AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG019316

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019316 MtrunA17_Chr4g0014031 71.795 234 49 2 1 222 1 229 3.26e-113 323
MsaG019316 MtrunA17_Chr4g0014131 68.033 244 43 2 1 222 1 231 4.73e-108 310
MsaG019316 MtrunA17_Chr4g0014321 58.009 231 88 1 1 222 1 231 9.85e-94 274
MsaG019316 MtrunA17_Chr8g0351751 55.870 247 84 4 1 222 1 247 3.10e-86 255
MsaG019316 MtrunA17_Chr4g0013041 60.000 195 70 2 1 195 1 187 2.05e-81 241
MsaG019316 MtrunA17_Chr4g0014121 80.392 153 30 0 1 153 29 181 3.07e-79 235
MsaG019316 MtrunA17_Chr3g0110131 48.760 242 97 4 1 219 1 238 1.75e-65 202
MsaG019316 MtrunA17_Chr3g0107381 44.828 232 103 5 1 218 1 221 7.33e-62 192
MsaG019316 MtrunA17_Chr2g0296831 72.131 122 34 0 1 122 1 122 7.39e-52 163
MsaG019316 MtrunA17_Chr5g0432691 48.344 151 77 1 1 151 1 150 6.22e-45 147
MsaG019316 MtrunA17_Chr3g0107331 47.368 152 79 1 3 154 2 152 1.22e-43 144
MsaG019316 MtrunA17_Chr3g0107351 47.020 151 79 1 3 153 2 151 1.11e-42 141
MsaG019316 MtrunA17_Chr3g0107461 43.791 153 86 0 1 153 1 153 3.75e-42 140
MsaG019316 MtrunA17_Chr3g0107341 47.297 148 77 1 3 150 2 148 2.09e-40 135
MsaG019316 MtrunA17_Chr3g0107361 45.033 151 82 1 3 153 2 151 3.95e-40 135
MsaG019316 MtrunA17_Chr5g0420351 45.513 156 83 2 1 156 1 154 1.60e-39 133
MsaG019316 MtrunA17_Chr2g0283941 38.462 182 110 2 1 180 1 182 4.43e-39 135
MsaG019316 MtrunA17_Chr1g0188681 41.667 156 89 2 1 156 1 154 4.81e-36 124
MsaG019316 MtrunA17_Chr1g0197461 42.857 147 82 2 3 149 2 146 7.02e-35 121
MsaG019316 MtrunA17_Chr1g0188661 43.590 156 86 2 1 156 1 154 2.73e-34 120
MsaG019316 MtrunA17_Chr3g0105791 45.082 122 67 0 29 150 1 122 6.43e-34 118
MsaG019316 MtrunA17_Chr7g0218151 42.949 156 87 2 1 156 1 154 7.69e-34 119
MsaG019316 MtrunA17_Chr4g0012761 43.590 156 86 2 1 156 1 154 1.01e-33 118
MsaG019316 MtrunA17_Chr1g0193311 44.231 156 85 2 1 156 1 154 5.65e-33 116
MsaG019316 MtrunA17_Chr4g0031421 44.000 125 70 0 29 153 1 125 1.67e-32 115
MsaG019316 MtrunA17_Chr1g0188651 42.949 156 85 2 1 156 1 152 7.45e-32 114
MsaG019316 MtrunA17_Chr1g0197321 38.312 154 83 2 1 154 1 142 5.16e-31 111
MsaG019316 MtrunA17_Chr1g0197261 39.333 150 89 2 1 150 1 148 1.10e-30 110
MsaG019316 MtrunA17_Chr3g0106421 32.143 196 121 4 29 219 1 189 1.21e-28 107
MsaG019316 MtrunA17_Chr2g0296861 38.562 153 93 1 1 153 1 152 1.02e-24 95.5
