AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027106


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027106 MtrunA17_Chr5g0419201 91.005 189 17 0 5 193 3 191 2.03e-126 353
MsaG027106 MtrunA17_Chr7g0233561 50.505 99 49 0 18 116 18 116 6.58e-33 120
MsaG027106 MtrunA17_Chr7g0233571 37.912 182 97 6 18 192 10 182 1.11e-32 117
MsaG027106 MtrunA17_Chr3g0103191 35.849 159 98 2 18 176 12 166 4.97e-31 113
MsaG027106 MtrunA17_Chr3g0131891 47.475 99 52 0 18 116 19 117 4.94e-30 112
MsaG027106 MtrunA17_Chr7g0233531 52.747 91 40 1 33 123 1 88 2.79e-29 109
MsaG027106 MtrunA17_Chr3g0103151 35.669 157 83 4 18 167 12 157 6.19e-29 105
MsaG027106 MtrunA17_Chr8g0390841 34.161 161 87 2 3 163 27 168 1.15e-28 111
MsaG027106 MtrunA17_Chr3g0103181 36.000 150 92 2 18 167 12 157 1.71e-27 104
MsaG027106 MtrunA17_Chr7g0233521 51.190 84 41 0 33 116 1 84 2.20e-27 104
MsaG027106 MtrunA17_Chr7g0233541 37.415 147 79 3 33 169 1 144 5.69e-27 103
MsaG027106 MtrunA17_Chr1g0163101 35.196 179 90 6 18 193 17 172 7.77e-27 100
MsaG027106 MtrunA17_Chr3g0103171 34.884 129 75 1 34 162 6 125 3.63e-24 95.9
MsaG027106 MtrunA17_Chr1g0163071 34.756 164 86 5 33 183 1 156 4.08e-24 96.7
MsaG027106 MtrunA17_Chr1g0162441 35.156 128 83 0 18 145 7 134 8.00e-24 97.4
MsaG027106 MtrunA17_Chr6g0476181 34.132 167 92 5 33 193 1 155 2.18e-23 91.3
MsaG027106 MtrunA17_Chr4g0033961 35.172 145 93 1 15 159 3 146 3.81e-23 95.5
MsaG027106 MtrunA17_Chr1g0163261 42.593 108 60 1 12 119 3 108 4.53e-23 93.6
MsaG027106 MtrunA17_Chr1g0163251 36.364 143 79 3 27 169 14 144 9.01e-23 94.0
MsaG027106 MtrunA17_Chr1g0163231 33.333 180 93 4 12 191 3 155 1.37e-22 92.4
MsaG027106 MtrunA17_Chr1g0163241 34.815 135 74 3 9 143 6 126 1.93e-22 89.0
MsaG027106 MtrunA17_Chr1g0208771 36.154 130 67 2 34 163 13 126 1.96e-22 93.6
MsaG027106 MtrunA17_Chr1g0162161 32.317 164 87 5 33 193 3 145 1.98e-22 88.6
MsaG027106 MtrunA17_Chr1g0163121 36.496 137 80 4 29 165 6 135 3.46e-22 87.8
MsaG027106 MtrunA17_Chr1g0163141 33.721 172 99 6 30 193 7 171 3.96e-22 88.6
MsaG027106 MtrunA17_Chr1g0171611 40.741 108 62 1 12 119 3 108 5.16e-22 90.5
MsaG027106 MtrunA17_Chr1g0163181 32.759 174 105 5 27 190 14 185 6.73e-22 92.0
MsaG027106 MtrunA17_Chr3g0077411 32.919 161 77 4 18 175 262 394 8.96e-22 92.0
MsaG027106 MtrunA17_Chr3g0077411 31.618 136 91 2 18 152 25 159 1.09e-18 83.2
MsaG027106 MtrunA17_Chr3g0077461 32.847 137 91 1 11 147 230 365 1.14e-21 91.7
MsaG027106 MtrunA17_Chr3g0077461 31.068 103 70 1 34 136 23 124 3.35e-16 75.9
MsaG027106 MtrunA17_Chr1g0163191 39.604 101 59 1 27 127 14 112 3.09e-21 85.5
MsaG027106 MtrunA17_Chr6g0467351 32.530 166 96 3 18 182 15 165 3.56e-21 87.0
MsaG027106 MtrunA17_Chr1g0163131 37.086 151 86 5 18 168 18 159 5.79e-21 88.2
MsaG027106 MtrunA17_Chr3g0077451 41.176 85 50 0 32 116 10 94 2.08e-20 85.5
MsaG027106 MtrunA17_Chr1g0162411 39.796 98 59 0 18 115 7 104 2.17e-20 87.8
MsaG027106 MtrunA17_Chr4g0067431 33.766 154 92 4 18 169 15 160 1.76e-19 84.3
MsaG027106 MtrunA17_Chr1g0163221 39.316 117 63 2 1 116 1 110 3.83e-19 83.6
MsaG027106 MtrunA17_Chr1g0163081 37.931 116 65 4 33 148 5 113 4.82e-19 79.3
MsaG027106 MtrunA17_Chr5g0429931 34.021 97 63 1 34 129 11 107 1.70e-18 80.5
MsaG027106 MtrunA17_Chr1g0163201 40.426 94 54 1 34 127 19 110 2.23e-18 82.0
MsaG027106 MtrunA17_Chr3g0077361 31.967 122 81 2 18 138 40 160 2.21e-17 79.3
MsaG027106 MtrunA17_Chr1g0163161 34.000 150 77 6 46 193 1 130 5.16e-17 73.9
MsaG027106 MtrunA17_Chr1g0163061 38.000 100 61 1 18 116 15 114 6.87e-17 76.3
MsaG027106 MtrunA17_Chr4g0009491 31.897 116 78 1 14 129 221 335 1.66e-16 76.6
MsaG027106 MtrunA17_Chr4g0009491 34.118 85 56 0 32 116 11 95 5.89e-15 72.0
MsaG027106 MtrunA17_Chr3g0077381 35.294 85 55 0 32 116 34 118 6.74e-16 75.1
MsaG027106 MtrunA17_Chr3g0077381 31.481 108 73 1 22 129 251 357 5.32e-15 72.4
MsaG027106 MtrunA17_Chr1g0154211 37.778 90 56 0 19 108 23 112 1.36e-15 73.9
MsaG027106 MtrunA17_Chr1g0154101 35.294 102 63 1 29 127 193 294 1.87e-14 70.9
MsaG027106 MtrunA17_Chr1g0154101 35.556 90 58 0 18 107 25 114 1.10e-13 68.9
MsaG027106 MtrunA17_Chr1g0154161 34.737 95 62 0 18 112 30 124 6.13e-14 68.9
MsaG027106 MtrunA17_Chr1g0154131 28.025 157 107 2 29 182 193 346 6.14e-14 69.3
MsaG027106 MtrunA17_Chr1g0154131 31.461 89 61 0 19 107 26 114 8.91e-11 60.1
MsaG027106 MtrunA17_Chr1g0154171 34.066 91 60 0 19 109 23 113 7.10e-14 68.9
MsaG027106 MtrunA17_Chr1g0154071 32.979 94 62 1 19 112 157 249 3.10e-12 64.3
MsaG027106 MtrunA17_Chr1g0154071 29.787 94 66 0 19 112 28 121 2.34e-11 62.0
MsaG027106 MtrunA17_Chr1g0154251 35.443 79 51 0 30 108 38 116 3.40e-12 64.3
MsaG027106 MtrunA17_Chr1g0154041 30.952 84 58 0 30 113 27 110 5.11e-12 63.9
MsaG027106 MtrunA17_Chr1g0154151 41.892 74 43 0 34 107 20 93 9.57e-12 62.8
MsaG027106 MtrunA17_Chr1g0154111 27.200 125 87 2 19 139 26 150 1.37e-11 62.4
MsaG027106 MtrunA17_Chr1g0154191 26.627 169 113 3 25 190 29 189 3.00e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027106 AT4G01580.1 38.095 147 75 4 18 163 30 161 1.79e-23 92.4
MsaG027106 AT1G49475.1 34.177 158 93 3 18 170 34 185 2.93e-21 86.7
MsaG027106 AT3G18990.2 40.594 101 60 0 18 118 6 106 3.79e-21 89.7
MsaG027106 AT3G18960.2 41.414 99 58 0 18 116 30 128 4.12e-21 86.7
MsaG027106 AT3G18990.1 40.594 101 60 0 18 118 6 106 4.31e-21 89.4
MsaG027106 AT3G18960.1 41.414 99 58 0 18 116 30 128 4.59e-21 86.7
MsaG027106 AT3G18960.3 42.169 83 48 0 34 116 9 91 2.75e-16 73.2

