AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004092


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004092 MtrunA17_Chr1g0193311 94.872 156 8 0 1 156 1 156 3.71e-99 281
MsaG004092 MtrunA17_Chr5g0420351 85.256 156 23 0 1 156 1 156 6.32e-94 268
MsaG004092 MtrunA17_Chr7g0218151 77.564 156 35 0 1 156 1 156 7.62e-79 230
MsaG004092 MtrunA17_Chr4g0012761 76.282 156 37 0 1 156 1 156 1.97e-77 227
MsaG004092 MtrunA17_Chr1g0188661 75.000 156 39 0 1 156 1 156 8.67e-77 225
MsaG004092 MtrunA17_Chr1g0188681 68.590 156 49 0 1 156 1 156 1.11e-74 220
MsaG004092 MtrunA17_Chr1g0188651 73.077 156 40 1 1 156 1 154 4.70e-68 203
MsaG004092 MtrunA17_Chr1g0197461 63.399 153 56 0 3 155 2 154 2.81e-65 196
MsaG004092 MtrunA17_Chr1g0197261 59.355 155 63 0 1 155 1 155 1.50e-63 192
MsaG004092 MtrunA17_Chr1g0197321 58.333 156 64 1 1 155 1 156 4.60e-62 188
MsaG004092 MtrunA17_Chr3g0110131 51.282 156 75 1 1 155 1 156 7.64e-43 142
MsaG004092 MtrunA17_Chr3g0107381 46.104 154 82 1 1 153 1 154 1.45e-42 140
MsaG004092 MtrunA17_Chr4g0014321 39.355 155 92 2 1 153 1 155 1.58e-40 135
MsaG004092 MtrunA17_Chr4g0013041 39.610 154 89 3 1 152 1 152 4.26e-36 124
MsaG004092 MtrunA17_Chr8g0351751 40.881 159 90 2 1 155 1 159 4.21e-35 122
MsaG004092 MtrunA17_Chr3g0107351 42.857 154 87 1 3 155 2 155 9.81e-35 119
MsaG004092 MtrunA17_Chr5g0432691 37.821 156 96 1 1 155 1 156 2.65e-34 117
MsaG004092 MtrunA17_Chr4g0014031 42.308 156 88 2 1 154 1 156 9.44e-34 118
MsaG004092 MtrunA17_Chr3g0107331 41.558 154 89 1 3 155 2 155 1.01e-33 116
MsaG004092 MtrunA17_Chr3g0107361 40.909 154 90 1 3 155 2 155 6.99e-33 114
MsaG004092 MtrunA17_Chr3g0107341 40.260 154 91 1 3 155 2 155 1.87e-31 110
MsaG004092 MtrunA17_Chr4g0014131 43.590 156 86 2 1 154 1 156 3.27e-30 109
MsaG004092 MtrunA17_Chr4g0014121 42.949 156 87 2 1 154 29 184 8.18e-30 107
MsaG004092 MtrunA17_Chr2g0296831 45.455 121 65 1 1 120 1 121 1.91e-29 104
MsaG004092 MtrunA17_Chr3g0107461 35.443 158 98 3 1 155 1 157 1.66e-28 103
MsaG004092 MtrunA17_Chr2g0283941 37.748 151 92 2 1 149 1 151 3.91e-28 104
MsaG004092 MtrunA17_Chr4g0031421 36.508 126 78 2 29 152 1 126 2.40e-22 86.7
MsaG004092 MtrunA17_Chr2g0296861 34.194 155 101 1 1 154 1 155 4.63e-22 86.7
MsaG004092 MtrunA17_Chr3g0105791 35.714 126 79 2 29 152 1 126 9.04e-22 85.1
MsaG004092 MtrunA17_Chr3g0106421 34.109 129 83 2 29 155 1 129 3.04e-20 83.2
MsaG004092 MtrunA17_Chr4g0008701 37.903 124 69 3 1 120 1 120 3.07e-19 83.2
MsaG004092 MtrunA17_Chr3g0106501 34.109 129 83 2 29 155 1 129 1.02e-18 77.8
MsaG004092 MtrunA17_Chr1g0162261 45.161 93 50 1 64 155 22 114 2.61e-18 75.9
MsaG004092 MtrunA17_Chr7g0267601 37.168 113 67 2 1 109 1 113 3.25e-18 80.5
MsaG004092 MtrunA17_Chr1g0161931 44.000 100 55 1 57 155 21 120 1.14e-16 71.6
MsaG004092 MtrunA17_Chr1g0162181 44.444 90 49 1 64 152 22 111 1.65e-15 68.6
MsaG004092 MtrunA17_Chr6g0449861 32.727 110 68 3 1 104 9 118 3.61e-14 68.6
MsaG004092 MtrunA17_Chr3g0128721 28.571 133 89 2 3 134 6 133 1.57e-13 67.0
MsaG004092 MtrunA17_Chr6g0457851 30.000 110 71 3 1 104 11 120 4.99e-13 65.1
MsaG004092 MtrunA17_Chr1g0212151 29.091 110 72 2 1 104 1 110 3.96e-12 62.8
MsaG004092 MtrunA17_Chr5g0427401 29.221 154 85 5 1 148 1 136 8.82e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004092 AT5G26630.1 44.231 156 86 1 1 155 1 156 3.98e-37 127
MsaG004092 AT5G48670.1 47.436 156 81 1 1 155 1 156 4.52e-36 127
MsaG004092 AT3G05860.2 40.268 149 88 1 1 148 1 149 5.56e-33 116
MsaG004092 AT1G65330.1 40.909 154 90 1 3 155 2 155 1.68e-32 117
MsaG004092 AT3G05860.3 40.268 149 88 1 1 148 1 149 2.33e-32 115
MsaG004092 AT3G05860.1 40.268 149 88 1 1 148 1 149 3.03e-32 115
MsaG004092 AT1G65300.1 38.312 154 94 1 3 155 2 155 5.55e-31 112
MsaG004092 AT5G26650.1 35.948 153 97 1 4 155 2 154 2.03e-27 105
MsaG004092 AT5G27960.1 34.641 153 99 1 4 155 2 154 2.81e-25 99.0
MsaG004092 AT1G31630.1 30.464 151 103 2 3 152 2 151 3.81e-24 96.3
MsaG004092 AT1G22590.2 32.051 156 102 2 1 155 1 153 4.82e-24 92.0
MsaG004092 AT1G31640.1 34.459 148 95 2 3 149 2 148 1.48e-22 92.8
MsaG004092 AT5G27810.1 45.556 90 48 1 29 117 1 90 1.28e-21 84.7
MsaG004092 AT2G28700.1 34.746 118 76 1 1 117 1 118 4.63e-20 85.1
MsaG004092 AT5G26580.1 32.903 155 91 2 1 155 1 142 1.82e-19 83.6
MsaG004092 AT5G06500.1 36.301 146 80 5 1 141 1 138 1.35e-17 77.0
MsaG004092 AT2G40210.1 34.884 129 81 2 1 127 1 128 5.00e-14 68.6
MsaG004092 AT5G55690.1 26.582 158 95 3 1 151 1 144 7.42e-12 62.0
MsaG004092 AT5G55690.2 26.582 158 95 3 1 151 1 144 7.42e-12 62.0
MsaG004092 AT1G47760.1 33.333 111 67 3 1 110 1 105 9.42e-12 60.5
MsaG004092 AT5G58890.1 34.234 111 65 3 1 104 1 110 1.32e-11 61.2

