AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG037173

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037173 MtrunA17_Chr7g0233561 84.766 256 39 0 1 256 6 261 6.73e-161 449
MsaG037173 MtrunA17_Chr3g0131891 70.079 254 68 2 1 254 7 252 4.15e-123 353
MsaG037173 MtrunA17_Chr7g0233541 71.121 232 62 4 28 256 1 230 1.80e-111 323
MsaG037173 MtrunA17_Chr7g0233531 71.179 229 51 3 28 256 1 214 1.31e-102 300
MsaG037173 MtrunA17_Chr7g0233521 66.228 228 60 4 28 254 1 212 3.79e-96 283
MsaG037173 MtrunA17_Chr7g0233571 61.215 214 78 3 7 216 4 216 1.01e-84 252
MsaG037173 MtrunA17_Chr8g0390841 35.115 262 142 7 11 254 37 288 3.59e-40 145
MsaG037173 MtrunA17_Chr3g0103151 55.340 103 44 1 10 112 9 109 7.92e-35 122
MsaG037173 MtrunA17_Chr3g0103191 53.398 103 46 1 10 112 9 109 2.41e-33 121
MsaG037173 MtrunA17_Chr1g0163071 32.129 249 146 6 28 256 1 246 6.19e-33 122
MsaG037173 MtrunA17_Chr1g0208771 34.016 244 141 6 21 251 8 244 2.54e-32 123
MsaG037173 MtrunA17_Chr3g0103181 52.427 103 47 1 10 112 9 109 3.59e-31 116
MsaG037173 MtrunA17_Chr5g0419201 46.465 99 53 0 13 111 16 114 2.40e-29 109
MsaG037173 MtrunA17_Chr3g0103171 51.190 84 41 0 29 112 6 89 6.29e-26 102
MsaG037173 MtrunA17_Chr1g0163251 33.333 240 127 9 13 245 9 222 2.43e-25 103
MsaG037173 MtrunA17_Chr1g0163231 31.878 229 132 7 10 237 6 211 4.39e-25 100
MsaG037173 MtrunA17_Chr6g0467351 40.769 130 68 2 11 131 13 142 3.42e-23 94.4
MsaG037173 MtrunA17_Chr1g0171611 33.188 229 117 8 10 237 6 199 1.14e-22 94.4
MsaG037173 MtrunA17_Chr1g0163261 33.058 242 134 10 10 245 6 225 1.99e-22 94.0
MsaG037173 MtrunA17_Chr1g0163181 30.263 228 139 8 27 245 19 235 3.34e-22 94.7
MsaG037173 MtrunA17_Chr4g0067431 42.727 110 62 1 11 119 13 122 1.27e-21 92.0
MsaG037173 MtrunA17_Chr1g0163221 28.464 267 149 9 7 256 5 246 6.60e-21 90.5
MsaG037173 MtrunA17_Chr4g0033961 38.384 99 61 0 13 111 6 104 2.28e-20 89.7
MsaG037173 MtrunA17_Chr1g0162441 39.394 99 60 0 13 111 7 105 7.32e-20 88.2
MsaG037173 MtrunA17_Chr1g0163101 40.870 115 65 2 9 123 13 124 1.16e-19 83.6
MsaG037173 MtrunA17_Chr1g0154161 26.693 251 156 8 11 253 28 258 3.50e-19 85.1
MsaG037173 MtrunA17_Chr3g0077461 35.714 126 79 1 4 129 230 353 1.22e-18 84.7
MsaG037173 MtrunA17_Chr3g0077461 32.323 99 63 1 29 127 23 117 8.20e-16 76.6
MsaG037173 MtrunA17_Chr3g0077411 33.333 120 79 1 11 129 260 379 1.65e-18 84.7
MsaG037173 MtrunA17_Chr3g0077411 31.967 122 79 1 6 127 18 135 1.90e-17 81.3
MsaG037173 MtrunA17_Chr1g0163241 44.118 102 51 3 17 117 14 110 4.33e-18 79.3
MsaG037173 MtrunA17_Chr1g0163191 42.453 106 54 3 13 117 9 108 1.04e-17 77.8
MsaG037173 MtrunA17_Chr1g0163131 38.983 118 69 2 6 123 11 125 2.16e-17 80.1