Find 30 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTACCAAATGGTGATAAA+TGG 0.158299 5:-34795556 MsaT027106.1:CDS
GTGATAAATGGGAAGTAAAT+TGG 0.244779 5:-34795544 MsaT027106.1:CDS
GCGCTTTGGAAATGGATTAT+TGG 0.263628 5:-34795385 MsaT027106.1:CDS
AGACGATTATATTGAGATTT+CGG 0.264534 5:-34795288 MsaT027106.1:CDS
TTTGGTAGAACTAGGGTTAC+TGG 0.318076 5:+34795569 None:intergenic
TTTCTTTCAACTTGATCTCT+AGG 0.366619 5:+34795350 None:intergenic
TCAACTTGATCTCTAGGGCT+TGG 0.372702 5:+34795356 None:intergenic
GATATTTGACAAAAGCGCTT+TGG 0.378554 5:-34795399 MsaT027106.1:CDS
CAACACTATTCAATGAGTTA+TGG 0.379815 5:-34795470 MsaT027106.1:CDS
TGACAAAAGCGCTTTGGAAA+TGG 0.381408 5:-34795393 MsaT027106.1:CDS
CCATGACGTGTGGTTTCAAA+AGG 0.387206 5:-34795510 MsaT027106.1:CDS
AACACTATTCAATGAGTTAT+GGG 0.394195 5:-34795469 MsaT027106.1:CDS
CAATGTAACAGATGCTTCCT+AGG 0.399104 5:-34795628 MsaT027106.1:intron
ACTTCCCATTTATCACCATT+TGG 0.427050 5:+34795551 None:intergenic
TCTACCAAATGGTGATAAAT+GGG 0.445463 5:-34795555 MsaT027106.1:CDS
TTCTTTCAACTTGATCTCTA+GGG 0.452245 5:+34795351 None:intergenic
TATCACCATTTGGTAGAACT+AGG 0.471668 5:+34795561 None:intergenic
CGTGTGGTTTCAAAAGGGTT+GGG 0.493190 5:-34795504 MsaT027106.1:CDS
ACGTGTGGTTTCAAAAGGGT+TGG 0.496889 5:-34795505 MsaT027106.1:CDS
TATTTCTTCACAAAACTCCT+AGG 0.519057 5:+34795611 None:intergenic
TTGGTAGAACTAGGGTTACT+GGG 0.523068 5:+34795570 None:intergenic
ATCACCATTTGGTAGAACTA+GGG 0.529841 5:+34795562 None:intergenic
GTAACCCTAGTTCTACCAAA+TGG 0.543476 5:-34795566 MsaT027106.1:CDS
AAAAGAATGAAAACAAGTGA+TGG 0.566067 5:-34795224 MsaT027106.1:CDS
CAAGTGATGGTCCATCTCAA+AGG 0.579235 5:-34795211 MsaT027106.1:CDS
TGGAACTGATGAACAATACT+CGG 0.587143 5:+34795877 None:intergenic
CATGACGTGTGGTTTCAAAA+GGG 0.630048 5:-34795509 MsaT027106.1:CDS
TGATGAACAATACTCGGAGT+CGG 0.631443 5:+34795883 None:intergenic
CATGAAGATGCTGAAAAGAG+TGG 0.644431 5:-34795317 MsaT027106.1:CDS
TAAAACGTGACCATGACGTG+TGG 0.763171 5:-34795520 MsaT027106.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 34795154 34795914 34795154 ID=MsaG027106
Chr5 mRNA 34795154 34795914 34795154 ID=MsaT027106.1;Parent=MsaG027106
Chr5 exon 34795154 34795639 34795154 ID=MsaT027106.1.exon2;Parent=MsaT027106.1
Chr5 CDS 34795154 34795639 34795154 ID=cds.MsaT027106.1;Parent=MsaT027106.1
Chr5 exon 34795819 34795914 34795819 ID=MsaT027106.1.exon1;Parent=MsaT027106.1
Chr5 CDS 34795819 34795914 34795819 ID=cds.MsaT027106.1;Parent=MsaT027106.1
Gene Sequence

