AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG037296

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037296 MtrunA17_Chr1g0188661 92.453 159 12 0 1 159 1 159 8.69e-98 278
MsaG037296 MtrunA17_Chr4g0012761 87.421 159 20 0 1 159 1 159 1.94e-94 270
MsaG037296 MtrunA17_Chr7g0218151 88.050 159 19 0 1 159 1 159 3.21e-93 267
MsaG037296 MtrunA17_Chr1g0188681 71.975 157 44 0 1 157 1 157 2.90e-79 231
MsaG037296 MtrunA17_Chr1g0188651 74.214 159 39 1 1 159 1 157 1.78e-74 219
MsaG037296 MtrunA17_Chr5g0420351 67.949 156 50 0 1 156 1 156 2.25e-73 217
MsaG037296 MtrunA17_Chr1g0193311 72.436 156 43 0 1 156 1 156 3.02e-72 214
MsaG037296 MtrunA17_Chr1g0197261 56.129 155 68 0 1 155 1 155 5.45e-58 177
MsaG037296 MtrunA17_Chr1g0197321 55.128 156 69 1 1 155 1 156 2.53e-56 174
MsaG037296 MtrunA17_Chr1g0197461 53.595 153 71 0 3 155 2 154 1.41e-54 169
MsaG037296 MtrunA17_Chr5g0432691 39.744 156 93 1 1 155 1 156 7.06e-39 129
MsaG037296 MtrunA17_Chr3g0110131 49.045 157 79 1 1 156 1 157 2.17e-38 130
MsaG037296 MtrunA17_Chr3g0107381 43.137 153 86 1 1 152 1 153 1.01e-36 125
MsaG037296 MtrunA17_Chr4g0014321 36.129 155 97 2 1 153 1 155 5.24e-34 119
MsaG037296 MtrunA17_Chr3g0107331 42.038 157 90 1 3 158 2 158 5.61e-34 117
MsaG037296 MtrunA17_Chr3g0107361 42.208 154 88 1 3 155 2 155 8.54e-33 114
MsaG037296 MtrunA17_Chr4g0014031 43.333 150 83 2 1 148 1 150 2.20e-32 115
MsaG037296 MtrunA17_Chr3g0107351 43.226 155 85 2 3 155 2 155 3.53e-32 112
MsaG037296 MtrunA17_Chr3g0107341 40.909 154 90 1 3 155 2 155 1.96e-31 110
MsaG037296 MtrunA17_Chr2g0283941 40.252 159 93 2 1 157 1 159 2.82e-30 110
MsaG037296 MtrunA17_Chr8g0351751 37.736 159 95 2 1 155 1 159 6.88e-30 108
MsaG037296 MtrunA17_Chr4g0014121 42.500 160 90 2 1 158 29 188 7.13e-30 107
MsaG037296 MtrunA17_Chr4g0013041 33.548 155 99 3 1 153 1 153 2.07e-28 104
MsaG037296 MtrunA17_Chr3g0107461 33.962 159 103 2 1 157 1 159 8.96e-28 101
MsaG037296 MtrunA17_Chr4g0014131 40.373 161 94 2 1 159 1 161 2.15e-27 102
MsaG037296 MtrunA17_Chr2g0296831 41.026 117 68 1 1 116 1 117 5.23e-24 90.5
MsaG037296 MtrunA17_Chr3g0105791 35.878 131 82 2 29 157 1 131 9.18e-23 87.8
MsaG037296 MtrunA17_Chr4g0031421 35.878 131 82 2 29 157 1 131 1.62e-22 87.4
MsaG037296 MtrunA17_Chr2g0296861 32.258 155 104 1 1 154 1 155 3.25e-21 84.3
MsaG037296 MtrunA17_Chr3g0106501 34.351 131 84 2 29 157 1 131 7.44e-20 80.9
MsaG037296 MtrunA17_Chr4g0008701 33.553 152 94 3 1 148 1 149 1.36e-18 81.6
MsaG037296 MtrunA17_Chr7g0267601 31.544 149 98 2 1 148 4 149 4.17e-17 77.4
MsaG037296 MtrunA17_Chr3g0106421 33.077 130 83 3 29 155 1 129 5.39e-17 74.7
MsaG037296 MtrunA17_Chr3g0128721 28.289 152 104 2 3 151 6 155 6.30e-14 68.2
MsaG037296 MtrunA17_Chr1g0162181 39.583 96 57 1 64 158 22 117 1.72e-12 60.8
MsaG037296 MtrunA17_Chr1g0162261 37.500 96 59 1 64 158 22 117 2.78e-12 60.1
MsaG037296 MtrunA17_Chr1g0161931 39.362 94 56 1 64 156 28 121 1.59e-11 58.2
MsaG037296 MtrunA17_Chr6g0449861 29.464 112 73 3 1 106 9 120 5.28e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037296 AT5G48670.1 46.154 156 83 1 1 155 1 156 1.49e-34 123
MsaG037296 AT3G05860.2 38.926 149 90 1 1 148 1 149 2.19e-30 109
MsaG037296 AT3G05860.3 38.926 149 90 1 1 148 1 149 1.19e-29 108
MsaG037296 AT3G05860.1 38.926 149 90 1 1 148 1 149 1.75e-29 108
MsaG037296 AT5G26630.1 38.125 160 98 1 1 159 1 160 3.37e-28 104
MsaG037296 AT1G65300.1 36.054 147 93 1 3 148 2 148 2.39e-27 103
MsaG037296 AT1G65330.1 36.735 147 92 1 3 148 2 148 7.80e-27 102
MsaG037296 AT5G26650.1 35.294 153 98 1 4 155 2 154 2.21e-24 97.4
MsaG037296 AT5G27960.1 43.925 107 59 1 4 109 2 108 9.58e-24 94.7
MsaG037296 AT1G22590.2 29.630 162 98 3 1 155 1 153 3.87e-21 84.7
MsaG037296 AT5G27810.1 42.708 96 54 1 29 123 1 96 8.69e-20 80.1
MsaG037296 AT1G31630.1 29.032 155 108 2 3 156 2 155 1.82e-19 83.6
MsaG037296 AT2G28700.1 33.557 149 98 1 1 148 1 149 3.62e-19 82.8
MsaG037296 AT1G31640.1 38.739 111 66 2 3 112 2 111 3.49e-18 80.9
MsaG037296 AT5G26580.1 37.615 109 55 1 1 109 1 96 1.21e-16 75.9
MsaG037296 AT2G40210.1 38.835 103 58 2 1 100 1 101 1.13e-13 67.8
MsaG037296 AT5G58890.1 34.234 111 65 3 1 104 1 110 5.92e-13 65.1
MsaG037296 AT5G06500.1 29.814 161 105 3 1 157 1 157 7.13e-13 64.3

