AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027293

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027293 MtrunA17_Chr5g0420351 96.154 156 6 0 1 156 1 156 8.13e-109 306
MsaG027293 MtrunA17_Chr1g0193311 85.897 156 22 0 1 156 1 156 4.56e-88 254
MsaG027293 MtrunA17_Chr7g0218151 75.000 156 39 0 1 156 1 156 4.29e-76 223
MsaG027293 MtrunA17_Chr4g0012761 75.000 156 39 0 1 156 1 156 1.65e-75 222
MsaG027293 MtrunA17_Chr1g0188681 68.590 156 49 0 1 156 1 156 5.63e-75 221
MsaG027293 MtrunA17_Chr1g0188661 72.436 156 43 0 1 156 1 156 1.20e-73 217
MsaG027293 MtrunA17_Chr1g0188651 71.154 156 43 1 1 156 1 154 8.13e-68 202
MsaG027293 MtrunA17_Chr1g0197461 64.706 153 54 0 3 155 2 154 4.78e-66 198
MsaG027293 MtrunA17_Chr1g0197261 59.355 155 63 0 1 155 1 155 5.79e-62 187
MsaG027293 MtrunA17_Chr1g0197321 57.051 156 66 1 1 155 1 156 2.45e-59 181
MsaG027293 MtrunA17_Chr3g0110131 51.282 156 75 1 1 155 1 156 7.23e-43 142
MsaG027293 MtrunA17_Chr3g0107381 44.805 154 84 1 1 153 1 154 2.84e-40 135
MsaG027293 MtrunA17_Chr4g0014321 40.909 154 89 2 1 152 1 154 1.05e-39 134
MsaG027293 MtrunA17_Chr4g0013041 41.558 154 86 3 1 152 1 152 1.79e-36 124
MsaG027293 MtrunA17_Chr3g0107331 42.857 154 87 1 3 155 2 155 5.70e-34 117
MsaG027293 MtrunA17_Chr8g0351751 42.767 159 87 2 1 155 1 159 6.52e-34 119
MsaG027293 MtrunA17_Chr5g0432691 35.897 156 99 1 1 155 1 156 7.34e-33 114
MsaG027293 MtrunA17_Chr4g0014031 43.590 156 86 2 1 154 1 156 1.05e-32 115
MsaG027293 MtrunA17_Chr3g0107351 41.558 154 89 1 3 155 2 155 2.93e-32 112
MsaG027293 MtrunA17_Chr3g0107361 41.558 154 89 1 3 155 2 155 5.92e-32 112
MsaG027293 MtrunA17_Chr3g0107461 38.217 157 95 2 1 155 1 157 7.64e-31 108
MsaG027293 MtrunA17_Chr3g0107341 39.610 154 92 1 3 155 2 155 8.55e-30 106
MsaG027293 MtrunA17_Chr4g0014121 42.949 156 87 2 1 154 29 184 6.92e-29 104
MsaG027293 MtrunA17_Chr2g0296831 45.763 118 63 1 1 117 1 118 8.92e-29 102
MsaG027293 MtrunA17_Chr4g0014131 44.231 156 85 2 1 154 1 156 1.60e-28 105
MsaG027293 MtrunA17_Chr2g0283941 37.748 151 92 2 1 149 1 151 6.32e-27 101
MsaG027293 MtrunA17_Chr3g0105791 38.889 126 75 2 29 152 1 126 2.32e-23 89.4
MsaG027293 MtrunA17_Chr2g0296861 34.194 155 101 1 1 154 1 155 2.43e-23 89.7
MsaG027293 MtrunA17_Chr4g0031421 38.095 126 76 2 29 152 1 126 8.28e-23 87.8
MsaG027293 MtrunA17_Chr3g0106501 34.884 129 82 2 29 155 1 129 9.65e-19 77.8
MsaG027293 MtrunA17_Chr4g0008701 34.899 149 85 4 1 145 1 141 1.00e-18 82.0
MsaG027293 MtrunA17_Chr3g0106421 33.077 130 83 3 29 155 1 129 5.76e-18 77.0
MsaG027293 MtrunA17_Chr7g0267601 32.639 144 88 3 3 145 6 141 7.86e-18 79.3
MsaG027293 MtrunA17_Chr1g0162261 46.237 93 49 1 64 155 22 114 1.86e-17 73.6
MsaG027293 MtrunA17_Chr1g0161931 43.000 100 56 1 57 155 21 120 3.98e-15 67.4
MsaG027293 MtrunA17_Chr1g0162181 43.333 90 50 1 64 152 22 111 5.83e-14 64.3
MsaG027293 MtrunA17_Chr6g0449861 31.481 108 68 3 1 102 9 116 1.65e-12 63.9
MsaG027293 MtrunA17_Chr3g0128721 28.829 111 78 1 3 112 6 116 1.80e-11 60.8
MsaG027293 MtrunA17_Chr6g0457851 28.704 108 71 3 1 102 11 118 2.17e-11 60.5
MsaG027293 MtrunA17_Chr1g0212151 28.440 109 70 3 1 102 1 108 2.54e-11 60.5
MsaG027293 MtrunA17_Chr5g0427401 34.513 113 57 3 1 113 1 96 4.90e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027293 AT5G26630.1 46.795 156 82 1 1 155 1 156 1.53e-39 133
MsaG027293 AT5G48670.1 47.436 156 81 1 1 155 1 156 7.01e-37 129
MsaG027293 AT1G65330.1 42.857 154 87 1 3 155 2 155 1.55e-36 127
MsaG027293 AT1G65300.1 40.909 154 90 1 3 155 2 155 6.15e-35 123
MsaG027293 AT3G05860.2 41.611 149 86 1 1 148 1 149 2.51e-34 119
MsaG027293 AT3G05860.3 41.611 149 86 1 1 148 1 149 8.94e-34 119
MsaG027293 AT3G05860.1 41.611 149 86 1 1 148 1 149 1.46e-33 119
MsaG027293 AT5G26650.1 37.908 153 94 1 4 155 2 154 2.00e-30 113
MsaG027293 AT5G27960.1 36.601 153 96 1 4 155 2 154 2.10e-28 107
MsaG027293 AT1G31630.1 31.126 151 102 2 3 152 2 151 1.91e-25 99.8
MsaG027293 AT1G22590.2 33.974 156 99 3 1 155 1 153 3.14e-23 90.1
MsaG027293 AT1G31640.1 34.000 150 97 2 3 151 2 150 6.25e-23 94.0
MsaG027293 AT2G28700.1 38.017 121 68 2 1 117 1 118 3.41e-21 88.2
MsaG027293 AT5G27810.1 43.333 90 50 1 29 117 1 90 6.18e-21 82.8
MsaG027293 AT5G26580.1 34.194 155 89 1 1 155 1 142 8.75e-21 87.0
MsaG027293 AT2G40210.1 36.496 137 81 3 1 134 1 134 3.29e-16 74.7
MsaG027293 AT5G06500.1 34.932 146 82 5 1 141 1 138 1.01e-15 72.0
MsaG027293 AT5G58890.1 35.417 96 55 2 1 89 1 96 1.93e-11 60.8
MsaG027293 AT1G47760.1 33.333 111 67 3 1 110 1 105 2.44e-11 59.3
MsaG027293 AT5G55690.1 29.167 120 78 2 1 113 1 120 5.10e-11 59.7
MsaG027293 AT5G55690.2 29.167 120 78 2 1 113 1 120 5.10e-11 59.7

