AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG019314

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019314 MtrunA17_Chr4g0014031 72.222 234 48 2 1 222 1 229 1.53e-112 321
MsaG019314 MtrunA17_Chr4g0014131 68.443 244 42 2 1 222 1 231 9.23e-108 309
MsaG019314 MtrunA17_Chr4g0014321 58.009 231 88 1 1 222 1 231 1.24e-93 273
MsaG019314 MtrunA17_Chr8g0351751 56.275 247 83 4 1 222 1 247 2.66e-86 255
MsaG019314 MtrunA17_Chr4g0013041 60.513 195 69 2 1 195 1 187 6.52e-82 243
MsaG019314 MtrunA17_Chr4g0014121 78.344 157 34 0 1 157 29 185 1.61e-77 231
MsaG019314 MtrunA17_Chr3g0110131 49.378 241 97 4 1 219 1 238 1.18e-64 200
MsaG019314 MtrunA17_Chr3g0107381 45.690 232 101 5 1 218 1 221 5.68e-63 195
MsaG019314 MtrunA17_Chr2g0296831 72.951 122 33 0 1 122 1 122 9.49e-52 163
MsaG019314 MtrunA17_Chr5g0432691 49.333 150 75 1 1 150 1 149 3.43e-45 148
MsaG019314 MtrunA17_Chr3g0107331 48.344 151 77 1 3 153 2 151 1.21e-43 144
MsaG019314 MtrunA17_Chr3g0107461 43.590 156 88 0 1 156 1 156 1.19e-42 141
MsaG019314 MtrunA17_Chr3g0107351 46.053 152 81 1 3 154 2 152 5.50e-41 137
MsaG019314 MtrunA17_Chr2g0283941 39.560 182 108 2 1 180 1 182 3.06e-40 138
MsaG019314 MtrunA17_Chr5g0420351 46.154 156 82 2 1 156 1 154 3.12e-40 135
MsaG019314 MtrunA17_Chr3g0107361 44.079 152 84 1 3 154 2 152 1.42e-38 131
MsaG019314 MtrunA17_Chr3g0107341 45.395 152 82 1 3 154 2 152 2.05e-38 130
MsaG019314 MtrunA17_Chr1g0188681 42.308 156 88 2 1 156 1 154 1.28e-36 126
MsaG019314 MtrunA17_Chr1g0197461 43.537 147 81 2 3 149 2 146 3.06e-35 122
MsaG019314 MtrunA17_Chr3g0105791 45.902 122 66 0 29 150 1 122 3.51e-34 119
MsaG019314 MtrunA17_Chr1g0188661 44.231 156 85 2 1 156 1 154 3.78e-34 119
MsaG019314 MtrunA17_Chr7g0218151 43.590 156 86 2 1 156 1 154 1.39e-33 118
MsaG019314 MtrunA17_Chr4g0012761 44.231 156 85 2 1 156 1 154 1.62e-33 118
MsaG019314 MtrunA17_Chr4g0031421 44.444 126 70 0 29 154 1 126 6.68e-33 116
MsaG019314 MtrunA17_Chr1g0193311 44.872 156 84 2 1 156 1 154 7.24e-33 116
MsaG019314 MtrunA17_Chr1g0188651 43.590 156 84 2 1 156 1 152 1.52e-31 113
MsaG019314 MtrunA17_Chr1g0197321 39.333 150 90 1 1 150 1 149 2.33e-31 112
MsaG019314 MtrunA17_Chr1g0197261 40.000 150 88 2 1 150 1 148 4.23e-31 112
MsaG019314 MtrunA17_Chr3g0106421 33.163 196 119 4 29 219 1 189 6.70e-30 110
MsaG019314 MtrunA17_Chr2g0296861 38.217 157 96 1 1 157 1 156 1.00e-25 98.2