Find 26 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACAGAGGTGTGGCCAAATC+TGG 0.333286 7:-55442975 MsaT037296.1:CDS
TGTTGAATCATTGGAGATAA+AGG 0.341938 7:+55443111 None:intergenic
CTTGTCTTTGCTTTCTCAGT+TGG 0.347479 7:+55442843 None:intergenic
AGCCTTTCTTGTTGAATCAT+TGG 0.353862 7:+55443102 None:intergenic
GTTGCAAAAGGAAACTTTCC+TGG 0.375490 7:+55442885 None:intergenic
CTCCAATGATTCAACAAGAA+AGG 0.407412 7:-55443104 MsaT037296.1:CDS
CAGAACTCATATATGAAAGA+TGG 0.433670 7:-55442923 MsaT037296.1:CDS
CTTTAGTAATCTGTTGCAAA+AGG 0.444882 7:+55442873 None:intergenic
TGTTTCTGATTTGAATGACT+TGG 0.473410 7:-55442747 MsaT037296.1:CDS
TCAGAAACAGTCATATCATC+TGG 0.489973 7:+55442761 None:intergenic
TTTCACCTTCTTCCTAGTCA+TGG 0.490416 7:+55443138 None:intergenic
AGAGAACTCACTATTCTTTG+TGG 0.499930 7:-55443040 MsaT037296.1:CDS
TGCAACAGATTACTAAAGCT+AGG 0.531119 7:-55442868 MsaT037296.1:CDS
GCAACAGATTACTAAAGCTA+GGG 0.532673 7:-55442867 MsaT037296.1:CDS
AGAACTCATATATGAAAGAT+GGG 0.538835 7:-55442922 MsaT037296.1:CDS
AGCTGAACATTCGTATGAGT+TGG 0.547236 7:-55442805 MsaT037296.1:CDS
GAAGGAAATTGATGACAAGA+TGG 0.550366 7:-55442702 MsaT037296.1:CDS
CGAAGCCATGACTAGGAAGA+AGG 0.551367 7:-55443143 None:intergenic
GAAGAAAAGTATCATCAAGA+AGG 0.556586 7:-55443065 MsaT037296.1:CDS
AGGATCGGAAATTATAGCAC+AGG 0.559456 7:+55443009 None:intergenic
GAAAGGCTTCCTACAAGAAG+AGG 0.563850 7:-55443087 MsaT037296.1:CDS
TCGGAAATTATAGCACAGGC+TGG 0.570119 7:+55443013 None:intergenic
TACATTGCGAAGCCATGACT+AGG 0.618148 7:-55443150 None:intergenic
TTGATTCTAAAACAGAGGTG+TGG 0.633348 7:-55442985 MsaT037296.1:CDS
AGAGGTGTGGCCAAATCTGG+AGG 0.647190 7:-55442972 MsaT037296.1:CDS
TTGGTACCTGCAAAACAACA+CGG 0.687144 7:-55442786 MsaT037296.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 55442679 55443158 55442679 ID=MsaG037296
Chr7 mRNA 55442679 55443158 55442679 ID=MsaT037296.1;Parent=MsaG037296
Chr7 exon 55442679 55443158 55442679 ID=MsaT037296.1.exon1;Parent=MsaT037296.1
Chr7 CDS 55442679 55443158 55442679 ID=cds.MsaT037296.1;Parent=MsaT037296.1
Gene Sequence

