AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014245

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014245 MtrunA17_Chr3g0103181 75.352 284 65 3 1 284 1 279 1.72e-151 424
MsaG014245 MtrunA17_Chr3g0103191 81.423 253 43 4 1 251 1 251 4.30e-142 399
MsaG014245 MtrunA17_Chr3g0103201 87.783 221 25 2 65 284 1 220 8.34e-139 390
MsaG014245 MtrunA17_Chr3g0103171 68.702 262 79 2 25 284 5 265 1.28e-124 356
MsaG014245 MtrunA17_Chr3g0103151 77.160 162 36 1 1 162 1 161 3.24e-87 257
MsaG014245 MtrunA17_Chr3g0103161 70.248 121 36 0 163 283 2 122 1.52e-55 175
MsaG014245 MtrunA17_Chr1g0163071 34.812 293 149 8 26 284 2 286 8.87e-48 161
MsaG014245 MtrunA17_Chr8g0390841 34.405 311 151 10 10 284 37 330 1.31e-46 163
MsaG014245 MtrunA17_Chr8g0390841 50.000 64 31 1 221 284 455 517 5.20e-11 62.8
MsaG014245 MtrunA17_Chr7g0233561 33.441 311 166 11 5 284 11 311 4.76e-44 152
MsaG014245 MtrunA17_Chr1g0208771 32.993 294 147 7 25 284 12 289 3.73e-43 153
MsaG014245 MtrunA17_Chr1g0208771 28.326 233 126 10 65 284 253 457 2.87e-11 63.5
MsaG014245 MtrunA17_Chr3g0131891 34.653 303 155 12 9 284 16 302 3.16e-42 147
MsaG014245 MtrunA17_Chr7g0233521 32.841 271 160 7 26 284 2 262 5.13e-38 135
MsaG014245 MtrunA17_Chr7g0233541 30.000 290 160 9 26 284 2 279 8.45e-32 119
MsaG014245 MtrunA17_Chr7g0233531 30.970 268 169 7 26 284 2 262 1.47e-31 118
MsaG014245 MtrunA17_Chr1g0163251 28.571 280 182 7 12 283 9 278 5.87e-31 119
MsaG014245 MtrunA17_Chr1g0163181 30.000 300 161 11 14 283 11 291 2.13e-30 118
MsaG014245 MtrunA17_Chr4g0067431 29.276 304 181 12 10 284 13 311 2.39e-29 113
MsaG014245 MtrunA17_Chr1g0163131 30.868 311 169 13 2 281 8 303 7.90e-29 112
MsaG014245 MtrunA17_Chr7g0233571 49.038 104 51 1 9 110 7 110 5.12e-28 107
MsaG014245 MtrunA17_Chr3g0077451 29.545 264 143 6 24 284 10 233 4.58e-27 105
MsaG014245 MtrunA17_Chr5g0419201 36.306 157 83 4 12 158 16 165 9.71e-27 103
MsaG014245 MtrunA17_Chr5g0429931 29.924 264 149 7 25 284 10 241 2.78e-25 100
MsaG014245 MtrunA17_Chr1g0163261 26.855 283 188 9 9 281 6 279 8.08e-25 100
MsaG014245 MtrunA17_Chr1g0163221 30.034 293 176 9 10 284 9 290 1.72e-24 100
MsaG014245 MtrunA17_Chr1g0163231 26.014 296 174 9 9 283 6 277 2.54e-23 96.7
MsaG014245 MtrunA17_Chr1g0163201 26.335 281 170 8 25 283 18 283 4.01e-23 97.8