MsaG037173 MtrunA17_Chr1g0163121 45.833 96 49 2 27 122 9 101 2.41e-17 76.6
MsaG037173 MtrunA17_Chr3g0077451 31.356 118 77 2 27 144 10 123 2.43e-17 79.0
MsaG037173 MtrunA17_Chr1g0163201 27.928 222 126 6 26 233 16 217 3.42e-17 80.5
MsaG037173 MtrunA17_Chr1g0163141 36.567 134 67 5 27 146 9 138 9.18e-17 76.3
MsaG037173 MtrunA17_Chr1g0163061 39.048 105 63 1 11 114 13 117 1.14e-16 77.4
MsaG037173 MtrunA17_Chr3g0077381 27.848 158 109 2 27 182 34 188 1.17e-16 79.0
MsaG037173 MtrunA17_Chr3g0077381 31.356 118 81 0 12 129 246 363 1.14e-13 70.1
MsaG037173 MtrunA17_Chr1g0154131 26.378 254 163 6 12 253 178 419 1.24e-16 79.0
MsaG037173 MtrunA17_Chr1g0154131 31.325 166 99 3 12 172 20 175 1.10e-14 73.2
MsaG037173 MtrunA17_Chr6g0476181 37.190 121 67 3 28 142 1 118 4.10e-16 73.6
MsaG037173 MtrunA17_Chr1g0162411 36.275 102 65 0 13 114 7 108 4.42e-16 77.4
MsaG037173 MtrunA17_Chr4g0009491 32.203 118 80 0 12 129 224 341 1.79e-15 75.5
MsaG037173 MtrunA17_Chr4g0009491 28.472 144 98 2 27 168 11 151 1.84e-15 75.5
MsaG037173 MtrunA17_Chr1g0154101 36.957 92 58 0 11 102 23 114 2.53e-15 75.5
MsaG037173 MtrunA17_Chr1g0154101 35.922 103 63 3 11 112 182 282 6.75e-13 68.2
MsaG037173 MtrunA17_Chr1g0154251 37.374 99 60 2 11 108 25 122 3.88e-15 74.7
MsaG037173 MtrunA17_Chr1g0154211 27.027 185 115 6 11 191 21 189 4.23e-15 74.3
MsaG037173 MtrunA17_Chr5g0429931 34.940 83 54 0 29 111 11 93 1.37e-14 71.2
MsaG037173 MtrunA17_Chr3g0077361 29.286 140 90 3 12 150 39 170 1.37e-14 73.2
MsaG037173 MtrunA17_Chr1g0154111 23.427 286 172 4 11 251 24 307 2.00e-14 72.8
MsaG037173 MtrunA17_Chr1g0154191 34.343 99 64 1 11 108 20 118 9.22e-14 70.1
MsaG037173 MtrunA17_Chr1g0162161 38.542 96 56 2 28 123 3 95 9.67e-14 67.4
MsaG037173 MtrunA17_Chr1g0154171 35.106 94 60 1 11 104 21 113 9.78e-14 70.1
MsaG037173 MtrunA17_Chr1g0154071 26.280 293 154 10 9 251 153 433 2.12e-13 69.3
MsaG037173 MtrunA17_Chr1g0154071 28.689 122 77 3 14 132 28 142 6.37e-12 65.1
MsaG037173 MtrunA17_Chr1g0154241 33.696 92 60 1 11 102 20 110 6.60e-13 67.0
MsaG037173 MtrunA17_Chr1g0163081 39.583 96 55 2 28 123 5 97 6.72e-13 64.7
MsaG037173 MtrunA17_Chr1g0154041 33.663 101 66 1 8 108 11 110 9.03e-13 67.8
MsaG037173 MtrunA17_Chr1g0154151 37.500 88 51 2 22 108 16 100 1.85e-12 66.2
MsaG037173 MtrunA17_Chr3g0103201 28.500 200 107 9 68 257 1 174 8.14e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037173 AT3G18990.1 26.481 287 163 5 13 254 6 289 8.97e-24 98.6
MsaG037173 AT3G18990.2 26.481 287 163 5 13 254 6 289 1.95e-23 97.8
MsaG037173 AT1G49475.1 40.741 108 63 1 13 120 34 140 1.17e-22 92.4
MsaG037173 AT4G01580.1 41.346 104 61 0 13 116 30 133 3.69e-22 90.9
