AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG037162

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037162 MtrunA17_Chr7g0233561 90.286 175 17 0 1 175 6 180 9.40e-117 334
MsaG037162 MtrunA17_Chr3g0131891 66.857 175 52 1 1 175 7 175 2.78e-80 241
MsaG037162 MtrunA17_Chr7g0233571 63.253 166 58 1 7 169 4 169 1.45e-68 208
MsaG037162 MtrunA17_Chr7g0233531 77.778 135 23 2 28 162 1 128 5.65e-68 208
MsaG037162 MtrunA17_Chr7g0233541 68.874 151 43 3 28 175 1 150 1.63e-67 207
MsaG037162 MtrunA17_Chr7g0233521 65.493 142 35 1 28 169 1 128 8.20e-59 185
MsaG037162 MtrunA17_Chr3g0103151 53.398 103 46 1 10 112 9 109 1.65e-34 119
MsaG037162 MtrunA17_Chr3g0103191 51.456 103 48 1 10 112 9 109 3.36e-33 118
MsaG037162 MtrunA17_Chr8g0390841 38.889 162 90 3 11 169 37 192 8.66e-33 122
MsaG037162 MtrunA17_Chr3g0103181 50.485 103 49 1 10 112 9 109 1.30e-30 112
MsaG037162 MtrunA17_Chr5g0419201 47.475 99 52 0 13 111 16 114 1.72e-30 110
MsaG037162 MtrunA17_Chr1g0208771 50.549 91 42 1 21 111 8 95 7.61e-26 102
MsaG037162 MtrunA17_Chr3g0103171 48.810 84 43 0 29 112 6 89 4.74e-25 97.8
MsaG037162 MtrunA17_Chr1g0163071 46.512 86 46 0 28 113 1 86 5.61e-24 95.9
MsaG037162 MtrunA17_Chr1g0171611 44.660 103 55 1 10 112 6 106 2.94e-22 90.9
MsaG037162 MtrunA17_Chr1g0163231 43.689 103 56 1 10 112 6 106 2.96e-21 88.2
MsaG037162 MtrunA17_Chr6g0467351 39.252 107 64 1 11 116 13 119 6.67e-21 86.3
MsaG037162 MtrunA17_Chr4g0067431 41.121 107 62 1 11 116 13 119 2.06e-20 86.3
MsaG037162 MtrunA17_Chr1g0162441 38.384 99 61 0 13 111 7 105 3.61e-20 86.7
MsaG037162 MtrunA17_Chr1g0163101 41.739 115 64 2 9 123 13 124 4.78e-20 82.8
MsaG037162 MtrunA17_Chr1g0163251 50.000 86 41 1 27 112 19 102 7.34e-20 85.5
MsaG037162 MtrunA17_Chr1g0163261 36.567 134 83 1 10 143 6 137 8.63e-20 84.3
MsaG037162 MtrunA17_Chr4g0033961 35.354 99 64 0 13 111 6 104 2.33e-19 84.3
MsaG037162 MtrunA17_Chr1g0163121 48.837 86 41 2 27 112 9 91 1.35e-18 77.8
MsaG037162 MtrunA17_Chr1g0163131 36.154 130 80 2 6 135 11 137 4.43e-18 79.7
MsaG037162 MtrunA17_Chr1g0163241 45.238 84 44 1 29 112 23 104 5.42e-18 77.0
MsaG037162 MtrunA17_Chr3g0077411 31.967 122 79 1 6 127 18 135 8.97e-18 80.1
MsaG037162 MtrunA17_Chr3g0077411 32.500 120 80 1 11 129 260 379 1.68e-17 79.3
MsaG037162 MtrunA17_Chr3g0077451 33.010 103 69 0 27 129 10 112 1.07e-17 77.8
MsaG037162 MtrunA17_Chr3g0077461 34.921 126 80 1 4 129 230 353 1.27e-17 79.7
MsaG037162 MtrunA17_Chr3g0077461 30.137 146 86 3 18 152 13 153 6.82e-17 77.4
MsaG037162 MtrunA17_Chr1g0163191 44.186 86 46 1 27 112 19 102 1.42e-17 75.9
MsaG037162 MtrunA17_Chr1g0163181 34.286 140 84 3 27 165 19 151 5.22e-17 77.8
MsaG037162 MtrunA17_Chr1g0154161 34.426 122 77 2 11 129 28 149 5.82e-17 77.0
MsaG037162 MtrunA17_Chr1g0162411 36.275 102 65 0 13 114 7 108 1.68e-16 76.3
MsaG037162 MtrunA17_Chr1g0163201 43.678 87 47 1 26 112 16 100 1.79e-16 76.3
MsaG037162 MtrunA17_Chr1g0163141 45.349 86 44 2 27 112 9 91 1.81e-16 73.6
MsaG037162 MtrunA17_Chr1g0154101 36.957 92 58 0 11 102 23 114 3.30e-16 75.9
MsaG037162 MtrunA17_Chr1g0154101 33.654 104 66 2 11 113 182 283 4.85e-14 69.3
MsaG037162 MtrunA17_Chr1g0163221 36.275 102 64 1 11 111 9 110 5.41e-16 74.3
MsaG037162 MtrunA17_Chr3g0077381 33.036 112 70 2 27 137 34 141 8.05e-16 74.3
MsaG037162 MtrunA17_Chr3g0077381 29.661 118 83 0 12 129 246 363 1.40e-12 65.1
MsaG037162 MtrunA17_Chr1g0154211 36.957 92 57 1 11 102 21 111 1.20e-15 73.6
MsaG037162 MtrunA17_Chr1g0154251 38.384 99 59 2 11 108 25 122 1.32e-15 73.9
MsaG037162 MtrunA17_Chr1g0163061 37.037 108 61 2 11 114 13 117 1.35e-15 72.4
MsaG037162 MtrunA17_Chr3g0077361 30.986 142 88 4 12 147 39 176 2.45e-15 73.2
MsaG037162 MtrunA17_Chr6g0476181 45.882 85 43 2 28 112 1 82 2.50e-15 69.7
MsaG037162 MtrunA17_Chr5g0429931 33.721 86 57 0 29 114 11 96 2.51e-15 71.6
MsaG037162 MtrunA17_Chr4g0009491 30.952 126 78 3 27 147 11 132 3.93e-15 72.4
MsaG037162 MtrunA17_Chr4g0009491 30.508 118 82 0 12 129 224 341 2.27e-14 70.1
MsaG037162 MtrunA17_Chr1g0154131 31.325 166 99 3 12 172 20 175 1.03e-14 71.2
MsaG037162 MtrunA17_Chr1g0154131 34.783 92 58 1 11 102 182 271 1.91e-13 67.4
MsaG037162 MtrunA17_Chr1g0154191 34.615 104 67 1 11 113 20 123 1.20e-14 70.9
MsaG037162 MtrunA17_Chr1g0154071 31.624 117 76 2 14 127 157 272 2.69e-14 70.1
MsaG037162 MtrunA17_Chr1g0154071 30.000 120 78 2 14 132 28 142 9.71e-13 65.5
MsaG037162 MtrunA17_Chr1g0154171 34.043 94 61 1 11 104 21 113 4.15e-14 69.3
MsaG037162 MtrunA17_Chr1g0154111 30.216 139 96 1 11 148 24 162 5.13e-14 69.3
MsaG037162 MtrunA17_Chr1g0162161 40.625 96 54 2 28 123 3 95 5.44e-14 66.2
MsaG037162 MtrunA17_Chr1g0154041 31.452 124 81 2 8 128 11 133 6.39e-14 68.9
MsaG037162 MtrunA17_Chr1g0154241 33.696 92 60 1 11 102 20 110 1.86e-13 66.6
MsaG037162 MtrunA17_Chr1g0154151 37.634 93 54 2 22 113 16 105 6.86e-13 65.5
MsaG037162 MtrunA17_Chr1g0163081 39.583 96 55 2 28 123 5 97 2.48e-12 61.6
MsaG037162 MtrunA17_Chr3g0103201 60.000 45 18 0 68 112 1 45 1.28e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037162 AT3G18990.1 41.414 99 58 0 13 111 6 104 4.98e-22 91.3
MsaG037162 AT3G18990.2 41.414 99 58 0 13 111 6 104 6.95e-22 91.3
MsaG037162 AT1G49475.1 40.000 105 62 1 13 117 34 137 9.84e-22 87.8
MsaG037162 AT4G01580.1 39.423 104 63 0 13 116 30 133 4.74e-21 85.9
MsaG037162 AT3G18960.2 39.423 104 63 0 13 116 30 133 1.46e-20 84.7
MsaG037162 AT3G18960.1 39.423 104 63 0 13 116 30 133 1.70e-20 84.7
MsaG037162 AT3G18960.3 43.182 88 50 0 29 116 9 96 5.95e-18 77.4
MsaG037162 AT4G33280.2 35.000 100 61 2 12 107 19 118 2.60e-12 63.9
MsaG037162 AT4G33280.3 35.000 100 61 2 12 107 19 118 3.56e-12 64.3
MsaG037162 AT4G33280.1 35.000 100 61 2 12 107 19 118 4.26e-12 63.9
MsaG037162 AT3G53310.1 31.731 104 68 3 1 104 1 101 1.37e-11 62.0