MsaG019314 MtrunA17_Chr7g0267601 38.583 127 78 0 3 129 6 132 2.17e-23 97.4
MsaG019314 MtrunA17_Chr4g0008701 39.370 127 77 0 3 129 6 132 4.05e-23 96.7
MsaG019314 MtrunA17_Chr3g0128721 33.858 127 84 0 3 129 6 132 3.55e-20 88.6
MsaG019314 MtrunA17_Chr2g0296851 58.025 81 34 0 74 154 1 81 1.54e-18 77.4
MsaG019314 MtrunA17_Chr3g0106501 32.812 128 86 0 29 156 1 128 6.05e-18 77.8
MsaG019314 MtrunA17_Chr1g0212151 31.858 113 70 3 1 107 1 112 1.82e-13 68.6
MsaG019314 MtrunA17_Chr6g0457851 32.743 113 69 4 1 107 11 122 2.92e-13 67.8
MsaG019314 MtrunA17_Chr6g0449861 33.628 113 68 4 1 107 9 120 1.19e-12 66.2
MsaG019314 MtrunA17_Chr6g0449851 35.398 113 66 3 1 107 1 112 2.19e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019314 AT5G48670.1 55.844 154 67 1 1 154 1 153 6.87e-46 155
MsaG019314 AT1G65330.1 42.246 187 94 3 3 176 2 187 3.48e-42 144
MsaG019314 AT1G65300.1 41.436 181 97 2 3 175 2 181 1.70e-40 140
MsaG019314 AT5G26630.1 44.503 191 95 2 1 181 1 190 3.58e-39 134
MsaG019314 AT5G26650.1 42.105 152 87 1 5 156 3 153 1.70e-34 126
MsaG019314 AT5G27960.1 40.476 168 89 3 5 162 3 169 5.01e-34 124
MsaG019314 AT1G31630.1 36.905 168 95 3 3 161 2 167 5.24e-34 124
MsaG019314 AT1G31640.1 39.735 151 89 2 3 153 2 150 3.01e-32 122
MsaG019314 AT3G05860.2 37.975 158 97 1 1 158 1 157 7.07e-31 113
MsaG019314 AT3G05860.3 37.975 158 97 1 1 158 1 157 9.53e-31 114
MsaG019314 AT5G27810.1 55.914 93 41 0 29 121 1 93 1.10e-30 110
MsaG019314 AT3G05860.1 37.975 158 97 1 1 158 1 157 1.16e-30 114
MsaG019314 AT2G28700.1 38.037 163 96 2 1 161 1 160 1.05e-29 113
MsaG019314 AT1G22590.2 32.099 162 106 1 1 162 1 158 9.34e-26 98.6
MsaG019314 AT5G26580.1 33.333 180 97 4 1 172 1 165 6.42e-23 95.1
MsaG019314 AT5G06500.1 35.032 157 100 2 1 157 1 155 3.11e-21 89.0
MsaG019314 AT2G40210.1 34.568 162 103 2 1 162 1 159 2.83e-17 79.7
MsaG019314 AT5G58890.1 37.795 127 68 5 6 123 6 130 2.76e-15 73.6
MsaG019314 AT5G55690.1 42.308 78 38 2 1 71 1 78 1.64e-12 65.5
MsaG019314 AT5G55690.2 42.308 78 38 2 1 71 1 78 1.64e-12 65.5
MsaG019314 AT5G27090.1 34.444 90 58 1 7 95 23 112 8.07e-11 59.7

Find 57 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAACAAAGAAAAGAAAAT+AGG 0.231520 4:+26804596 MsaT019314.1:CDS
CCCTTTGGTGAGATCAATTA+TGG 0.234667 4:+26804913 MsaT019314.1:CDS
TACAAATGTCCTTCAGATTA+TGG 0.246858 4:-26804723 None:intergenic
