141641 44.444 63 35 0 29 91 3 65 2.01e-12 62.4
MsaG028063 MtrunA17_Chr8g0370121 43.056 72 36 2 129 196 97 167 1.49e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028063 AT2G38090.1 65.865 208 58 2 5 201 5 210 1.01e-98 293
MsaG028063 AT5G58900.1 68.224 214 53 4 5 204 1 213 3.07e-95 283
MsaG028063 AT5G01200.1 61.500 200 62 5 16 201 17 215 2.78e-78 239
MsaG028063 AT5G05790.2 61.275 204 68 5 5 201 1 200 7.01e-78 239
MsaG028063 AT5G05790.1 61.275 204 68 5 5 201 1 200 7.01e-78 239
MsaG028063 AT3G11280.2 67.052 173 48 2 29 201 33 196 8.53e-78 238
MsaG028063 AT3G11280.1 67.052 173 48 2 29 201 33 196 8.53e-78 238
MsaG028063 AT1G49010.1 51.232 203 72 5 23 200 2 202 7.57e-55 181
MsaG028063 AT5G08520.1 50.273 183 86 3 22 200 5 186 5.53e-54 178
MsaG028063 AT5G04760.1 41.892 222 116 3 26 244 3 214 1.18e-50 167
MsaG028063 AT5G23650.1 41.538 195 88 3 18 197 2 185 5.91e-42 148
MsaG028063 AT5G47390.1 60.185 108 35 3 92 197 60 161 1.04e-31 121
MsaG028063 AT3G10580.2 41.573 178 80 7 23 197 2 158 1.08e-31 119
MsaG028063 AT3G10580.1 41.573 178 80 7 23 197 2 158 1.75e-31 119
MsaG028063 AT4G09450.1 39.572 187 93 5 28 214 6 172 1.64e-30 114
MsaG028063 AT5G61620.1 50.862 116 57 0 127 242 103 218 2.30e-28 111
MsaG028063 AT5G56840.1 50.000 104 51 1 98 200 57 160 3.37e-27 106
MsaG028063 AT1G70000.1 70.833 72 21 0 126 197 92 163 1.08e-26 105
MsaG028063 AT1G70000.2 70.833 72 21 0 126 197 92 163 1.08e-26 105
MsaG028063 AT3G16350.1 72.222 72 20 0 127 198 132 203 1.85e-25 105
MsaG028063 AT1G74840.2 70.833 72 21 0 127 198 91 162 6.18e-25 100
MsaG028063 AT1G74840.1 70.833 72 21 0 127 198 91 162 8.81e-25 100
MsaG028063 AT1G19000.2 52.727 110 48 1 128 237 98 203 2.01e-24 100
MsaG028063 AT1G19000.1 52.727 110 48 1 128 237 98 203 2.01e-24 100
MsaG028063 AT1G75250.1 55.714 70 31 0 24 93 7 76 1.85e-21 88.2
MsaG028063 AT1G75250.2 55.714 70 31 0 24 93 7 76 2.10e-21 87.4
MsaG028063 AT3G10590.1 35.912 181 98 6 26 197 4 175 4.91e-21 89.4
MsaG028063 AT2G21650.1 52.941 68 32 0 29 96 14 81 8.55e-18 77.8
MsaG028063 AT4G39250.1 49.231 65 33 0 29 93 14 78 1.24e-16 74.3
MsaG028063 AT1G19510.1 51.613 62 30 0 32 93 15 76 2.69e-15 70.9
MsaG028063 AT2G18328.1 52.542 59 28 0 33 91 15 73 5.15e-13 63.9
MsaG028063 AT4G36570.1 56.818 44 19 0 29 72 12 55 1.03e-11 59.7