Find 29 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGATTTGTACCTCAAATT+TGG 0.180864 7:-52868272 None:intergenic
TGCAAAATGGAAATTAAATT+TGG 0.185593 7:+52868144 MsaT037162.1:CDS
TTTCATCGACAATGTGAAAT+TGG 0.216786 7:+52868433 MsaT037162.1:CDS
AGCAGTAGTTGTGTAAAATT+TGG 0.230825 7:+52868457 MsaT037162.1:CDS
AAATTTGAGGTACAAATCTT+TGG 0.253897 7:+52868274 MsaT037162.1:CDS
GTCTCTAGACATATAGCTTT+TGG 0.313968 7:-52868112 None:intergenic
AGACTCCAAATGGTGCAAAA+TGG 0.357064 7:+52868131 MsaT037162.1:CDS
AAAGGCTTACAAGGTTTCCT+TGG 0.416023 7:-52867421 None:intergenic
CAATGAGTGATGGCAAGATA+TGG 0.428994 7:+52868167 MsaT037162.1:CDS
AATCTTTGGAAAGAGTGCTT+TGG 0.429279 7:+52868288 MsaT037162.1:CDS
GATGATGCCAAGAAAGTTTG+TGG 0.433802 7:+52868069 MsaT037162.1:intron
AGATATGGTTTGAGAAGGGT+TGG 0.481735 7:+52868182 MsaT037162.1:CDS
AGGTTTATTTCCTTGACCAT+TGG 0.507461 7:-52868353 None:intergenic
ATTGTAGAGCAGCTCAAAAG+AGG 0.511221 7:+52868389 MsaT037162.1:CDS
CAAGGAAATAAACCTCCAAA+TGG 0.511352 7:+52868361 MsaT037162.1:CDS
TTAAATTTGGCAATGAGTGA+TGG 0.512239 7:+52868157 MsaT037162.1:CDS
TTACAAGGTTTCCTTGGAGA+AGG 0.514232 7:-52867415 None:intergenic
TTTGCAGAGCATCACTCTCT+AGG 0.540785 7:+52868211 MsaT037162.1:CDS
TGGCAAGATATGGTTTGAGA+AGG 0.555350 7:+52868177 MsaT037162.1:CDS
TCAAATTGATATTCGTCCAA+AGG 0.584086 7:+52868504 MsaT037162.1:CDS
ATATGTCTAGAGACTCCAAA+TGG 0.586498 7:+52868121 MsaT037162.1:CDS
ACATTGTCGATGAAATTCAA+AGG 0.588513 7:-52868425 None:intergenic
ATTTGGAAAATCGCAGAAGG+TGG 0.595133 7:+52868474 MsaT037162.1:CDS
GAGCATCACTCTCTAGGTCA+TGG 0.595626 7:+52868217 MsaT037162.1:CDS
GGCAAGATATGGTTTGAGAA+GGG 0.606783 7:+52868178 MsaT037162.1:CDS
GTTACTCAAAACCTTCTCCA+AGG 0.614774 7:+52867404 MsaT037162.1:CDS
AAAATTTGGAAAATCGCAGA+AGG 0.630701 7:+52868471 MsaT037162.1:CDS
TTGTCGATGAAATTCAAAGG+AGG 0.673392 7:-52868422 None:intergenic
CATGGCTAGTGAAATTGCTG+AGG 0.726199 7:+52867352 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 52867353 52868818 52867353 ID=MsaG037162
Chr7 mRNA 52867353 52868818 52867353 ID=MsaT037162.1;Parent=MsaG037162
Chr7 exon 52867353 52867433 52867353 ID=MsaT037162.1.exon1;Parent=MsaT037162.1
Chr7 CDS 52867353 52867433 52867353 ID=cds.MsaT037162.1;Parent=MsaT037162.1
Chr7 exon 52868070 52868525 52868070 ID=MsaT037162.1.exon2;Parent=MsaT037162.1
Chr7 CDS 52868070 52868525 52868070 ID=cds.MsaT037162.1;Parent=MsaT037162.1
Chr7 exon 52868807 52868818 52868807 ID=MsaT037162.1.exon3;Parent=MsaT037162.1
Chr7 CDS 52868807 52868818 52868807 ID=cds.MsaT037162.1;Parent=MsaT037162.1
Gene Sequence