MsaG014245 MtrunA17_Chr1g0162441 40.541 111 62 2 8 114 1 111 9.73e-23 97.1
MsaG014245 MtrunA17_Chr4g0033961 35.075 134 74 3 12 134 6 137 8.85e-22 94.4
MsaG014245 MtrunA17_Chr3g0077411 27.526 287 166 6 10 284 260 516 1.67e-21 94.0
MsaG014245 MtrunA17_Chr3g0077411 27.138 269 143 7 12 278 25 242 7.77e-18 83.2
MsaG014245 MtrunA17_Chr1g0171611 24.912 285 179 8 9 283 6 265 2.34e-21 91.3
MsaG014245 MtrunA17_Chr1g0154161 25.524 286 190 9 13 284 30 306 1.55e-20 89.7
MsaG014245 MtrunA17_Chr1g0154041 24.845 322 179 10 22 281 27 347 1.76e-20 91.3
MsaG014245 MtrunA17_Chr3g0077461 29.197 274 138 9 12 278 237 461 5.40e-20 89.4
MsaG014245 MtrunA17_Chr3g0077461 38.542 96 59 0 25 120 22 117 9.28e-17 80.1
MsaG014245 MtrunA17_Chr1g0154131 25.952 289 193 8 10 281 182 466 5.59e-20 89.4
MsaG014245 MtrunA17_Chr1g0162411 40.909 110 60 3 7 114 3 109 2.95e-19 87.0
MsaG014245 MtrunA17_Chr3g0077421 30.172 232 118 6 57 284 4 195 1.42e-18 82.0
MsaG014245 MtrunA17_Chr3g0077441 30.172 232 118 6 57 284 4 195 1.42e-18 82.0
MsaG014245 MtrunA17_Chr1g0163061 41.346 104 58 2 8 108 11 114 4.60e-18 82.0
MsaG014245 MtrunA17_Chr6g0467351 31.847 157 92 3 10 163 13 157 4.92e-18 80.9
MsaG014245 MtrunA17_Chr3g0077431 28.139 231 123 6 57 284 4 194 8.55e-18 79.7
MsaG014245 MtrunA17_Chr1g0163241 33.051 118 69 3 12 127 15 124 2.31e-17 77.8
MsaG014245 MtrunA17_Chr1g0163191 31.897 116 74 3 12 127 9 119 3.55e-17 77.0
MsaG014245 MtrunA17_Chr6g0476181 42.991 107 57 3 26 132 2 104 4.23e-17 77.0
MsaG014245 MtrunA17_Chr1g0154071 23.739 337 192 12 6 281 150 482 1.12e-16 79.7
MsaG014245 MtrunA17_Chr3g0077381 25.368 272 129 6 13 283 23 221 1.17e-16 79.7
MsaG014245 MtrunA17_Chr3g0077381 37.374 99 62 0 22 120 259 357 3.46e-15 75.1
MsaG014245 MtrunA17_Chr4g0009491 38.384 99 61 0 22 120 237 335 1.32e-16 79.3
MsaG014245 MtrunA17_Chr4g0009491 29.630 135 94 1 16 149 3 137 3.65e-13 69.3
MsaG014245 MtrunA17_Chr3g0077361 36.937 111 67 2 12 119 40 150 5.18e-16 77.8
MsaG014245 MtrunA17_Chr1g0163101 33.803 142 82 5 2 135 7 144 2.01e-15 72.8
MsaG014245 MtrunA17_Chr1g0163081 37.931 116 61 4 26 135 6 116 1.04e-14 70.1
MsaG014245 MtrunA17_Chr1g0163161 41.176 102 52 4 38 134 1 99 1.30e-14 69.3
MsaG014245 MtrunA17_Chr1g0154151 23.548 310 187 10 13 283 13 311 1.62e-14 72.8
