AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG046220

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046220 MtrunA17_Chr4g0072871 87.766 376 12 2 1 343 1 375 0.0 624
MsaG046220 MtrunA17_Chr3g0136701 47.863 351 90 11 20 342 4 289 3.74e-88 266
MsaG046220 MtrunA17_Chr1g0150471 44.633 354 123 9 20 342 4 315 2.57e-87 265
MsaG046220 MtrunA17_Chr7g0220721 64.835 91 32 0 20 110 24 114 2.03e-39 143
MsaG046220 MtrunA17_Chr1g0155811 45.161 93 41 1 22 104 5 97 9.17e-21 90.5
MsaG046220 MtrunA17_Chr5g0429341 43.333 90 51 0 21 110 4 93 5.32e-19 87.4
MsaG046220 MtrunA17_Chr7g0268691 28.049 164 99 3 22 185 20 164 3.29e-17 81.6
MsaG046220 MtrunA17_Chr7g0268691 35.417 96 49 1 212 307 287 369 5.72e-12 66.2
MsaG046220 MtrunA17_Chr4g0033641 39.130 92 47 1 22 104 5 96 7.92e-17 79.0
MsaG046220 MtrunA17_Chr3g0145061 32.331 133 73 2 22 137 5 137 1.56e-16 77.8
MsaG046220 MtrunA17_Chr5g0405151 43.210 81 38 1 21 93 4 84 1.94e-16 76.6
MsaG046220 MtrunA17_Chr4g0035651 40.860 93 45 1 22 104 5 97 3.00e-16 77.0
MsaG046220 MtrunA17_Chr3g0120711 38.889 90 54 1 21 110 4 92 2.68e-15 76.3
MsaG046220 MtrunA17_Chr2g0329511 36.957 92 49 1 22 104 5 96 3.60e-15 74.3
MsaG046220 MtrunA17_Chr2g0314671 38.043 92 48 1 22 104 5 96 1.53e-14 73.2
MsaG046220 MtrunA17_Chr3g0142221 36.170 94 49 1 22 104 5 98 6.06e-14 70.5
MsaG046220 MtrunA17_Chr8g0390971 54.795 73 31 1 237 309 331 401 1.53e-13 71.2
MsaG046220 MtrunA17_Chr2g0322941 39.024 82 50 0 21 102 43 124 4.30e-13 68.2
MsaG046220 MtrunA17_Chr7g0251781 40.541 74 44 0 22 95 5 78 4.44e-12 66.6
MsaG046220 MtrunA17_Chr5g0431351 39.640 111 60 2 201 308 110 216 6.80e-12 64.3
MsaG046220 MtrunA17_Chr1g0209861 48.052 77 29 2 232 308 359 424 1.25e-11 65.5
MsaG046220 MtrunA17_Chr2g0327621 43.548 62 32 1 254 312 140 201 2.84e-11 63.2
MsaG046220 MtrunA17_Chr1g0209071 34.146 82 54 0 20 101 3 84 4.23e-11 63.5
MsaG046220 MtrunA17_Chr2g0322951 59.184 49 20 0 262 310 88 136 5.17e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046220 AT5G57660.1 47.120 382 136 10 1 343 1 355 4.79e-100 299
MsaG046220 AT5G24930.1 44.909 383 128 12 20 343 4 362 9.86e-92 278
MsaG046220 AT2G24790.1 51.316 304 99 10 20 310 6 273 2.21e-88 268
MsaG046220 AT3G02380.1 37.363 364 158 10 20 343 14 347 2.47e-70 223
MsaG046220 AT5G15840.1 36.800 375 181 11 13 343 11 373 1.66e-69 222
MsaG046220 AT5G15850.1 39.189 370 166 9 13 343 6 355 5.14e-69 220