MsaG019316 MtrunA17_Chr7g0267601 37.795 127 79 0 3 129 6 132 8.31e-23 95.9
MsaG019316 MtrunA17_Chr4g0008701 38.583 127 78 0 3 129 6 132 1.53e-22 95.1
MsaG019316 MtrunA17_Chr3g0128721 30.282 142 99 0 3 144 6 147 7.14e-20 87.4
MsaG019316 MtrunA17_Chr3g0106501 33.600 125 83 0 29 153 1 125 2.97e-19 81.3
MsaG019316 MtrunA17_Chr2g0296851 57.500 80 34 0 74 153 1 80 5.68e-19 78.6
MsaG019316 MtrunA17_Chr1g0212151 30.973 113 71 3 1 107 1 112 8.34e-13 66.6
MsaG019316 MtrunA17_Chr6g0457851 31.858 113 70 4 1 107 11 122 1.55e-12 65.9
MsaG019316 MtrunA17_Chr6g0449861 32.743 113 69 4 1 107 9 120 6.76e-12 63.9
MsaG019316 MtrunA17_Chr6g0449851 34.513 113 67 3 1 107 1 112 9.45e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019316 AT5G48670.1 55.556 153 67 1 1 153 1 152 1.45e-46 157
MsaG019316 AT5G26630.1 45.026 191 94 2 1 181 1 190 1.00e-40 139
MsaG019316 AT1G65330.1 42.246 187 94 3 3 176 2 187 1.42e-40 140
MsaG019316 AT1G65300.1 42.857 168 86 2 3 161 2 168 2.31e-39 137
MsaG019316 AT5G26650.1 42.282 149 85 1 5 153 3 150 4.28e-34 125
MsaG019316 AT1G31630.1 36.905 168 95 3 3 161 2 167 5.58e-34 124
MsaG019316 AT5G27960.1 41.611 149 86 1 5 153 3 150 1.87e-33 122
MsaG019316 AT1G31640.1 37.725 167 93 3 3 160 2 166 1.02e-32 123
MsaG019316 AT3G05860.2 37.342 158 98 1 1 158 1 157 1.48e-30 112
MsaG019316 AT3G05860.3 37.342 158 98 1 1 158 1 157 1.94e-30 113
MsaG019316 AT3G05860.1 37.342 158 98 1 1 158 1 157 2.05e-30 113
MsaG019316 AT5G27810.1 54.839 93 42 0 29 121 1 93 7.67e-30 107
MsaG019316 AT2G28700.1 36.810 163 98 2 1 161 1 160 5.02e-29 111
MsaG019316 AT1G22590.2 31.481 162 107 1 1 162 1 158 6.03e-25 96.7
MsaG019316 AT5G26580.1 33.987 153 86 2 1 153 1 138 1.74e-22 94.0
MsaG019316 AT5G06500.1 34.395 157 101 2 1 157 1 155 4.26e-20 85.9
MsaG019316 AT2G40210.1 36.434 129 81 1 1 129 1 128 9.05e-16 75.5
MsaG019316 AT5G58890.1 37.008 127 69 5 6 123 6 130 1.35e-14 71.6
MsaG019316 AT5G55690.1 41.026 78 39 2 1 71 1 78 9.53e-12 63.5
MsaG019316 AT5G55690.2 41.026 78 39 2 1 71 1 78 9.53e-12 63.5
MsaG019316 AT2G15660.1 26.351 148 95 3 38 176 31 173 7.56e-11 60.5

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACCAATGTCCTTTAGATTA+TGG 0.210598 4:-26820458 None:intergenic
AGAAACAAAGAAAAGAAAAT+AGG 0.231520 4:+26820331 MsaT019316.1:CDS
CCCTTTGGTGAGATCAATTA+TGG 0.234667 4:+26820648 MsaT019316.1:CDS
