AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025492


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025492 MtrunA17_Chr5g0402111 81.679 131 23 1 24 153 144 274 2.98e-74 224
MsaG025492 MtrunA17_Chr5g0402091 63.910 133 45 1 24 153 145 277 3.46e-53 171
MsaG025492 MtrunA17_Chr8g0375141 60.156 128 46 2 24 148 181 306 2.79e-48 159
MsaG025492 MtrunA17_Chr4g0052981 58.594 128 48 2 24 148 142 267 2.09e-47 156
MsaG025492 MtrunA17_Chr4g0052961 58.268 127 48 2 24 147 179 303 1.81e-46 155
MsaG025492 MtrunA17_Chr4g0025041 39.167 120 69 2 26 144 136 252 8.43e-23 92.8
MsaG025492 MtrunA17_Chr2g0288841 39.344 122 69 3 26 146 142 259 2.11e-22 92.0
MsaG025492 MtrunA17_Chr2g0322401 41.176 119 65 2 24 141 142 256 2.20e-22 91.7
MsaG025492 MtrunA17_Chr3g0130151 35.537 121 76 2 24 143 383 502 4.46e-21 88.6
MsaG025492 MtrunA17_Chr2g0276831 34.043 141 70 4 24 141 148 288 6.95e-20 84.3
MsaG025492 MtrunA17_Chr3g0115171 40.000 120 67 3 24 141 420 536 8.34e-20 84.7
MsaG025492 MtrunA17_Chr5g0424501 40.000 120 67 3 24 141 329 445 8.87e-20 84.7
MsaG025492 MtrunA17_Chr8g0386981 37.815 119 72 2 24 141 547 664 9.00e-20 84.7
MsaG025492 MtrunA17_Chr1g0202831 38.655 119 71 2 24 141 550 667 1.24e-19 84.3
MsaG025492 MtrunA17_Chr5g0430501 42.500 120 66 2 22 141 147 263 3.97e-19 82.8
MsaG025492 MtrunA17_Chr8g0384301 32.558 129 85 2 24 151 438 565 7.43e-19 82.4
MsaG025492 MtrunA17_Chr5g0424581 38.843 121 69 3 24 142 262 379 1.69e-18 80.9
MsaG025492 MtrunA17_Chr5g0424651 39.167 120 68 3 24 141 458 574 2.73e-18 80.5
MsaG025492 MtrunA17_Chr7g0272841 37.374 99 60 1 46 142 234 332 3.51e-18 80.1
MsaG025492 MtrunA17_Chr4g0051191 38.333 120 69 3 24 141 301 417 5.39e-18 79.7
MsaG025492 MtrunA17_Chr1g0205931 40.404 99 57 1 46 142 221 319 6.04e-18 79.7
MsaG025492 MtrunA17_Chr5g0402601 32.331 133 80 3 21 146 509 638 6.48e-17 76.6
MsaG025492 MtrunA17_Chr3g0133541 32.847 137 82 4 21 150 444 577 7.79e-17 76.3
MsaG025492 MtrunA17_Chr5g0424531 37.190 121 71 3 24 142 153 270 1.40e-14 68.9
MsaG025492 MtrunA17_Chr4g0038091 32.576 132 88 1 16 147 150 280 1.64e-14 69.7
MsaG025492 MtrunA17_Chr4g0038501 32.031 128 86 1 16 143 150 276 5.52e-14 68.2
MsaG025492 MtrunA17_Chr6g0449691 37.383 107 60 3 47 149 245 348 2.00e-12 63.5
MsaG025492 MtrunA17_Chr4g0000481 31.469 143 83 5 9 141 202 339 4.72e-12 62.4
MsaG025492 MtrunA17_Chr6g0487231 32.576 132 78 2 24 146 205 334 2.20e-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
MsaG025492 AT3G50310.1 53.846 130 53 3 24 146 145 274 1.27e-39 136
MsaG025492 AT5G67080.1 51.095 137 57 4 24 152 147 281 1.55e-39 136
MsaG025492 AT4G36950.1 51.613 124 53 2 24 142 145 266 1.51e-36 128
MsaG025492 AT5G55090.1 43.077 130 71 2 23 151 139 266 4.43e-27 105
MsaG025492 AT5G55090.2 43.077 130 71 2 23 151 201 328 5.37e-27 105
MsaG025492 AT1G07150.2 37.857 140 83 3 9 148 137 272 1.28e-25 101
MsaG025492 AT1G07150.1 39.007 141 80 5 9 148 151 286 1.33e-25 101
MsaG025492 AT1G05100.1 41.463 123 67 2 26 145 147 267 7.42e-24 95.1
MsaG025492 AT2G30040.1 44.037 109 60 1 46 154 176 283 9.01e-24 96.3
MsaG025492 AT4G26890.1 42.000 100 57 1 47 145 158 257 5.54e-23 94.0