MsaG046220 AT2G24790.2 47.556 225 81 8 20 243 6 194 4.97e-56 182
MsaG046220 AT5G15840.2 35.294 221 131 7 13 222 11 230 6.85e-39 139
MsaG046220 AT1G49130.2 26.543 324 187 9 19 313 18 319 8.20e-20 89.0
MsaG046220 AT1G49130.1 26.019 319 186 8 19 309 25 321 9.03e-20 89.0
MsaG046220 AT2G33500.1 44.944 89 49 0 22 110 12 100 1.79e-18 86.3
MsaG046220 AT2G33500.2 44.944 89 49 0 22 110 12 100 1.83e-18 86.3
MsaG046220 AT3G21880.3 26.462 359 187 14 16 307 4 352 9.56e-18 83.6
MsaG046220 AT3G21880.2 26.462 359 187 14 16 307 4 352 9.56e-18 83.6
MsaG046220 AT3G21880.1 26.062 353 185 13 22 307 5 348 1.72e-17 82.8
MsaG046220 AT1G28050.1 43.820 89 50 0 22 110 9 97 1.92e-17 83.2
MsaG046220 AT1G75540.1 36.434 129 68 2 22 136 5 133 8.38e-17 80.5
MsaG046220 AT2G21320.1 40.449 89 45 1 21 101 4 92 1.22e-16 77.0
MsaG046220 AT2G47890.2 38.462 91 54 1 20 110 11 99 2.94e-16 77.4
MsaG046220 AT2G47890.3 38.462 91 54 1 20 110 11 99 3.39e-16 78.6
MsaG046220 AT2G47890.1 38.462 91 54 1 20 110 11 99 3.51e-16 79.0
MsaG046220 AT4G38960.1 43.210 81 38 1 21 93 4 84 3.78e-16 75.9
MsaG046220 AT4G38960.6 43.210 81 38 1 21 93 4 84 3.78e-16 75.9
MsaG046220 AT1G06040.1 40.217 92 46 1 22 104 5 96 4.10e-16 77.4
MsaG046220 AT1G06040.2 40.217 92 46 1 22 104 5 96 7.59e-16 75.1
MsaG046220 AT4G15250.1 33.544 158 90 5 22 175 5 151 7.96e-16 77.8
MsaG046220 AT5G48250.1 39.130 92 54 1 21 110 4 95 1.14e-15 77.8
MsaG046220 AT3G07650.3 45.205 73 40 0 21 93 4 76 2.30e-15 76.6
MsaG046220 AT3G07650.2 45.205 73 40 0 21 93 4 76 2.30e-15 76.6
MsaG046220 AT3G07650.4 45.205 73 40 0 21 93 4 76 2.30e-15 76.6
MsaG046220 AT3G07650.1 45.205 73 40 0 21 93 4 76 2.30e-15 76.6
MsaG046220 AT2G31380.1 36.036 111 57 2 22 123 5 110 4.98e-15 73.9
MsaG046220 AT1G78600.1 38.043 92 48 1 22 104 5 96 1.42e-14 73.6
MsaG046220 AT1G78600.2 35.238 105 59 1 22 117 5 109 1.60e-14 73.9
MsaG046220 AT1G73870.1 52.000 75 31 2 239 311 319 390 1.22e-13 71.6
MsaG046220 AT1G68190.2 36.585 82 52 0 20 101 41 122 1.63e-12 68.2
MsaG046220 AT1G68190.1 36.585 82 52 0 20 101 12 93 1.75e-12 68.2
MsaG046220 AT1G68190.3 36.585 82 52 0 20 101 12 93 1.75e-12 68.2
MsaG046220 AT4G39070.1 32.500 120 71 1 22 131 5 124 8.07e-12 64.7
MsaG046220 AT1G68520.1 67.391 46 15 0 266 311 357 402 1.54e-11 65.5
MsaG046220 AT4G10240.1 28.767 146 82 3 22 149 5 146 2.83e-11 61.6
MsaG046220 AT1G25440.1 51.389 72 30 2 242 308 332 403 5.51e-11 63.9

