AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003700

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003700 MtrunA17_Chr1g0188661 94.340 159 9 0 1 159 1 159 1.43e-101 288
MsaG003700 MtrunA17_Chr7g0218151 89.308 159 17 0 1 159 1 159 8.90e-96 273
MsaG003700 MtrunA17_Chr4g0012761 86.164 159 22 0 1 159 1 159 1.28e-93 268
MsaG003700 MtrunA17_Chr1g0188681 70.064 157 47 0 1 157 1 157 1.29e-78 230
MsaG003700 MtrunA17_Chr5g0420351 69.872 156 47 0 1 156 1 156 9.96e-77 225
MsaG003700 MtrunA17_Chr1g0193311 73.718 156 41 0 1 156 1 156 2.31e-75 222
MsaG003700 MtrunA17_Chr1g0188651 74.843 159 38 1 1 159 1 157 9.20e-75 220
MsaG003700 MtrunA17_Chr1g0197261 55.484 155 69 0 1 155 1 155 6.12e-59 180
MsaG003700 MtrunA17_Chr1g0197321 54.487 156 70 1 1 155 1 156 2.02e-57 176
MsaG003700 MtrunA17_Chr1g0197461 54.248 153 70 0 3 155 2 154 8.81e-56 172
MsaG003700 MtrunA17_Chr3g0110131 51.592 157 75 1 1 156 1 157 2.38e-41 138
MsaG003700 MtrunA17_Chr3g0107381 45.752 153 82 1 1 152 1 153 1.34e-38 130
MsaG003700 MtrunA17_Chr5g0432691 39.103 156 94 1 1 155 1 156 3.82e-37 125
MsaG003700 MtrunA17_Chr4g0014321 38.065 155 94 2 1 153 1 155 8.50e-37 126
MsaG003700 MtrunA17_Chr3g0107331 42.038 157 90 1 3 158 2 158 1.34e-33 116
MsaG003700 MtrunA17_Chr3g0107351 42.208 154 88 1 3 155 2 155 1.43e-33 116
MsaG003700 MtrunA17_Chr4g0014031 44.667 150 81 2 1 148 1 150 4.20e-33 117
MsaG003700 MtrunA17_Chr8g0351751 40.252 159 91 2 1 155 1 159 9.92e-33 116
MsaG003700 MtrunA17_Chr4g0013041 37.419 155 93 3 1 153 1 153 1.24e-32 115
MsaG003700 MtrunA17_Chr3g0107361 40.909 154 90 1 3 155 2 155 3.69e-32 112
MsaG003700 MtrunA17_Chr3g0107341 39.610 154 92 1 3 155 2 155 1.20e-30 108
MsaG003700 MtrunA17_Chr4g0014121 43.750 160 88 2 1 158 29 188 4.53e-30 108
MsaG003700 MtrunA17_Chr2g0283941 42.038 157 87 3 1 154 1 156 2.55e-29 107
MsaG003700 MtrunA17_Chr4g0014131 46.000 150 79 2 1 148 1 150 4.16e-29 106
MsaG003700 MtrunA17_Chr3g0107461 35.000 160 100 3 1 157 1 159 4.21e-28 102
MsaG003700 MtrunA17_Chr2g0296831 44.068 118 65 1 1 117 1 118 6.63e-27 97.8
MsaG003700 MtrunA17_Chr3g0105791 35.115 131 83 2 29 157 1 131 6.04e-22 85.9
MsaG003700 MtrunA17_Chr4g0031421 35.115 131 83 2 29 157 1 131 9.49e-22 85.5
MsaG003700 MtrunA17_Chr2g0296861 32.258 155 104 1 1 154 1 155 1.82e-21 85.1
MsaG003700 MtrunA17_Chr4g0008701 35.000 120 74 2 1 116 1 120 2.98e-17 77.8
MsaG003700 MtrunA17_Chr3g0106501 32.061 131 87 2 29 157 1 131 1.62e-16 72.0
MsaG003700 MtrunA17_Chr7g0267601 35.398 113 69 2 1 109 1 113 1.94e-16 75.5
MsaG003700 MtrunA17_Chr3g0106421 32.308 130 84 3 29 155 1 129 3.18e-16 72.8
MsaG003700 MtrunA17_Chr1g0161931 40.426 94 55 1 64 156 28 121 2.33e-13 63.2
MsaG003700 MtrunA17_Chr1g0162261 37.755 98 60 1 62 158 20 117 2.56e-13 62.8
MsaG003700 MtrunA17_Chr1g0162181 38.776 98 59 1 62 158 20 117 9.14e-13 61.6
MsaG003700 MtrunA17_Chr6g0449861 31.250 112 71 3 1 106 9 120 1.82e-12 63.9
MsaG003700 MtrunA17_Chr3g0128721 26.316 152 107 2 3 151 6 155 1.49e-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
MsaG003700 AT5G48670.1 46.795 156 82 1 1 155 1 156 2.25e-35 125
MsaG003700 AT3G05860.2 40.268 149 88 1 1 148 1 149 2.70e-32 114
MsaG003700 AT3G05860.3 40.268 149 88 1 1 148 1 149 1.24e-31 114
MsaG003700 AT3G05860.1 40.268 149 88 1 1 148 1 149 1.94e-31 114
MsaG003700 AT5G26630.1 40.625 160 94 1 1 159 1 160 3.03e-31 112
MsaG003700 AT1G65300.1 36.054 147 93 1 3 148 2 148 3.58e-27 103
MsaG003700 AT1G65330.1 36.054 147 93 1 3 148 2 148 3.38e-26 100
MsaG003700 AT5G26650.1 34.641 153 99 1 4 155 2 154 1.68e-23 94.7
MsaG003700 AT5G27960.1 41.026 117 66 2 4 119 2 116 1.13e-22 92.0
MsaG003700 AT5G27810.1 44.792 96 52 1 29 123 1 96 2.70e-21 84.0
MsaG003700 AT2G28700.1 34.211 152 93 2 1 148 1 149 2.39e-20 85.9
MsaG003700 AT1G31630.1 32.143 140 93 2 3 141 2 140 5.38e-20 85.1
MsaG003700 AT1G22590.2 32.174 115 77 1 1 114 1 115 5.88e-19 79.0
MsaG003700 AT1G31640.1 34.559 136 87 2 3 137 2 136 3.45e-18 80.9
MsaG003700 AT5G26580.1 36.975 119 60 2 1 119 1 104 3.16e-17 77.4
MsaG003700 AT2G40210.1 38.835 103 58 2 1 100 1 101 2.17e-13 67.0
MsaG003700 AT5G58890.1 32.432 111 67 3 1 104 1 110 4.72e-12 62.8
MsaG003700 AT5G06500.1 32.192 146 86 5 1 141 1 138 1.27e-11 60.8