Find 24 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAAGATGTTCCCTAGCTT+TGG 0.376916 1:+65566619 None:intergenic
GCCGGATGGTTTGACCGTTT+CGG 0.379706 1:-65566525 MsaT004092.1:CDS
CTTTGGTAATCCTCTGCAAT+AGG 0.405146 1:+65566636 None:intergenic
CTCTGATGATTCGGCAAGAA+AGG 0.409977 1:-65566867 MsaT004092.1:CDS
CGTTTAGCCTTCTCTAGATC+TGG 0.415050 1:+65566725 None:intergenic
TTTCACCTTCTTCCTAGTCA+TGG 0.473113 1:+65566901 None:intergenic
TCCGAAACGGTCAAACCATC+CGG 0.476793 1:+65566524 None:intergenic
TCTGCAATAGGAAGCTCTCT+TGG 0.511328 1:+65566648 None:intergenic
AGCTGGAATACCGCATAGAA+TGG 0.529502 1:+65566793 None:intergenic
TTGGAAATTATAGCACAAGC+TGG 0.550429 1:+65566776 None:intergenic
TTGCATTGCAAGCCATGACT+AGG 0.554602 1:-65566913 None:intergenic
GCAAGCCATGACTAGGAAGA+AGG 0.558932 1:-65566906 None:intergenic
AAACTCTTTCAAATCCGAAA+CGG 0.563009 1:+65566511 None:intergenic
TGCAGAGGATTACCAAAGCT+AGG 0.568390 1:-65566631 MsaT004092.1:CDS
GCAGAGGATTACCAAAGCTA+GGG 0.571791 1:-65566630 MsaT004092.1:CDS
AGGCTAAACGTGTGATTGAG+AGG 0.594284 1:-65566712 MsaT004092.1:CDS
GGGAACATCTTCAAAAGCAA+AGG 0.603982 1:-65566610 MsaT004092.1:CDS
TGAGAGGTATCAAAATTCAT+CGG 0.625826 1:-65566696 MsaT004092.1:CDS
AAGAGAGCTTCCTATTGCAG+AGG 0.626560 1:-65566646 MsaT004092.1:CDS
TTGATTCTAAAACAGAGGTG+TGG 0.633348 1:-65566748 MsaT004092.1:CDS
AAGGCACGACAATCGTGAGA+AGG 0.638977 1:-65566591 MsaT004092.1:CDS
GGTGTGGCCAGATCTAGAGA+AGG 0.655354 1:-65566732 MsaT004092.1:CDS
GATAACAAGATTGATGCACT+CGG 0.692256 1:-65566455 MsaT004092.1:CDS
AGCGAACTCACCATTCTATG+CGG 0.710886 1:-65566803 MsaT004092.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 65566451 65566921 65566451 ID=MsaG004092
Chr1 mRNA 65566451 65566921 65566451 ID=MsaT004092.1;Parent=MsaG004092
Chr1 exon 65566451 65566921 65566451 ID=MsaT004092.1.exon1;Parent=MsaT004092.1
Chr1 CDS 65566451 65566921 65566451 ID=cds.MsaT004092.1;Parent=MsaT004092.1
Gene Sequence