Find 81 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGATCGGAATCGATGGTTTC+AGG 0.197771 8:+81872645 MsaT046220.1:CDS
GCGAACCGGCCTTTAATTCT+AGG 0.209256 8:-81872825 None:intergenic
TCAGAGATATCATACAATTT+TGG 0.229801 8:+81872624 MsaT046220.1:CDS
TTGAGTTTGGATCCGAAATT+AGG 0.238048 8:-81872216 None:intergenic
ATCTTGAGTTTCATTGAGTT+TGG 0.285458 8:-81872229 None:intergenic
GTCCACATCCGAGTCAATTT+CGG 0.307960 8:-81872856 None:intergenic
TGCTGCAGTTAATATTGTTC+TGG 0.321062 8:-81872320 None:intergenic
AGAGATGTTCTTCTCTGATA+TGG 0.330404 8:+81872263 MsaT046220.1:CDS
GAAACCCGGCCTAGAATTAA+AGG 0.334745 8:+81872816 MsaT046220.1:CDS
CTTCCCGCCACGAGCGCGTC+TGG 0.340581 8:+81871917 MsaT046220.1:CDS
TGCTGCAGCAGCGGCGGTGG+AGG 0.348757 8:-81872109 None:intergenic
CTGATTCCGAATCCTAATTT+CGG 0.371287 8:+81872204 MsaT046220.1:CDS
TTTCGGTTCGTTTAGCGAAC+CGG 0.407227 8:-81872839 None:intergenic
GGAGTAGGTTTAGTTTGAAC+AGG 0.409524 8:-81872366 None:intergenic
GGCTGCTGCAGCAGCGGCGG+TGG 0.410930 8:-81872112 None:intergenic
CGCGGCTGCTGCAGCAGCGG+CGG 0.413463 8:-81872115 None:intergenic
GAGTTTGTTAGCAGAGTGAA+TGG 0.415127 8:-81871893 None:intergenic
AGGAACAACGCTATCGTTCA+TGG 0.416132 8:-81872346 None:intergenic
GTTCCTACTGACGACGGTTA+CGG 0.428387 8:+81872153 MsaT046220.1:CDS
GATCGGAATCGATGGTTTCA+GGG 0.428883 8:+81872646 MsaT046220.1:CDS
AGTTCCTTCATCTATGCTAA+TGG 0.433285 8:+81872908 MsaT046220.1:CDS
TCTGACACCGTGTTTGCATC+TGG 0.435148 8:-81872606 None:intergenic
TTGCTCCTTGCACCACCCCT+TGG 0.448969 8:-81872683 None:intergenic
GAGTAATCAAAATCAAGAAA+TGG 0.454052 8:-81872288 None:intergenic
TTGGATCCGAAATTAGGATT+CGG 0.457793 8:-81872210 None:intergenic
GCTTTGCACGTGACGGAAGC+TGG 0.472622 8:-81871964 None:intergenic
AAAGTGGGAACGACGCCGTA+TGG 0.475583 8:-81872936 None:intergenic
AACCGAAATTGACTCGGATG+TGG 0.481901 8:+81872854 MsaT046220.1:CDS
AGACGCGGCTGCTGCAGCAG+CGG 0.489035 8:-81872118 None:intergenic
CCGGCCTTTAATTCTAGGCC+GGG 0.498099 8:-81872820 None:intergenic
ACCGGCCTTTAATTCTAGGC+CGG 0.502804 8:-81872821 None:intergenic
GGAACTGCGAGAGGATCAGC+AGG 0.506955 8:-81872891 None:intergenic
AGCAACACAATTATGTGGAA+TGG 0.513777 8:+81872701 MsaT046220.1:CDS
GAGTCAAAGAAAGGCTCGAC+GGG 0.517190 8:-81872066 None:intergenic
TTGCAAGAATCACATAGCTT+AGG 0.521043 8:-81871805 None:intergenic
CATAAGATGGGTATTGAAAG+AGG 0.525020 8:+81871745 None:intergenic