Find 24 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTGAATCATTAGTGATAA+AGG 0.307446 1:+60816769 None:intergenic
AGCTGAACATTCGTATGATT+TGG 0.323437 1:-60816463 MsaT003700.1:CDS
GTTGCAAAAGGAAACTTTCC+TGG 0.331570 1:+60816543 None:intergenic
CACTAATGATTCAGCAAGAA+AGG 0.401894 1:-60816762 MsaT003700.1:CDS
AAATCTGAAGGAAGCAAAAC+AGG 0.418438 1:-60816618 MsaT003700.1:CDS
TCTCAGTTGATCCCTAGCTT+TGG 0.420289 1:+60816514 None:intergenic
CTTTGGTAATCTGTTGCAAA+AGG 0.444012 1:+60816531 None:intergenic
TGTTTCTGATTTGAAAGACT+TGG 0.473410 1:-60816405 MsaT003700.1:CDS
TTTCACCTTCTTCCTCGTCA+TGG 0.482331 1:+60816796 None:intergenic
TCAGAAACAGTCATATCATC+TGG 0.489973 1:+60816419 None:intergenic
AACAGGTGGTTGAGAGGTAT+CGG 0.518804 1:-60816601 MsaT003700.1:CDS
AGAGAACTCACTATTCTTTG+TGG 0.526508 1:-60816698 MsaT003700.1:CDS
CGAAGCCATGACGAGGAAGA+AGG 0.526668 1:-60816801 None:intergenic
GCAACAGATTACCAAAGCTA+GGG 0.531580 1:-60816525 MsaT003700.1:CDS
TGCAACAGATTACCAAAGCT+AGG 0.533275 1:-60816526 MsaT003700.1:CDS
GAAGAAAAGTATCATCAAGA+AGG 0.556586 1:-60816723 MsaT003700.1:CDS
TCGGAAATTATAGCACATGC+TGG 0.559487 1:+60816671 None:intergenic
AGAGGTGTGGCCAAATCTGA+AGG 0.570010 1:-60816630 MsaT003700.1:CDS
GAAAGGCTTCCTACAAGAAG+AGG 0.572219 1:-60816745 MsaT003700.1:CDS
GAAGGACATTGATGACAAGA+TGG 0.586320 1:-60816360 MsaT003700.1:CDS
AAGCAAAACAGGTGGTTGAG+AGG 0.630681 1:-60816607 MsaT003700.1:CDS
TTGATTCTAAAACAGAGGTG+TGG 0.633348 1:-60816643 MsaT003700.1:CDS
TACAGTGCGAAGCCATGACG+AGG 0.644898 1:-60816808 None:intergenic
TCTGAAGGAAGCAAAACAGG+TGG 0.701211 1:-60816615 MsaT003700.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 60816337 60816816 60816337 ID=MsaG003700
Chr1 mRNA 60816337 60816816 60816337 ID=MsaT003700.1;Parent=MsaG003700
Chr1 exon 60816337 60816816 60816337 ID=MsaT003700.1.exon1;Parent=MsaT003700.1
Chr1 CDS 60816337 60816816 60816337 ID=cds.MsaT003700.1;Parent=MsaT003700.1
Gene Sequence

>MsaT003700.1

ATGACGAGGAAGAAGGTGAAACTCGCCTTTATCACTAATGATTCAGCAAGAAAGGCTTCCTACAAGAAGAGGAAGAAAAGTATCATCAAGAAGGTGAGAGAACTCACTATTCTTTGTGGTATTCCAGCATGTGCTATAATTTCCGATCCTTTTGATTCTAAAACAGAGGTGTGGCCAAATCTGAAGGAAGCAAAACAGGTGGTTGAGAGGTATCGGAACTCATATATGAAAGATGAGAGAAAAAATGTGAACCAGGAAAGTTTCCTTTTGCAACAGATTACCAAAGCTAGGGATCAACTGAGAAAGCAAAGACAAGATAATCATGAGAATGAGCTGAACATTCGTATGATTTGGTACCTGCAAAACAACACAGTGCCAGATGATATGACTGTTTCTGATTTGAAAGACTTGGATAAGTTAATTGCAAAAAATATGAAGGACATTGATGACAAGATGGCTTCACTTAGTTTATCAAACTGA
Protein sequence

>MsaT003700.1

MTRKKVKLAFITNDSARKASYKKRKKSIIKKVRELTILCGIPACAIISDPFDSKTEVWPNLKEAKQVVERYRNSYMKDERKNVNQESFLLQQITKARDQLRKQRQDNHENELNIRMIWYLQNNTVPDDMTVSDLKDLDKLIAKNMKDIDDKMASLSLSN*