MsaG025492 AT3G46140.1 39.041 146 81 5 4 141 224 369 1.36e-21 89.7
MsaG025492 AT2G32510.1 38.931 131 71 3 26 149 142 270 4.02e-21 88.2
MsaG025492 AT1G63700.1 37.705 122 74 2 24 144 539 659 2.07e-20 87.0
MsaG025492 AT1G63700.2 37.705 122 74 2 24 144 539 659 2.07e-20 87.0
MsaG025492 AT3G46160.1 35.507 138 84 3 9 141 195 332 3.13e-19 83.2
MsaG025492 AT1G54960.1 37.273 110 68 1 46 154 234 343 2.09e-18 81.3
MsaG025492 AT1G54960.2 37.273 110 68 1 46 154 234 343 2.09e-18 81.3
MsaG025492 AT3G45670.1 35.294 153 91 3 4 148 220 372 3.23e-18 80.1
MsaG025492 AT4G08500.1 38.843 121 68 3 24 141 470 587 3.41e-18 80.9
MsaG025492 AT1G09000.1 39.450 109 65 1 46 153 235 343 7.29e-18 79.7
MsaG025492 AT1G09000.2 39.450 109 65 1 46 153 235 343 7.41e-18 79.7
MsaG025492 AT3G06030.1 37.755 98 60 1 46 142 234 331 1.14e-17 79.3
MsaG025492 AT1G53570.6 33.654 104 68 1 46 148 374 477 3.86e-17 77.8
MsaG025492 AT1G53570.7 33.654 104 68 1 46 148 374 477 3.86e-17 77.8
MsaG025492 AT1G53570.4 33.654 104 68 1 46 148 374 477 4.54e-17 77.4
MsaG025492 AT1G53570.1 33.654 104 68 1 46 148 374 477 4.63e-17 77.4
MsaG025492 AT4G12020.5 36.975 119 72 2 24 142 1688 1803 4.66e-17 77.4
MsaG025492 AT1G53570.2 33.654 104 68 1 46 148 374 477 4.95e-17 77.4
MsaG025492 AT1G53570.3 33.654 104 68 1 46 148 374 477 4.95e-17 77.4
MsaG025492 AT1G53570.5 33.654 104 68 1 46 148 348 451 5.35e-17 77.4
MsaG025492 AT4G12020.4 36.975 119 72 2 24 142 1755 1870 5.95e-17 77.4
MsaG025492 AT4G12020.2 36.975 119 72 2 24 142 1763 1878 5.95e-17 77.4
MsaG025492 AT4G04632.1 39.796 98 55 2 52 145 1 98 2.54e-16 70.5
MsaG025492 AT2G42550.1 34.507 142 85 4 4 141 137 274 7.61e-16 73.6
MsaG025492 AT4G08480.1 36.885 122 69 4 24 141 638 755 1.19e-15 73.6
MsaG025492 AT5G66850.2 30.769 130 80 3 21 143 483 609 2.82e-15 72.4
MsaG025492 AT5G66850.1 30.769 130 80 3 21 143 483 609 3.44e-15 72.0
MsaG025492 AT3G45790.1 38.679 106 60 3 26 126 249 354 7.98e-15 70.9
MsaG025492 AT4G08470.3 34.711 121 73 3 24 141 358 475 1.02e-14 70.5
MsaG025492 AT4G08470.1 34.711 121 73 3 24 141 440 557 1.03e-14 70.9
MsaG025492 AT2G41930.1 34.351 131 68 5 26 146 159 281 1.91e-14 69.7
MsaG025492 AT4G12020.10 36.134 119 57 3 24 142 1755 1854 3.13e-14 69.3
MsaG025492 AT4G12020.3 36.134 119 57 3 24 142 1763 1862 3.17e-14 69.3
MsaG025492 AT3G13530.1 32.031 128 86 1 16 143 150 276 1.13e-13 67.8
MsaG025492 AT5G12090.1 29.054 148 99 4 9 153 161 305 2.38e-13 66.6
MsaG025492 AT5G40440.5 40.196 102 56 2 47 145 162 261 3.79e-13 66.2
MsaG025492 AT5G40440.6 39.623 106 59 2 47 149 226 329 4.23e-13 65.9
MsaG025492 AT5G40440.3 39.623 106 59 2 47 149 226 329 4.23e-13 65.9
MsaG025492 AT5G40440.2 39.623 106 59 2 47 149 226 329 4.23e-13 65.9
MsaG025492 AT5G40440.4 39.623 106 59 2 47 149 244 347 4.26e-13 65.9
MsaG025492 AT5G40440.1 39.623 106 59 2 47 149 244 347 4.26e-13 65.9
MsaG025492 AT3G07980.2 31.250 128 87 1 16 143 150 276 5.16e-13 65.9
MsaG025492 AT3G07980.1 31.250 128 87 1 16 143 150 276 5.27e-13 65.9
MsaG025492 AT2G05060.1 31.250 128 76 4 26 147 161 282 2.77e-11 60.5
MsaG025492 AT5G27510.1 31.967 122 77 3 24 141 150 269 3.48e-11 60.1