CATCCAGACGCGCTCGTGGC+GGG 0.525795 8:-81871920 None:intergenic
ATGCTAATGGACTGTCCATA+CGG 0.541142 8:+81872921 MsaT046220.1:CDS
GAGCGAGTGGATTGGCGGAG+TGG 0.557021 8:-81872026 None:intergenic
TGCGTCAGCTTTGCACGTGA+CGG 0.560515 8:-81871971 None:intergenic
TTATGAGGTACAGAGAGAAG+AGG 0.563746 8:+81872739 MsaT046220.1:CDS
TGACCGTAACCGTCGTCAGT+AGG 0.571111 8:-81872156 None:intergenic
TGGATTGGCGGAGTGGATGT+CGG 0.572687 8:-81872019 None:intergenic
AGTAACCAAGGGGTGGTGCA+AGG 0.573333 8:+81872678 MsaT046220.1:CDS
ATCGGAATCGATGGTTTCAG+GGG 0.573412 8:+81872647 MsaT046220.1:CDS
TTTGTTAGCAGAGTGAATGG+TGG 0.574357 8:-81871890 None:intergenic
CAAGAATCACATAGCTTAGG+TGG 0.574456 8:-81871802 None:intergenic
GATTCAGCGGAGTCAAAGAA+AGG 0.575805 8:-81872075 None:intergenic
GTGACGACGAGCGAGTGGAT+TGG 0.575999 8:-81872034 None:intergenic
TTATGATTCATCATCCGCGC+TGG 0.581963 8:-81872387 None:intergenic
CAGTCCATTAGCATAGATGA+AGG 0.582055 8:-81872912 None:intergenic
TGGAATGGATCGTGAAGCGA+GGG 0.592479 8:+81872716 MsaT046220.1:CDS
ACGACGAGCGAGTGGATTGG+CGG 0.592706 8:-81872031 None:intergenic
CAAGGAGCAACACAATTATG+TGG 0.592806 8:+81872696 MsaT046220.1:CDS
ATGATGAATCATAACTCAGA+AGG 0.596503 8:+81872396 MsaT046220.1:CDS
GATCAGCAGGGTTATAGAGA+CGG 0.597767 8:-81872878 None:intergenic
CGTTCGTGACGACGAGCGAG+TGG 0.599256 8:-81872039 None:intergenic
ATCGTGAAGCGAGGGTTATG+AGG 0.603818 8:+81872724 MsaT046220.1:CDS
ACATCCAGACGCGCTCGTGG+CGG 0.606168 8:-81871921 None:intergenic
TTCATCATCCGCGCTGGAGT+AGG 0.609886 8:-81872381 None:intergenic
CCCGGCCTAGAATTAAAGGC+CGG 0.612766 8:+81872820 MsaT046220.1:CDS
GGGGTGTGAATAGTAACCAA+GGG 0.630822 8:+81872667 MsaT046220.1:CDS
GGATTTGACGACGGATTCAG+CGG 0.633353 8:-81872088 None:intergenic
GAAAAGCTTATGCAGAAACC+CGG 0.633617 8:+81872802 MsaT046220.1:CDS
GTGGAATGGATCGTGAAGCG+AGG 0.634097 8:+81872715 MsaT046220.1:CDS
GGAGTCAAAGAAAGGCTCGA+CGG 0.644574 8:-81872067 None:intergenic
CACACATCCAGACGCGCTCG+TGG 0.646583 8:-81871924 None:intergenic
AGTGGTGCCAGATGCAAACA+CGG 0.653433 8:+81872599 MsaT046220.1:CDS
ATAGATGAAGGAACTGCGAG+AGG 0.656412 8:-81872900 None:intergenic
TAAACGAACCGAAATTGACT+CGG 0.658214 8:+81872848 MsaT046220.1:CDS
TTCGTTGTTCCTACTGACGA+CGG 0.659626 8:+81872147 MsaT046220.1:CDS
GGCGGTGGAGGATTTGACGA+CGG 0.677124 8:-81872097 None:intergenic
ATAGAAATGCAGAATCAGAA+CGG 0.678407 8:-81871852 None:intergenic
TGTGAATAGTAACCAAGGGG+TGG 0.689533 8:+81872671 MsaT046220.1:CDS