Find 24 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATCTTTCATTGATGAGTTC+TGG 0.252705 5:-41521140 None:intergenic
CTCTAATGATTCGGCAAGAA+AGG 0.394804 5:+41520960 MsaT027293.1:CDS
GAGCTGAACAATCTTATGAT+TGG 0.404054 5:+41521258 MsaT027293.1:CDS
GTACCTCTCAATTACCTGTC+TGG 0.443679 5:-41521118 None:intergenic
TCAGAAACAGATAATTCATC+TGG 0.457651 5:-41521303 None:intergenic
AGCTGAACAATCTTATGATT+GGG 0.458403 5:+41521259 MsaT027293.1:CDS
AGAGAACTCACCATTCTTTG+TGG 0.496533 5:+41521024 MsaT027293.1:CDS
GCTCCTTCTCACGATTATCA+TGG 0.497017 5:-41521239 None:intergenic
TGCTGGAATACCACAAAGAA+TGG 0.514499 5:-41521034 None:intergenic
CAACGCCATGACTAGGAAGA+AGG 0.542765 5:+41520921 None:intergenic
TGAGAAAATTCTGAAGGACA+TGG 0.544670 5:+41521350 MsaT027293.1:CDS
TCTGCAATAAGAAACTCTCT+TGG 0.553341 5:-41521179 None:intergenic
TTGGAAATTATAGCACATGC+TGG 0.559487 5:-41521051 None:intergenic
AAGAGAGTTTCTTATTGCAG+AGG 0.564376 5:+41521181 MsaT027293.1:CDS
AGAGGTGTGGCCAGATCTAG+AGG 0.572723 5:+41521092 MsaT027293.1:CDS
GCTTATTGAGAAAATTCTGA+AGG 0.584834 5:+41521344 MsaT027293.1:CDS
TTAATTCTAAAACAGAGGTG+TGG 0.602716 5:+41521079 MsaT027293.1:CDS
TGCATTACAACGCCATGACT+AGG 0.604657 5:+41520914 None:intergenic
GATAACAAGATCGATGCACT+TGG 0.609178 5:+41521372 MsaT027293.1:CDS
GAGGTGTGGCCAGATCTAGA+GGG 0.615970 5:+41521093 MsaT027293.1:CDS
AAGCCATGATAATCGTGAGA+AGG 0.628086 5:+41521236 MsaT027293.1:CDS
AGGTGTGGCCAGATCTAGAG+GGG 0.656006 5:+41521094 MsaT027293.1:CDS
GGGCCAGACAGGTAATTGAG+AGG 0.686598 5:+41521115 MsaT027293.1:CDS
GGTGTGGCCAGATCTAGAGG+GGG 0.723497 5:+41521095 MsaT027293.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 41520928 41521398 41520928 ID=MsaG027293
Chr5 mRNA 41520928 41521398 41520928 ID=MsaT027293.1;Parent=MsaG027293
Chr5 exon 41520928 41521398 41520928 ID=MsaT027293.1.exon1;Parent=MsaT027293.1
Chr5 CDS 41520928 41521398 41520928 ID=cds.MsaT027293.1;Parent=MsaT027293.1
Gene Sequence