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGAATCGCCGACGGATATA+TGG 0.243489 5:-8968251 MsaT025492.1:CDS
CCTTCTCGTAATAATTCATC+TGG 0.379686 5:+8968117 None:intergenic
TGGTTGCGCTGTTGTGGAAA+TGG 0.390232 5:-8968223 MsaT025492.1:CDS
GCTGTTGTGGAAATGGTTAC+TGG 0.392828 5:-8968216 MsaT025492.1:CDS
TTAAGGATCCTTTGAGAAGA+TGG 0.405417 5:-8968068 MsaT025492.1:CDS
ACACTATCATTCACCGCTTC+TGG 0.411589 5:+8968276 None:intergenic
TGATGTTGACGATTCGAATT+GGG 0.421148 5:-8968164 MsaT025492.1:CDS
TCTTGAAAAGTGTTTCGTTA+AGG 0.422240 5:-8968085 MsaT025492.1:CDS
TTGATGTTGACGATTCGAAT+TGG 0.426586 5:-8968165 MsaT025492.1:CDS
TGAATCGCCGACGGATATAT+GGG 0.431895 5:-8968250 MsaT025492.1:CDS
GCTTCTGGTGACATAATTAC+CGG 0.459669 5:+8968291 None:intergenic
TTGACGATTCGAATTGGGGT+TGG 0.467699 5:-8968159 MsaT025492.1:CDS
GGCTCTTGGTTGCGCTGTTG+TGG 0.480868 5:-8968229 MsaT025492.1:CDS
CCGACGGATATATGGGCTCT+TGG 0.500419 5:-8968243 MsaT025492.1:CDS
CAGATGAATTATTACGAGAA+GGG 0.520167 5:-8968116 MsaT025492.1:CDS
GAACGACAGTGGTGAGCTCT+CGG 0.525648 5:-8968512 MsaT025492.1:CDS
CCAGATGAATTATTACGAGA+AGG 0.525954 5:-8968117 MsaT025492.1:CDS
TTTCTAGAATATGTCAGTGG+TGG 0.546933 5:-8968556 None:intergenic
GGTAATTATGTCACCAGAAG+CGG 0.557800 5:-8968289 MsaT025492.1:CDS
GGTGAAAAGTGGCGATCAAG+AGG 0.575193 5:-8968318 MsaT025492.1:CDS
GTTGTAACAGAGTTAAGTTG+AGG 0.584853 5:-8967991 None:intergenic
GGGTTGAACAAGGTGAAAAG+TGG 0.592877 5:-8968329 MsaT025492.1:CDS
TCAGTCTTGCGAAAGAGACA+AGG 0.595495 5:-8968350 MsaT025492.1:CDS
GATGTTGACGATTCGAATTG+GGG 0.607028 5:-8968163 MsaT025492.1:CDS
GTGGCGATCAAGAGGAACTC+CGG 0.608502 5:-8968310 MsaT025492.1:CDS
TCTATCGTCCATCTTCTCAA+AGG 0.609523 5:+8968060 None:intergenic
CAGTCTTGCGAAAGAGACAA+GGG 0.612424 5:-8968349 MsaT025492.1:CDS
ACTGTCGTTCTCGAGTTGAT+CGG 0.619509 5:+8968525 None:intergenic
ACCTCGTATAACGACTAATG+AGG 0.627651 5:+8968485 None:intergenic
AGAATCCGCATGGAATGTGT+CGG 0.631308 5:-8968193 MsaT025492.1:CDS
TGGTTACTGGAGAATCCGCA+TGG 0.636768 5:-8968203 MsaT025492.1:CDS
CCAAGAGCCCATATATCCGT+CGG 0.644209 5:+8968243 None:intergenic
GATCAACTCGAGAACGACAG+TGG 0.656688 5:-8968523 MsaT025492.1:CDS
AAAGAGACAAGGGTTGAACA+AGG 0.656891 5:-8968339 MsaT025492.1:CDS
ACCTCATTAGTCGTTATACG+AGG 0.719200 5:-8968486 MsaT025492.1:intron
TAGTGTGTATGAATCGCCGA+CGG 0.726925 5:-8968259 MsaT025492.1:CDS
CATATCCGACACATTCCATG+CGG 0.747815 5:+8968188 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 8967993 8968568 8967993 ID=MsaG025492
Chr5 mRNA 8967993 8968568 8967993 ID=MsaT025492.1;Parent=MsaG025492
Chr5 exon 8967993 8968375 8967993 ID=MsaT025492.1.exon2;Parent=MsaT025492.1
Chr5 CDS 8967993 8968375 8967993 ID=cds.MsaT025492.1;Parent=MsaT025492.1
Chr5 exon 8968487 8968568 8968487 ID=MsaT025492.1.exon1;Parent=MsaT025492.1
Chr5 CDS 8968487 8968568 8968487 ID=cds.MsaT025492.1;Parent=MsaT025492.1
Gene Sequence