>MsaT004092.1

ATGACTAGGAAGAAGGTGAAACTTGCTTTTATCTCTGATGATTCGGCAAGAAAGGCAACCTATAAGAAAAGAAAAAAGGGTATCATCAAAAAGGTGAGCGAACTCACCATTCTATGCGGTATTCCAGCTTGTGCTATAATTTCCAATCCTTTTGATTCTAAAACAGAGGTGTGGCCAGATCTAGAGAAGGCTAAACGTGTGATTGAGAGGTATCAAAATTCATCGGTGAAAGATGAAACAAAGAATGTGAACCAAGAGAGCTTCCTATTGCAGAGGATTACCAAAGCTAGGGAACATCTTCAAAAGCAAAGGCACGACAATCGTGAGAAGGAGTTGAACGTTCTTATGATTGAGTACATGAAAAACAAAAAGCTGCCGGATGGTTTGACCGTTTCGGATTTGAAAGAGTTTGATAAGCTAATTGAGAAAAATATGAAGGAGATTGATAACAAGATTGATGCACTCGGTTGA

Protein sequence

>MsaT004092.1

MTRKKVKLAFISDDSARKATYKKRKKGIIKKVSELTILCGIPACAIISNPFDSKTEVWPDLEKAKRVIERYQNSSVKDETKNVNQESFLLQRITKAREHLQKQRHDNREKELNVLMIEYMKNKKLPDGLTVSDLKEFDKLIEKNMKEIDNKIDALG*