Find 59 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACCTTTGCCATACTTCTTT+AGG 0.307378 5:-56452538 None:intergenic
TATTTCATAAGACAACTTTC+AGG 0.314437 5:+56452632 MsaT028063.1:CDS
TTAGATTGGGTGAACAGTTC+TGG 0.315891 5:+56451849 MsaT028063.1:CDS
CCTTTCTTCCTTTCCTGCTC+AGG 0.322349 5:-56451921 None:intergenic
TTCACCCAATCTAAGGTAAA+AGG 0.324294 5:-56451840 None:intergenic
CTACTAGGCCTAAAGAAGTA+TGG 0.375050 5:+56452530 MsaT028063.1:CDS
GCTGGGTTGATTCCAGTTCC+TGG 0.382171 5:+56451798 MsaT028063.1:CDS
ACATCACCGACCGTCTTTCC+TGG 0.388704 5:-56451729 None:intergenic
AGAACTGTTCACCCAATCTA+AGG 0.390954 5:-56451847 None:intergenic
GATGTTTGTAATATAGAAGC+TGG 0.393501 5:+56451780 MsaT028063.1:CDS
AACATTATTCACATGCATAA+AGG 0.404368 5:+56453008 MsaT028063.1:CDS
TGATAAGATGAAGTGGGAAA+TGG 0.405855 5:+56451545 None:intergenic
AAGTTTGTTGGTGCTGCTGC+TGG 0.410002 5:-56452787 None:intergenic
TGATGTGATGAGACAATATA+AGG 0.419767 5:+56451746 MsaT028063.1:CDS
AGAAGTATGGCAAAGGTGAT+TGG 0.420618 5:+56452543 MsaT028063.1:CDS
GTTGTGATGAACGTTGCATT+TGG 0.427349 5:-56452988 None:intergenic
CAAGACCAAAATCTTCAAAA+AGG 0.427744 5:+56452926 MsaT028063.1:CDS
TGGTGAAGTGGATCTATTAC+CGG 0.443254 5:-56452741 None:intergenic
GCTATCTTCCATACACCAAT+TGG 0.448071 5:-56451601 None:intergenic
TTGTGTTCCTCTTCAGTCCA+TGG 0.459712 5:-56451948 None:intergenic
CATACACACAAAACTCCAAT+TGG 0.463612 5:+56451586 MsaT028063.1:CDS
TATGATGAATTCAGAGGAAG+TGG 0.470044 5:+56451873 MsaT028063.1:CDS
ATGAAAACTTGCTCGTGAGC+TGG 0.470697 5:-56452866 None:intergenic
GCATGGCTTGCTACTTGAGT+TGG 0.471843 5:-56452602 None:intergenic
GGAGTGTTATAACCAGGAAC+TGG 0.478409 5:-56451810 None:intergenic
ACAAAACTCCAATTGGTGTA+TGG 0.484625 5:+56451593 MsaT028063.1:CDS
TCCTGCAGATTATTTCTACT+AGG 0.501666 5:+56452515 MsaT028063.1:intron
TTAGAGCTCCTGAGCAGGAA+AGG 0.515723 5:+56451913 MsaT028063.1:CDS
TCTAAGGTAAAAGGTGAAGT+AGG 0.517348 5:-56451831 None:intergenic
CCTGAGCAGGAAAGGAAGAA+AGG 0.521387 5:+56451921 MsaT028063.1:CDS
TTTAGTTAGAGCTCCTGAGC+AGG 0.523673 5:+56451908 MsaT028063.1:CDS
GAAAACTTGATAAGATGAAG+TGG 0.527680 5:+56451538 None:intergenic
CATAGAATTCTGTGGTGAAG+TGG 0.532652 5:-56452753 None:intergenic
GCTACTTTATGCCATCGATC+CGG 0.541949 5:-56451696 None:intergenic
GAATGATCAACAAAATGCTA+TGG 0.544650 5:+56452835 MsaT028063.1:CDS
ATAAAGATACGCCGGATCGA+TGG 0.544701 5:+56451685 MsaT028063.1:CDS
TTGTTGCCGTCGAAGTTTGT+TGG 0.545215 5:-56452799 None:intergenic
ATTTGGAAAACCATGTTATG+TGG 0.549103 5:-56452971 None:intergenic
CTCTTCTGGAGTCCATTGTG+TGG 0.588727 5:-56451628 None:intergenic
AAAGTAGCTGAAATGATACC+AGG 0.595280 5:+56451711 MsaT028063.1:CDS
TTCATAAGACAACTTTCAGG+AGG 0.595999 5:+56452635 MsaT028063.1:CDS
GTCTTCTTATCCACATAACA+TGG 0.600765 5:+56452961 MsaT028063.1:CDS
ATGTTTGTAATATAGAAGCT+GGG 0.604659 5:+56451781 MsaT028063.1:CDS
AGGAGTGCCATGGACTGAAG+AGG 0.610163 5:+56451941 MsaT028063.1:CDS
AAAACTTGATAAGATGAAGT+GGG 0.612600 5:+56451539 None:intergenic
GGCCTAAAGAAGTATGGCAA+AGG 0.616426 5:+56452536 MsaT028063.1:CDS
AAAGGAAGAAAGGAGTGCCA+TGG 0.621552 5:+56451931 MsaT028063.1:CDS
TGAAATGATACCAGGAAAGA+CGG 0.622184 5:+56451719 MsaT028063.1:CDS
TCTGGTTATGATGAATTCAG+AGG 0.623212 5:+56451867 MsaT028063.1:CDS
TTTCAGGAGGAAAAGACAAG+AGG 0.628437 5:+56452648 MsaT028063.1:CDS
ATGATACCAGGAAAGACGGT+CGG 0.635685 5:+56451723 MsaT028063.1:CDS
GAAGTAGGAGTGTTATAACC+AGG 0.644855 5:-56451816 None:intergenic
GCAGCACCAACAAACTTCGA+CGG 0.651047 5:+56452793 MsaT028063.1:CDS
TTTGTGTGTATGATGCAGGA+GGG 0.665325 5:-56451575 None:intergenic
AGTTCATGATAAAGATACGC+CGG 0.676724 5:+56451677 MsaT028063.1:CDS
AAGATAGCATGACCACACAA+TGG 0.678472 5:+56451616 MsaT028063.1:CDS
ACTTGTTCTTCAGAAGACAC+CGG 0.691433 5:+56452722 MsaT028063.1:CDS
TCATAGGAGTTAAAACCATG+AGG 0.695559 5:-56452893 None:intergenic
GAAAGTAACATAGAATTCTG+TGG 0.702812 5:-56452761 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 56451552 56453027 56451552 ID=MsaG028063
Chr5 mRNA 56451552 56453027 56451552 ID=MsaT028063.1;Parent=MsaG028063
Chr5 exon 56451552 56451970 56451552 ID=MsaT028063.1.exon1;Parent=MsaT028063.1
Chr5 CDS 56451552 56451970 56451552 ID=cds.MsaT028063.1;Parent=MsaT028063.1
Chr5 exon 56452523 56453027 56452523 ID=MsaT028063.1.exon2;Parent=MsaT028063.1
Chr5 CDS 56452523 56453027 56452523 ID=cds.MsaT028063.1;Parent=MsaT028063.1
Gene Sequence