>MsaT025492.1

ATGTCAGTGGTGGAACTCTCTCCGATCAACTCGAGAACGACAGTGGTGAGCTCTCGGAGAACCTCATTAGTCGTTATACGAGATTTCAGTCTTGCGAAAGAGACAAGGGTTGAACAAGGTGAAAAGTGGCGATCAAGAGGAACTCCGGTAATTATGTCACCAGAAGCGGTGAATGATAGTGTGTATGAATCGCCGACGGATATATGGGCTCTTGGTTGCGCTGTTGTGGAAATGGTTACTGGAGAATCCGCATGGAATGTGTCGGATATGTTGATGTTGACGATTCGAATTGGGGTTGGAGAAGAATTACCAAAAATTCCAGATGAATTATTACGAGAAGGGATAGATTTTCTTGAAAAGTGTTTCGTTAAGGATCCTTTGAGAAGATGGACGATAGATCTGCTTTTGAAACATCCGTTTATCTCCGATGTTGAAAATGTTTCAGTTGTAACAGAGTTAAGTTGA

Protein sequence

>MsaT025492.1

MSVVELSPINSRTTVVSSRRTSLVVIRDFSLAKETRVEQGEKWRSRGTPVIMSPEAVNDSVYESPTDIWALGCAVVEMVTGESAWNVSDMLMLTIRIGVGEELPKIPDELLREGIDFLEKCFVKDPLRRWTIDLLLKHPFISDVENVSVVTELS*