MsaG037173 AT3G18960.2 40.385 104 62 0 13 116 30 133 5.15e-21 88.2
MsaG037173 AT3G18960.1 40.385 104 62 0 13 116 30 133 5.49e-21 88.2
MsaG037173 AT3G18960.3 43.182 88 50 0 29 116 9 96 7.80e-18 79.0
MsaG037173 AT4G33280.2 38.000 100 58 2 12 107 19 118 4.97e-14 70.5
MsaG037173 AT4G33280.3 38.000 100 58 2 12 107 19 118 8.51e-14 70.9
MsaG037173 AT4G33280.1 38.000 100 58 2 12 107 19 118 1.13e-13 70.1
MsaG037173 AT3G53310.1 33.654 104 66 3 1 104 1 101 2.19e-12 65.9

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAAAATGGAAATTAAATT+TGG 0.157556 7:-52994515 MsaT037173.1:CDS
AAAGATTTGTACCTCAAATT+TGG 0.180864 7:+52994387 None:intergenic
TTTCACCAACAATGTGAAAT+TGG 0.216826 7:-52994226 MsaT037173.1:CDS
GGTTTCCTTGCAGAAGGTTT+TGG 0.230684 7:+52996921 None:intergenic
AAATTTGAGGTACAAATCTT+TGG 0.253897 7:-52994385 MsaT037173.1:CDS
TGCTTCCAATTTCACATTGT+TGG 0.309809 7:+52994221 None:intergenic
GTCTTTAGACATATAGCTTT+TGG 0.314158 7:+52994547 None:intergenic
AGACTCCAAATGGTGCAAAA+TGG 0.337543 7:-52994528 MsaT037173.1:CDS
GAGAGGAGATATTCAACTTC+AGG 0.365011 7:-52993236 MsaT037173.1:CDS
AGGTGTTGAATGGGAGAGTT+TGG 0.366825 7:-52993216 MsaT037173.1:CDS
CGTTGAACACCACTTTCTTC+CGG 0.401759 7:-52993767 MsaT037173.1:intron
AAAAGAGTGATGGCAAGATA+TGG 0.414999 7:-52994492 MsaT037173.1:CDS
AATCTTTGGAAAGAGTGCTT+TGG 0.429279 7:-52994371 MsaT037173.1:CDS
ATTCAACTTCAGGTGTTGAA+TGG 0.430462 7:-52993226 MsaT037173.1:CDS
GATGATGCCAAGAAAGTTTG+TGG 0.433802 7:-52994590 MsaT037173.1:CDS
TTCAACTTCAGGTGTTGAAT+GGG 0.455910 7:-52993225 MsaT037173.1:CDS
AGATATGGTTTGAGAAGGGT+TGG 0.481735 7:-52994477 MsaT037173.1:CDS
AGGTTTATTTCCTTGACCAT+TGG 0.505200 7:+52994306 None:intergenic
ATGGGAGAGTTTGGTCTGCT+AGG 0.505527 7:-52993207 MsaT037173.1:intron
ATATGTCTAAAGACTCCAAA+TGG 0.517821 7:-52994538 MsaT037173.1:CDS
CAAAAGAGTTGAAGCTCAGA+AGG 0.519010 7:-52994332 MsaT037173.1:CDS
ACATTGTTGGTGAAATTCAA+AGG 0.523282 7:+52994234 None:intergenic
TTACAAGGTTTCCTTGCAGA+AGG 0.531746 7:+52996915 None:intergenic
TTAAATTTGGAAAAGAGTGA+TGG 0.536531 7:-52994502 MsaT037173.1:CDS
TGGCAAGATATGGTTTGAGA+AGG 0.555350 7:-52994482 MsaT037173.1:CDS
AAAACATGGAAAGTCGCAAA+AGG 0.558949 7:-52994188 MsaT037173.1:CDS
CTCATGACAACAACAAAGGA+TGG 0.571041 7:+52993799 None:intergenic
GAGCATCACTCTCTAGCTCA+TGG 0.577825 7:-52994442 MsaT037173.1:CDS
CAGAAGGTCTCCAATGGTCA+AGG 0.588926 7:-52994316 MsaT037173.1:CDS
TGCAGCTTACCGGAAGAAAG+TGG 0.589285 7:+52993758 None:intergenic
TTTGATTTGAATAAGAAGAG+AGG 0.602796 7:-52993253 MsaT037173.1:CDS
GGCAAGATATGGTTTGAGAA+GGG 0.606783 7:-52994481 MsaT037173.1:CDS
ACATGGAAAGTCGCAAAAGG+TGG 0.608889 7:-52994185 MsaT037173.1:CDS