>MsaT028063.1

ATGAAGTGGGAAATGGAAGTTCTCCCTCCTGCATCATACACACAAAACTCCAATTGGTGTATGGAAGATAGCATGACCACACAATGGACTCCAGAAGAGAACAAAATATTTGAAAATGCTCTTGCAGTTCATGATAAAGATACGCCGGATCGATGGCATAAAGTAGCTGAAATGATACCAGGAAAGACGGTCGGTGATGTGATGAGACAATATAAGGAATTAGAAGATGATGTTTGTAATATAGAAGCTGGGTTGATTCCAGTTCCTGGTTATAACACTCCTACTTCACCTTTTACCTTAGATTGGGTGAACAGTTCTGGTTATGATGAATTCAGAGGAAGTGGAAAGAGATCTTCTTTAGTTAGAGCTCCTGAGCAGGAAAGGAAGAAAGGAGTGCCATGGACTGAAGAGGAACACAAATTATTTCTACTAGGCCTAAAGAAGTATGGCAAAGGTGATTGGAGAAATATTTCGCGCAATTTCGTCATCACAAGAACACCAACTCAAGTAGCAAGCCATGCTCAAAAGTATTTCATAAGACAACTTTCAGGAGGAAAAGACAAGAGGAGAGCAAGCATACATGACATAACAACAGTTAATCTTTCAGAAAAAATTGGAACTTGTTCTTCAGAAGACACCGGTAATAGATCCACTTCACCACAGAATTCTATGTTACTTTCACACCAGCAGCAGCACCAACAAACTTCGACGGCAACAAATTTTCGTTGGAGGAATGATCAACAAAATGCTATGGCTTTGAATCCAGCTCACGAGCAAGTTTTCATGGATCCTCATGGTTTTAACTCCTATGAGGTTAAAATGCAAGACCAAAATCTTCAAAAAGGTCTTGTTCATGAGTCTTCTTATCCACATAACATGGTTTTCCAAATGCAACGTTCATCACAACATTATTCACATGCATAA
Protein sequence

>MsaT028063.1

MKWEMEVLPPASYTQNSNWCMEDSMTTQWTPEENKIFENALAVHDKDTPDRWHKVAEMIPGKTVGDVMRQYKELEDDVCNIEAGLIPVPGYNTPTSPFTLDWVNSSGYDEFRGSGKRSSLVRAPEQERKKGVPWTEEEHKLFLLGLKKYGKGDWRNISRNFVITRTPTQVASHAQKYFIRQLSGGKDKRRASIHDITTVNLSEKIGTCSSEDTGNRSTSPQNSMLLSHQQQHQQTSTATNFRWRNDQQNAMALNPAHEQVFMDPHGFNSYEVKMQDQNLQKGLVHESSYPHNMVFQMQRSSQHYSHA*