TCGGAATCGATGGTTTCAGG+GGG 0.701775 8:+81872648 MsaT046220.1:CDS
ATGATGCTGAAGCAGCTGCG+TGG 0.709512 8:+81872181 MsaT046220.1:CDS
AACAACGAAATTGAAAGACG+CGG 0.720436 8:-81872133 None:intergenic
GGGTGTGAATAGTAACCAAG+GGG 0.734808 8:+81872668 MsaT046220.1:CDS
AAGATGGGTATTGAAAGAGG+AGG 0.750089 8:+81871748 None:intergenic
AAACTAAACCTACTCCAGCG+CGG 0.776053 8:+81872373 MsaT046220.1:CDS
GAACTGCGAGAGGATCAGCA+GGG 0.795439 8:-81872890 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 81871751 81872962 81871751 ID=MsaG046220
Chr8 mRNA 81871751 81872962 81871751 ID=MsaT046220.1;Parent=MsaG046220
Chr8 exon 81871751 81872417 81871751 ID=MsaT046220.1.exon1;Parent=MsaT046220.1
Chr8 CDS 81871751 81872417 81871751 ID=cds.MsaT046220.1;Parent=MsaT046220.1
Chr8 exon 81872598 81872962 81872598 ID=MsaT046220.1.exon2;Parent=MsaT046220.1
Chr8 CDS 81872598 81872962 81872598 ID=cds.MsaT046220.1;Parent=MsaT046220.1
Gene Sequence

>MsaT046220.1

ATGGGTATTGAAAGAGGAGGACTAAAGAGTTTTCGAAGCGGCTGGAGTGTGCCACCTAAGCTATGTGATTCTTGCAAGCTTACTCCCGCCGCGCTTTTTTGCCGTTCTGATTCTGCATTTCTATGCATCAACTGTGATTCCACCATTCACTCTGCTAACAAACTCTCTTCCCGCCACGAGCGCGTCTGGATGTGTGAAGTTTGTGAACAAGCACCAGCTTCCGTCACGTGCAAAGCTGACGCAGCTGCTCTATGCGTCACGTGCGATTCCGACATCCACTCCGCCAATCCACTCGCTCGTCGTCACGAACGTGTTCCCGTCGAGCCTTTCTTTGACTCCGCTGAATCCGTCGTCAAATCCTCCACCGCCGCTGCTGCAGCAGCCGCGTCTTTCAATTTCGTTGTTCCTACTGACGACGGTTACGGTCAAGATGATGCTGAAGCAGCTGCGTGGCTGATTCCGAATCCTAATTTCGGATCCAAACTCAATGAAACTCAAGATATCAAAACTAGAGAGATGTTCTTCTCTGATATGGATCCATTTCTTGATTTTGATTACTCAAACAATTTCCAGAACAATATTAACTGCAGCAACGCCATGAACGATAGCGTTGTTCCTGTTCAAACTAAACCTACTCCAGCGCGGATGATGAATCATAACTCAGAAGGAGTGGTGCCAGATGCAAACACGGTGTCAGAGATATCATACAATTTTGGATCGGAATCGATGGTTTCAGGGGGTGTGAATAGTAACCAAGGGGTGGTGCAAGGAGCAACACAATTATGTGGAATGGATCGTGAAGCGAGGGTTATGAGGTACAGAGAGAAGAGGAAGAACCGAAAATTCGAGAAGACTATTCGTTATGCTTCGCGAAAAGCTTATGCAGAAACCCGGCCTAGAATTAAAGGCCGGTTCGCTAAACGAACCGAAATTGACTCGGATGTGGACCGTCTCTATAACCCTGCTGATCCTCTCGCAGTTCCTTCATCTATGCTAATGGACTGTCCATACGGCGTCGTTCCCACTTTTTAG
Protein sequence

>MsaT046220.1

MGIERGGLKSFRSGWSVPPKLCDSCKLTPAALFCRSDSAFLCINCDSTIHSANKLSSRHERVWMCEVCEQAPASVTCKADAAALCVTCDSDIHSANPLARRHERVPVEPFFDSAESVVKSSTAAAAAAASFNFVVPTDDGYGQDDAEAAAWLIPNPNFGSKLNETQDIKTREMFFSDMDPFLDFDYSNNFQNNINCSNAMNDSVVPVQTKPTPARMMNHNSEGVVPDANTVSEISYNFGSESMVSGGVNSNQGVVQGATQLCGMDREARVMRYREKRKNRKFEKTIRYASRKAYAETRPRIKGRFAKRTEIDSDVDRLYNPADPLAVPSSMLMDCPYGVVPTF*