>MsaT027106.1

ATGTCTTCTCCGACTCCGAGTATTGTTCATCAGTTCCATAAGTCACAATGTTTTTTCAAAGTCATCATCGAGACAACCCTTAAAAAGAAAGAGATTATGCTTCCTAGGAGTTTTGTGAAGAAATATGGAAAAAAATTATCAAACCCAGTAACCCTAGTTCTACCAAATGGTGATAAATGGGAAGTAAATTGGATAAAACGTGACCATGACGTGTGGTTTCAAAAGGGTTGGGAAAAATTTGCACAACACTATTCAATGAGTTATGGGCATTTTTTAGTTTTTAGACTTGAAACAAGGTCTCAATTTCAAGTAATGATATTTGACAAAAGCGCTTTGGAAATGGATTATTGGAGTATACCAAGCCCTAGAGATCAAGTTGAAAGAAACATTCATCATCATGAAGATGCTGAAAAGAGTGGCGATAAAGACGATTATATTGAGATTTCGGATGAGAGTGAAATGCGAAGATCTTCATCACCTCGACCTCAGAAAAGAATGAAAACAAGTGATGGTCCATCTCAAAGGAAAAACCTAAAGAAGGAAAAAATTAATGTGGATAAAAAAATCAAAGGAAAGTTATAA

Protein sequence

>MsaT027106.1

MSSPTPSIVHQFHKSQCFFKVIIETTLKKKEIMLPRSFVKKYGKKLSNPVTLVLPNGDKWEVNWIKRDHDVWFQKGWEKFAQHYSMSYGHFLVFRLETRSQFQVMIFDKSALEMDYWSIPSPRDQVERNIHHHEDAEKSGDKDDYIEISDESEMRRSSSPRPQKRMKTSDGPSQRKNLKKEKINVDKKIKGKL*