>MsaT037296.1

ATGACTAGGAAGAAGGTGAAACTCGCCTTTATCTCCAATGATTCAACAAGAAAGGCTTCCTACAAGAAGAGGAAGAAAAGTATCATCAAGAAGGTTAGAGAACTCACTATTCTTTGTGGTATTCCAGCCTGTGCTATAATTTCCGATCCTTTTGATTCTAAAACAGAGGTGTGGCCAAATCTGGAGGAAGCAAAACAGATGATTGAGAGATATCAGAACTCATATATGAAAGATGGGAGAAAAAATGTGGACCAGGAAAGTTTCCTTTTGCAACAGATTACTAAAGCTAGGGACCAACTGAGAAAGCAAAGACAAGACAATCATGAAAATGAGCTGAACATTCGTATGAGTTGGTACCTGCAAAACAACACGGTGCCAGATGATATGACTGTTTCTGATTTGAATGACTTGGATAAGTTAATTGCAAAAAGTATGAAGGAAATTGATGACAAGATGGCTTCACTTAGTTTATCAAACTGA
Protein sequence

>MsaT037296.1

MTRKKVKLAFISNDSTRKASYKKRKKSIIKKVRELTILCGIPACAIISDPFDSKTEVWPNLEEAKQMIERYQNSYMKDGRKNVDQESFLLQQITKARDQLRKQRQDNHENELNIRMSWYLQNNTVPDDMTVSDLNDLDKLIAKSMKEIDDKMASLSLSN*