MsaG014245 MtrunA17_Chr1g0163121 37.607 117 62 4 24 134 9 120 1.75e-14 69.3
MsaG014245 MtrunA17_Chr1g0162161 32.800 125 77 3 26 146 4 125 4.60e-14 68.6
MsaG014245 MtrunA17_Chr1g0163141 40.206 97 54 3 24 120 9 101 1.84e-13 67.4
MsaG014245 MtrunA17_Chr1g0162421 39.655 58 35 0 24 81 7 64 6.18e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014245 AT3G18990.1 27.273 341 178 12 8 284 1 335 4.17e-31 119
MsaG014245 AT3G18990.2 27.273 341 178 12 8 284 1 335 1.04e-30 118
MsaG014245 AT1G49475.1 39.669 121 68 3 11 129 33 150 9.66e-20 85.1
MsaG014245 AT4G01580.1 32.374 139 85 3 11 147 29 160 2.68e-18 81.3
MsaG014245 AT3G18960.2 38.000 100 60 1 11 108 29 128 1.78e-16 76.3
MsaG014245 AT3G18960.1 38.000 100 60 1 11 108 29 128 1.86e-16 76.6
MsaG014245 AT3G18960.3 40.476 84 50 0 25 108 8 91 7.40e-14 68.6
MsaG014245 AT4G33280.1 23.510 302 198 10 10 284 23 318 2.25e-13 69.7
MsaG014245 AT2G16210.1 27.143 280 184 9 12 281 19 288 1.16e-11 64.3
MsaG014245 AT3G53310.1 35.294 102 64 2 1 101 1 101 2.44e-11 63.5
MsaG014245 AT5G18090.1 25.172 290 189 10 12 281 18 299 7.85e-11 62.0

Find 57 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTCTTGGACATGGCTCTT+TGG 0.220059 3:-69698617 MsaT014245.1:CDS
GCACTAAATGGAAAGTTTAT+TGG 0.220986 3:-69698699 MsaT014245.1:CDS
GTATGTTCTACCAGATTAAT+TGG 0.237843 3:+69698153 None:intergenic
TGATGAATCAGTGGAGATTT+TGG 0.245378 3:-69698467 MsaT014245.1:CDS
AGTCTCCTGATGGCACTAAA+TGG 0.295161 3:-69698711 MsaT014245.1:CDS
AGCATCCTTTGGCCAATTCA+TGG 0.333205 3:+69698239 None:intergenic
TTTACTGAAAATTACTCTCT+TGG 0.354240 3:-69698631 MsaT014245.1:CDS
ACTGATAAACAAGAAAGATT+TGG 0.358474 3:-69697847 MsaT014245.1:CDS
TCCTGAGCTCTAGCATCCTT+TGG 0.372162 3:+69698228 None:intergenic
AAAGAACTTCATCCATGAAT+TGG 0.387908 3:-69698251 MsaT014245.1:CDS
TGGTGAGATTTGGTTGGAAA+AGG 0.389295 3:-69698665 MsaT014245.1:CDS
TTGAATATAAAGGAACTTCC+AGG 0.390030 3:-69698588 MsaT014245.1:CDS
AATCTATTTCCACTGCATTC+CGG 0.411258 3:+69698545 None:intergenic
TTGGTGGTGTTTGAATATAA+AGG 0.416414 3:-69698598 MsaT014245.1:CDS
TCTCATCAAGCCAATTAATC+TGG 0.435253 3:-69698163 MsaT014245.1:CDS
ACTTTCCATTTAGTGCCATC+AGG 0.440549 3:+69698706 None:intergenic
AGAGAAAGTGGACTGAAATC+AGG 0.441039 3:-69697888 MsaT014245.1:CDS