>MsaT027293.1

ATGACTAGGAAGAAGGTAAAACTTGCTTTTATCTCTAATGATTCGGCAAGAAAGGCAACCTACAATAAAAGAAAAAAGGGTATCATCAAGAAGGTTAGAGAACTCACCATTCTTTGTGGTATTCCAGCATGTGCTATAATTTCCAATCCTTTTAATTCTAAAACAGAGGTGTGGCCAGATCTAGAGGGGGCCAGACAGGTAATTGAGAGGTACCAGAACTCATCAATGAAAGATGAAACAAAGAATGTGAACCAAGAGAGTTTCTTATTGCAGAGGATTACTAAAGCCAGAGAGCAACTTCAAAAGCAAAGCCATGATAATCGTGAGAAGGAGCTGAACAATCTTATGATTGGGTATATGAAAAATAAAAAGCTACCAGATGAATTATCTGTTTCTGAATTGAAAGACTTTGATAAGCTTATTGAGAAAATTCTGAAGGACATGGATAACAAGATCGATGCACTTGGTTGA
Protein sequence

>MsaT027293.1

MTRKKVKLAFISNDSARKATYNKRKKGIIKKVRELTILCGIPACAIISNPFNSKTEVWPDLEGARQVIERYQNSSMKDETKNVNQESFLLQRITKAREQLQKQSHDNREKELNNLMIGYMKNKKLPDELSVSELKDFDKLIEKILKDMDNKIDALG*