ATAATTTCATCATCATTAAT+AGG 0.285530 4:-26820570 None:intergenic
GTGAGATCAATTATGGAGTT+TGG 0.309548 4:+26820655 MsaT019316.1:CDS
AACAAAGGGGCTATTGAAAA+TGG 0.332710 4:+26820098 MsaT019316.1:CDS
ATGAGCCTCAACCTGAGATT+TGG 0.345571 4:+26820178 MsaT019316.1:CDS
AACATCTAGGAGTGAGGAAA+TGG 0.347038 4:+26820518 MsaT019316.1:CDS
ATCCTTCAAGGTAGTAAATC+AGG 0.372648 4:-26820678 None:intergenic
TATGCAAAGTCAATTATTGA+TGG 0.385590 4:+26820590 MsaT019316.1:CDS
TCCTCACTCCTAGATGTTGT+TGG 0.401049 4:-26820513 None:intergenic
GAAACAAAGAAAAGAAAATA+GGG 0.419680 4:+26820332 MsaT019316.1:CDS
GGCCTGATTTACTACCTTGA+AGG 0.422090 4:+26820676 MsaT019316.1:CDS
AGTGAGGAAATGGGAATTGT+GGG 0.443118 4:+26820528 MsaT019316.1:CDS
CTAGATGTTGTTGGAGGTGG+TGG 0.444811 4:-26820504 None:intergenic
TTGTGGGTCATGGCCATGTT+GGG 0.452922 4:+26820544 MsaT019316.1:CDS
CACAACCATGGCTAGAAGTA+AGG 0.457305 4:+26820020 None:intergenic
CTCCTAGATGTTGTTGGAGG+TGG 0.461559 4:-26820507 None:intergenic
CTCATAAGAGCCATACACTA+TGG 0.467809 4:-26820160 None:intergenic
ATTGTGGGTCATGGCCATGT+TGG 0.468248 4:+26820543 MsaT019316.1:CDS
TCTGATGAAGGCCAAATCTC+AGG 0.474702 4:-26820189 None:intergenic
GTTGATTGACCATAATCTAA+AGG 0.477491 4:+26820449 MsaT019316.1:CDS
TCAATTATTGATGGACTCAA+TGG 0.482426 4:+26820599 MsaT019316.1:CDS
TTGATTTGAGTTATCTTACT+TGG 0.482489 4:+26820427 MsaT019316.1:CDS
CTTGACACAAAGGATTCTGA+AGG 0.491635 4:+26820293 MsaT019316.1:CDS
TGCAGCATCATTGACAATGA+AGG 0.502295 4:-26820052 None:intergenic
GATGTTGTTGGAGGTGGTGG+TGG 0.505459 4:-26820501 None:intergenic
TCACTCCTAGATGTTGTTGG+AGG 0.510768 4:-26820510 None:intergenic
TTTGTGTCAAGAAAGTCTCT+TGG 0.512375 4:-26820281 None:intergenic
GAGTGAGGAAATGGGAATTG+TGG 0.516317 4:+26820527 MsaT019316.1:CDS
GAGATTTGGCCTTCATCAGA+GGG 0.524738 4:+26820192 MsaT019316.1:CDS
AAAGGACATTGGTAGACGTT+CGG 0.528973 4:+26820467 MsaT019316.1:CDS
ACATCTAGGAGTGAGGAAAT+GGG 0.532509 4:+26820519 MsaT019316.1:CDS
CACCACCTCCAACAACATCT+AGG 0.540352 4:+26820505 MsaT019316.1:CDS
ATGTCTCATTGTCTCAATGA+AGG 0.542205 4:+26820375 MsaT019316.1:CDS
CCATAATTGATCTCACCAAA+GGG 0.558369 4:-26820648 None:intergenic
GAAGCCTGTGCCATAGTGTA+TGG 0.560968 4:+26820150 MsaT019316.1:CDS
GAAGGCCAAATCTCAGGTTG+AGG 0.568672 4:-26820183 None:intergenic
TTTAACCTTACTTCTAGCCA+TGG 0.572129 4:-26820025 None:intergenic
TCCATAATTGATCTCACCAA+AGG 0.580970 4:-26820649 None:intergenic
GTGCACGAGACAGTGCCCTT+TGG 0.582311 4:+26820633 MsaT019316.1:CDS