ATAATTTCATCATCATTAAT+AGG 0.285530 4:-26804835 None:intergenic
GTGAGATCAATTATGGAGTT+TGG 0.309548 4:+26804920 MsaT019314.1:CDS
AACAAAGGGTCTATTGAAAA+AGG 0.314581 4:+26804363 MsaT019314.1:CDS
AGCATCTAGGAGTGAGGAAA+TGG 0.344298 4:+26804783 MsaT019314.1:CDS
ATGAGCCTCAACCTGAGATT+TGG 0.345571 4:+26804443 MsaT019314.1:CDS
ATCCTTCAAGGTAGTAAATC+AGG 0.372648 4:-26804943 None:intergenic
TATGCAAAGTCAATTATTGA+TGG 0.385590 4:+26804855 MsaT019314.1:CDS
GAAGGACATTTGTAGACGTT+TGG 0.385674 4:+26804732 MsaT019314.1:CDS
CTAGATGCTGTTGGAGGTGG+TGG 0.417295 4:-26804769 None:intergenic
GAAACAAAGAAAAGAAAATA+GGG 0.419680 4:+26804597 MsaT019314.1:CDS
GGCCTGATTTACTACCTTGA+AGG 0.422090 4:+26804941 MsaT019314.1:CDS
AGTGAGGAAATGGGAATTGT+GGG 0.443118 4:+26804793 MsaT019314.1:CDS
TTGATTTGATTTATCTTACT+TGG 0.448248 4:+26804692 MsaT019314.1:CDS
TTGTGGGTCATGGCCATGTT+GGG 0.452922 4:+26804809 MsaT019314.1:CDS
CACAACCATGGCTAGAAGTA+AGG 0.457305 4:+26804285 None:intergenic
CTCATAAGAGCCATACACTA+TGG 0.467809 4:-26804425 None:intergenic
ATTGTGGGTCATGGCCATGT+TGG 0.468248 4:+26804808 MsaT019314.1:CDS
TCTGATGAAGGCCAAATCTC+AGG 0.474702 4:-26804454 None:intergenic
CTCCTAGATGCTGTTGGAGG+TGG 0.476689 4:-26804772 None:intergenic
TCAATTATTGATGGACTCAA+TGG 0.482426 4:+26804864 MsaT019314.1:CDS
TCCTCACTCCTAGATGCTGT+TGG 0.486555 4:-26804778 None:intergenic
CTTGACACAAAGGATTCTGA+AGG 0.491635 4:+26804558 MsaT019314.1:CDS
TGCAGCATCATTGACAATGA+AGG 0.502295 4:-26804317 None:intergenic
TTTGTGTCAAGAAAGTCTCT+TGG 0.512375 4:-26804546 None:intergenic
GATGCTGTTGGAGGTGGTGG+TGG 0.513228 4:-26804766 None:intergenic
GGACATTTGTAGACGTTTGG+CGG 0.514914 4:+26804735 MsaT019314.1:CDS
GAGTGAGGAAATGGGAATTG+TGG 0.516317 4:+26804792 MsaT019314.1:CDS
GAGATTTGGCCTTCATCAGA+GGG 0.524738 4:+26804457 MsaT019314.1:CDS
TCACTCCTAGATGCTGTTGG+AGG 0.527908 4:-26804775 None:intergenic
CACCACCTCCAACAGCATCT+AGG 0.540352 4:+26804770 MsaT019314.1:CDS
ATGTCTCATTGTCTCAATGA+AGG 0.542205 4:+26804640 MsaT019314.1:CDS
GCATCTAGGAGTGAGGAAAT+GGG 0.544227 4:+26804784 MsaT019314.1:CDS
CCATAATTGATCTCACCAAA+GGG 0.558369 4:-26804913 None:intergenic
GAAGCCTGTGCCATAGTGTA+TGG 0.560968 4:+26804415 MsaT019314.1:CDS
GAAGGCCAAATCTCAGGTTG+AGG 0.568672 4:-26804448 None:intergenic
GTTGATTGACCATAATCTGA+AGG 0.571124 4:+26804714 MsaT019314.1:CDS
TTTAACCTTACTTCTAGCCA+TGG 0.572129 4:-26804290 None:intergenic