AGCATTAGTTGTGTAAAACA+TGG 0.615182 7:-52994202 MsaT037173.1:CDS
GAAGCTCAGAAGGTCTCCAA+TGG 0.639766 7:-52994322 MsaT037173.1:CDS
TGTGTCTTACAAAACAAGGA+TGG 0.644962 7:+52993277 None:intergenic
CTTACCCAAAACCTTCTGCA+AGG 0.646669 7:-52996926 MsaT037173.1:CDS
CAAATTGATAGAATGTCCAA+AGG 0.647085 7:-52994154 MsaT037173.1:intron
AAAGTGTGTCTTACAAAACA+AGG 0.647663 7:+52993273 None:intergenic
CAAGGAAATAAACCTCCGAA+TGG 0.648381 7:-52994298 MsaT037173.1:CDS
TGCACTCATGACAACAACAA+AGG 0.665197 7:+52993795 None:intergenic
CATGGCTAGTGAAATTGCTG+AGG 0.726199 7:-52996978 MsaT037173.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 52991569 52996999 52991569 ID=MsaG037173
Chr7 mRNA 52991569 52996999 52991569 ID=MsaT037173.1;Parent=MsaG037173
Chr7 exon 52991569 52991584 52991569 ID=MsaT037173.1.exon5;Parent=MsaT037173.1
Chr7 CDS 52991569 52991584 52991569 ID=cds.MsaT037173.1;Parent=MsaT037173.1
Chr7 exon 52993208 52993305 52993208 ID=MsaT037173.1.exon4;Parent=MsaT037173.1
Chr7 CDS 52993208 52993305 52993208 ID=cds.MsaT037173.1;Parent=MsaT037173.1
Chr7 exon 52993768 52993892 52993768 ID=MsaT037173.1.exon3;Parent=MsaT037173.1
Chr7 CDS 52993768 52993892 52993768 ID=cds.MsaT037173.1;Parent=MsaT037173.1
Chr7 exon 52994155 52994611 52994155 ID=MsaT037173.1.exon2;Parent=MsaT037173.1
Chr7 CDS 52994155 52994611 52994155 ID=cds.MsaT037173.1;Parent=MsaT037173.1
Chr7 exon 52996919 52996999 52996919 ID=MsaT037173.1.exon1;Parent=MsaT037173.1
Chr7 CDS 52996919 52996999 52996919 ID=cds.MsaT037173.1;Parent=MsaT037173.1
Gene Sequence

>MsaT037173.1

ATGGCTAGTGAAATTGCTGAGGTGAAGCCAATCCACTTTTTCAAGATCATACTTACCCAAAACCTTCTGCAAGGAAACCTTATGATGCCAAGAAAGTTTGTGGAAAAATATGGAAGAGGTCTACCAAAAGCTATATGTCTAAAGACTCCAAATGGTGCAAAATGGAAATTAAATTTGGAAAAGAGTGATGGCAAGATATGGTTTGAGAAGGGTTGGAAAGAATTTGCAGAGCATCACTCTCTAGCTCATGGCCATCTTCTGCTTTTTAGATATGAAAAAACTTCCAAATTTGAGGTACAAATCTTTGGAAAGAGTGCTTTGGAGATAGACTACTCTATCAAAAGAGTTGAAGCTCAGAAGGTCTCCAATGGTCAAGGAAATAAACCTCCGAATGGTGAAAATCGTAGAGCAGCTCAAAAAAGAAAAGATAACTCGTCCTTTGAATTTCACCAACAATGTGAAATTGGAAGCATTAGTTGTGTAAAACATGGAAAGTCGCAAAAGGTGGATGTACATCAAATTGATAGAATGTCCAAAGGAAAACAAGTGATTACAACTGTTGAGAAAGTTACAACTCTTGAAAGAGCAGAGTCTTTCAAAATCTATAATCCATCCTTTGTTGTTGTCATGAGTGCATCATACGTTGAACACCACTTTCTTCCGAATATACCATCCTTGTTTTGTAAGACACACTTTGATTTGAATAAGAAGAGAGGAGATATTCAACTTCAGGTGTTGAATGGGAGAGTTTGGTCTGCTAGGGTGGCTAGATTATGA
Protein sequence

>MsaT037173.1

MASEIAEVKPIHFFKIILTQNLLQGNLMMPRKFVEKYGRGLPKAICLKTPNGAKWKLNLEKSDGKIWFEKGWKEFAEHHSLAHGHLLLFRYEKTSKFEVQIFGKSALEIDYSIKRVEAQKVSNGQGNKPPNGENRRAAQKRKDNSSFEFHQQCEIGSISCVKHGKSQKVDVHQIDRMSKGKQVITTVEKVTTLERAESFKIYNPSFVVVMSASYVEHHFLPNIPSLFCKTHFDLNKKRGDIQLQVLNGRVWSARVARL*