>MsaT037162.1

ATGGCTAGTGAAATTGCTGAGGTGAAGCCAATCCACTTTTTCAAGATCATAGTTACTCAAAACCTTCTCCAAGGAAACCTTATGATGCCAAGAAAGTTTGTGGAAAAATATGGAAAAGGTCTACCAAAAGCTATATGTCTAGAGACTCCAAATGGTGCAAAATGGAAATTAAATTTGGCAATGAGTGATGGCAAGATATGGTTTGAGAAGGGTTGGAAACAATTTGCAGAGCATCACTCTCTAGGTCATGGCCATCTTCTGCTTTTTAGATATGAAAAAACTTCCAAATTTGAGGTACAAATCTTTGGAAAGAGTGCTTTGGAGATAGACTACTCTTTCAAAAAAGTTGAATATAAAAAGTTCTCCAATGGTCAAGGAAATAAACCTCCAAATGGTGAAAATTGTAGAGCAGCTCAAAAGAGGAAAGCTAACTCCTCCTTTGAATTTCATCGACAATGTGAAATTGGAAGCAGTAGTTGTGTAAAATTTGGAAAATCGCAGAAGGTGGATGTGCATCAAATTGATATTCGTCCAAAGGAAAACAAGTGA
Protein sequence

>MsaT037162.1

MASEIAEVKPIHFFKIIVTQNLLQGNLMMPRKFVEKYGKGLPKAICLETPNGAKWKLNLAMSDGKIWFEKGWKQFAEHHSLGHGHLLLFRYEKTSKFEVQIFGKSALEIDYSFKKVEYKKFSNGQGNKPPNGENCRAAQKRKANSSFEFHRQCEIGSSSCVKFGKSQKVDVHQIDIRPKENK*