TCCATAATTGATCTCACCAA+AGG 0.580970 4:-26804914 None:intergenic
GTGCACGAGACAGTGCCCTT+TGG 0.582311 4:+26804898 MsaT019314.1:CDS
AAGAGACTTTCTTGACACAA+AGG 0.587821 4:+26804548 MsaT019314.1:CDS
CATTAATAGGTATCCCAACA+TGG 0.589301 4:-26804822 None:intergenic
TGAGATTTGGCCTTCATCAG+AGG 0.593649 4:+26804456 MsaT019314.1:CDS
ACAGGCTTCAATGCCACAGA+GGG 0.601811 4:-26804401 None:intergenic
TTGATGGACTCAATGGTGGC+TGG 0.607204 4:+26804871 MsaT019314.1:CDS
GATTTGGCCTTCATCAGAGG+GGG 0.615187 4:+26804459 MsaT019314.1:CDS
GAAATGGGAATTGTGGGTCA+TGG 0.616732 4:+26804799 MsaT019314.1:CDS
TCCAACAGCATCTAGGAGTG+AGG 0.643310 4:+26804777 MsaT019314.1:CDS
TCATTGTCAATGATGCTGCA+AGG 0.652548 4:+26804320 MsaT019314.1:CDS
AGAGCCATACACTATGGCAC+AGG 0.656790 4:-26804419 None:intergenic
ATTATTGATGGACTCAATGG+TGG 0.666274 4:+26804867 MsaT019314.1:CDS
AGATTTGGCCTTCATCAGAG+GGG 0.672121 4:+26804458 MsaT019314.1:CDS
GCTGAACTTAGCACCCTCTG+TGG 0.677042 4:+26804388 MsaT019314.1:CDS
TGTGCACGACAATATGTCAA+CGG 0.688304 4:+26804669 MsaT019314.1:CDS
CACAGGCTTCAATGCCACAG+AGG 0.696692 4:-26804402 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 26804292 26804960 26804292 ID=MsaG019314
Chr4 mRNA 26804292 26804960 26804292 ID=MsaT019314.1;Parent=MsaG019314
Chr4 exon 26804292 26804960 26804292 ID=MsaT019314.1.exon1;Parent=MsaT019314.1
Chr4 CDS 26804292 26804960 26804292 ID=cds.MsaT019314.1;Parent=MsaT019314.1
Gene Sequence

>MsaT019314.1

ATGGCTAGAAGTAAGGTTAAACTCGCCTTCATTGTCAATGATGCTGCAAGGAAAGCAACATACAAAAAAAGAACAAAGGGTCTATTGAAAAAGGTTGCTGAACTTAGCACCCTCTGTGGCATTGAAGCCTGTGCCATAGTGTATGGCTCTTATGAGCCTCAACCTGAGATTTGGCCTTCATCAGAGGGGGTCCAATCTGTGCTCTCAAAATTCATGACGATGCACGAGTTTCAAAAGTGCAAGAAAATGCTGAACCAAGAGACTTTCTTGACACAAAGGATTCTGAAGGCTGAAGAGAAATTGAAGAAACAAAGAAAAGAAAATAGGGAGCAAGAGATGACAATACTCATGTCTCATTGTCTCAATGAAGGTAGAGTTGTGCACGACAATATGTCAACGGTTGATTTGATTTATCTTACTTGGTTGATTGACCATAATCTGAAGGACATTTGTAGACGTTTGGCGGCAACAGTGCCACCACCACCTCCAACAGCATCTAGGAGTGAGGAAATGGGAATTGTGGGTCATGGCCATGTTGGGATACCTATTAATGATGATGAAATTATGCAAAGTCAATTATTGATGGACTCAATGGTGGCTGGTAATGTGCACGAGACAGTGCCCTTTGGTGAGATCAATTATGGAGTTTGGCCTGATTTACTACCTTGA
Protein sequence

>MsaT019314.1

MARSKVKLAFIVNDAARKATYKKRTKGLLKKVAELSTLCGIEACAIVYGSYEPQPEIWPSSEGVQSVLSKFMTMHEFQKCKKMLNQETFLTQRILKAEEKLKKQRKENREQEMTILMSHCLNEGRVVHDNMSTVDLIYLTWLIDHNLKDICRRLAATVPPPPPTASRSEEMGIVGHGHVGIPINDDEIMQSQLLMDSMVAGNVHETVPFGEINYGVWPDLLP*