AAGAGACTTTCTTGACACAA+AGG 0.587821 4:+26820283 MsaT019316.1:CDS
CATTAATAGGTATCCCAACA+TGG 0.589301 4:-26820557 None:intergenic
GACCATAATCTAAAGGACAT+TGG 0.589918 4:+26820456 MsaT019316.1:CDS
TGAGATTTGGCCTTCATCAG+AGG 0.593649 4:+26820191 MsaT019316.1:CDS
ACAGGCTTCAATGCCACAGA+GGG 0.601811 4:-26820136 None:intergenic
TTGATGGACTCAATGGTGGC+TGG 0.607204 4:+26820606 MsaT019316.1:CDS
GATTTGGCCTTCATCAGAGG+GGG 0.615187 4:+26820194 MsaT019316.1:CDS
GAAATGGGAATTGTGGGTCA+TGG 0.616732 4:+26820534 MsaT019316.1:CDS
TCCAACAACATCTAGGAGTG+AGG 0.651992 4:+26820512 MsaT019316.1:CDS
TCATTGTCAATGATGCTGCA+AGG 0.652548 4:+26820055 MsaT019316.1:CDS
AGAGCCATACACTATGGCAC+AGG 0.656790 4:-26820154 None:intergenic
ATTATTGATGGACTCAATGG+TGG 0.666274 4:+26820602 MsaT019316.1:CDS
AGATTTGGCCTTCATCAGAG+GGG 0.672121 4:+26820193 MsaT019316.1:CDS
GGACATTGGTAGACGTTCGG+CGG 0.676135 4:+26820470 MsaT019316.1:CDS
GCTGAACTTAGCACCCTCTG+TGG 0.677042 4:+26820123 MsaT019316.1:CDS
TGTGCACGACAATATGTCAA+CGG 0.688304 4:+26820404 MsaT019316.1:CDS
CACAGGCTTCAATGCCACAG+AGG 0.696692 4:-26820137 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 26820027 26820695 26820027 ID=MsaG019316
Chr4 mRNA 26820027 26820695 26820027 ID=MsaT019316.1;Parent=MsaG019316
Chr4 exon 26820027 26820695 26820027 ID=MsaT019316.1.exon1;Parent=MsaT019316.1
Chr4 CDS 26820027 26820695 26820027 ID=cds.MsaT019316.1;Parent=MsaT019316.1
Gene Sequence

>MsaT019316.1

ATGGCTAGAAGTAAGGTTAAACTCGCCTTCATTGTCAATGATGCTGCAAGGAAAGCAACATACAAAAAAAGAACAAAGGGGCTATTGAAAATGGTTGCTGAACTTAGCACCCTCTGTGGCATTGAAGCCTGTGCCATAGTGTATGGCTCTTATGAGCCTCAACCTGAGATTTGGCCTTCATCAGAGGGGGTCCAATCTGTGCTCTCAAAATTCATGACGATGCACGAGTTTCAAAAGTGCAAGAAAATGCTGAACCAAGAGACTTTCTTGACACAAAGGATTCTGAAGGCTGAAGAGAAATTGAAGAAACAAAGAAAAGAAAATAGGGAGCAAGAGATGACAATACTCATGTCTCATTGTCTCAATGAAGGTAGAGTTGTGCACGACAATATGTCAACGGTTGATTTGAGTTATCTTACTTGGTTGATTGACCATAATCTAAAGGACATTGGTAGACGTTCGGCGGCAACAGTGCCACCACCACCTCCAACAACATCTAGGAGTGAGGAAATGGGAATTGTGGGTCATGGCCATGTTGGGATACCTATTAATGATGATGAAATTATGCAAAGTCAATTATTGATGGACTCAATGGTGGCTGGTAATGTGCACGAGACAGTGCCCTTTGGTGAGATCAATTATGGAGTTTGGCCTGATTTACTACCTTGA
Protein sequence

>MsaT019316.1

MARSKVKLAFIVNDAARKATYKKRTKGLLKMVAELSTLCGIEACAIVYGSYEPQPEIWPSSEGVQSVLSKFMTMHEFQKCKKMLNQETFLTQRILKAEEKLKKQRKENREQEMTILMSHCLNEGRVVHDNMSTVDLSYLTWLIDHNLKDIGRRSAATVPPPPPTTSRSEEMGIVGHGHVGIPINDDEIMQSQLLMDSMVAGNVHETVPFGEINYGVWPDLLP*