TGTCTCCTAGTAAACTCATT+TGG 0.453985 3:+69698766 None:intergenic
TCAATAACCCCTTTAAAATC+CGG 0.454140 3:+69698029 None:intergenic
GCCGTCGCCTTTCCGCGGGC+TGG 0.462371 3:-69697923 MsaT014245.1:CDS
AAATACCAAATGAGTTTACT+AGG 0.476109 3:-69698771 MsaT014245.1:CDS
AGAATGTGATGCTGCTGATT+GGG 0.477137 3:-69697995 MsaT014245.1:CDS
AAGAATGTGATGCTGCTGAT+TGG 0.478636 3:-69697996 MsaT014245.1:CDS
AATCGATGGTGAGATTTGGT+TGG 0.480662 3:-69698671 MsaT014245.1:CDS
TACTTATTTGCAAGAGAAAG+TGG 0.484810 3:-69697900 MsaT014245.1:CDS
AGATTTGGTTGGAAAAGGGT+TGG 0.493581 3:-69698660 MsaT014245.1:CDS
CTTATGTGGTCGAGGAGAAA+CGG 0.495106 3:+69698402 None:intergenic
CGACCACATAAGAAAGTTCG+AGG 0.495617 3:-69698391 MsaT014245.1:intron
TCTTGGACATGGCTCTTTGG+TGG 0.506179 3:-69698614 MsaT014245.1:CDS
AAATGGCCGTCGCCTTTCCG+CGG 0.508666 3:-69697928 MsaT014245.1:CDS
GCCAAAGGATGCTAGAGCTC+AGG 0.513948 3:-69698229 MsaT014245.1:CDS
GGTGAGATTTGGTTGGAAAA+GGG 0.515702 3:-69698664 MsaT014245.1:CDS
AAACCTCGAACTTTCTTATG+TGG 0.519561 3:+69698388 None:intergenic
ACCAGCCCGCGGAAAGGCGA+CGG 0.528367 3:+69697922 None:intergenic
TTATACTATGCAGTCTGTAC+CGG 0.529519 3:-69698048 MsaT014245.1:intron
CGAACTTTCTTATGTGGTCG+AGG 0.535602 3:+69698394 None:intergenic
TTGATGTACACATATTTGAC+CGG 0.536461 3:-69698564 MsaT014245.1:CDS
GGGAAGGATAGAACTTCCTC+TGG 0.541117 3:+69699064 None:intergenic
AATGGCCGTCGCCTTTCCGC+GGG 0.545483 3:-69697927 MsaT014245.1:CDS
TAAAGGGGTTATTGAGAACA+AGG 0.546960 3:-69698021 MsaT014245.1:CDS
TCAGGAGACTTTATCAACAC+TGG 0.553370 3:+69698724 None:intergenic
AAATATGTGTACATCAAACC+TGG 0.553885 3:+69698570 None:intergenic
TAATCTGGTAGAACATACTC+TGG 0.560062 3:-69698148 MsaT014245.1:intron
GATAGAACTTCCTCTGGCCA+TGG 0.562311 3:+69699070 None:intergenic
TGCTGATTGGGAAAATATCA+TGG 0.571359 3:-69697983 MsaT014245.1:CDS
TGAATGGCTTAATCGGAAGA+AGG 0.588393 3:-69698443 MsaT014245.1:CDS
ATAAGTACCAGCCCGCGGAA+AGG 0.595441 3:+69697916 None:intergenic
GGATGCTAGAGCTCAGGAAG+TGG 0.595731 3:-69698223 MsaT014245.1:CDS
CATATTTGACCGGAATGCAG+TGG 0.622074 3:-69698554 MsaT014245.1:CDS
TTCATCCATGAATTGGCCAA+AGG 0.624456 3:-69698244 MsaT014245.1:CDS
AATGAGTTTACTAGGAGACA+TGG 0.629813 3:-69698763 MsaT014245.1:CDS
GAAAATTACTCTCTTGGACA+TGG 0.632483 3:-69698625 MsaT014245.1:CDS
GTGTTGATAAAGTCTCCTGA+TGG 0.651956 3:-69698721 MsaT014245.1:CDS
TGCAAATAAGTACCAGCCCG+CGG 0.652502 3:+69697911 None:intergenic
TGTGGTCGAGGAGAAACGGA+AGG 0.658286 3:+69698406 None:intergenic
ACTCTTTCATCCATGGCCAG+AGG 0.664430 3:-69699080 None:intergenic
TGATAGTGATGATGAATCAG+TGG 0.668585 3:-69698476 MsaT014245.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 69697824 69699090 69697824 ID=MsaG014245
Chr3 mRNA 69697824 69699090 69697824 ID=MsaT014245.1;Parent=MsaG014245
Chr3 exon 69697824 69698057 69697824 ID=MsaT014245.1.exon4;Parent=MsaT014245.1
Chr3 CDS 69697824 69698057 69697824 ID=cds.MsaT014245.1;Parent=MsaT014245.1
Chr3 exon 69698149 69698294 69698149 ID=MsaT014245.1.exon3;Parent=MsaT014245.1
Chr3 CDS 69698149 69698294 69698149 ID=cds.MsaT014245.1;Parent=MsaT014245.1
Chr3 exon 69698392 69698794 69698392 ID=MsaT014245.1.exon2;Parent=MsaT014245.1
Chr3 CDS 69698392 69698794 69698392 ID=cds.MsaT014245.1;Parent=MsaT014245.1
Chr3 exon 69699019 69699090 69699019 ID=MsaT014245.1.exon1;Parent=MsaT014245.1
Chr3 CDS 69699019 69699090 69699019 ID=cds.MsaT014245.1;Parent=MsaT014245.1
Gene Sequence

>MsaT014245.1

ATGGCCAGAGGAAGTTCTATCCTTCCCATCCGTTTCTTCAAAATCATTCTCCAAACTAATCTTCAAAAGATTAAAATACCAAATGAGTTTACTAGGAGACATGGAGTTCATCTATCAAATCCAGTGTTGATAAAGTCTCCTGATGGCACTAAATGGAAAGTTTATTGGAAAAAAATCGATGGTGAGATTTGGTTGGAAAAGGGTTGGAAAACTTTTACTGAAAATTACTCTCTTGGACATGGCTCTTTGGTGGTGTTTGAATATAAAGGAACTTCCAGGTTTGATGTACACATATTTGACCGGAATGCAGTGGAAATAGATTATGATTCTTCATGTGACAGTACTGATGATGAAAAAGACAATGTTGATGATAGTGATGATGAATCAGTGGAGATTTTGGATGAATGGCTTAATCGGAAGAAGGCTAGACAAAGATCACCTTCCGTTTCTCCTCGACCACATAAGAAAGTTCGAGGTGATCATGAGAAGACTACTAAAAGAACTTCATCCATGAATTGGCCAAAGGATGCTAGAGCTCAGGAAGTGGCTCAAAATTTCATCTCATGCAATCCTTTTTTCACAATTCTCATCAAGCCAATTAATCTGGTAGAACATACTCTGTCTGTACCGGATTTTAAAGGGGTTATTGAGAACAAGGACAAGAATGTGATGCTGCTGATTGGGAAAATATCATGGAATGTGAAACTACTTCGTTCTTATGAGAGCAAAAATGGCCGTCGCCTTTCCGCGGGCTGGTACTTATTTGCAAGAGAAAGTGGACTGAAATCAGGAGATGTTTGTGTCTTTGAACTGATAAACAAGAAAGATTTGGTTTTTAAGGTTCATGTTTTCTAA
Protein sequence

>MsaT014245.1

MARGSSILPIRFFKIILQTNLQKIKIPNEFTRRHGVHLSNPVLIKSPDGTKWKVYWKKIDGEIWLEKGWKTFTENYSLGHGSLVVFEYKGTSRFDVHIFDRNAVEIDYDSSCDSTDDEKDNVDDSDDESVEILDEWLNRKKARQRSPSVSPRPHKKVRGDHEKTTKRTSSMNWPKDARAQEVAQNFISCNPFFTILIKPINLVEHTLSVPDFKGVIENKDKNVMLLIGKISWNVKLLRSYESKNGRRLSAGWYLFARESGLKSGDVCVFELINKKDLVFKVHVF*