AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043744

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043744 MtrunA17_Chr8g0385281 83.824 136 7 1 68 188 181 316 3.02e-74 229
MsaG043744 MtrunA17_Chr8g0385281 89.091 55 6 0 13 67 64 118 1.06e-27 108
MsaG043744 MtrunA17_Chr3g0131061 75.556 135 18 1 68 187 180 314 1.44e-67 212
MsaG043744 MtrunA17_Chr3g0131061 85.455 55 8 0 13 67 63 117 1.05e-26 105
MsaG043744 MtrunA17_Chr2g0277501 64.539 141 35 1 68 193 180 320 4.78e-58 187
MsaG043744 MtrunA17_Chr2g0277501 81.818 55 10 0 13 67 63 117 3.40e-25 101
MsaG043744 MtrunA17_Chr8g0380661 38.683 243 75 3 11 179 61 303 8.86e-50 165
MsaG043744 MtrunA17_Chr5g0399911 54.032 124 41 2 68 175 195 318 1.28e-35 129
MsaG043744 MtrunA17_Chr5g0399911 71.930 57 16 0 11 67 76 132 6.63e-22 92.8
MsaG043744 MtrunA17_Chr4g0055451 50.735 136 47 3 68 186 181 313 5.22e-35 127
MsaG043744 MtrunA17_Chr4g0055451 81.818 55 10 0 13 67 64 118 1.86e-25 102
MsaG043744 MtrunA17_Chr5g0426521 52.846 123 40 2 68 175 180 299 5.71e-33 122
MsaG043744 MtrunA17_Chr5g0426521 82.143 56 10 0 13 68 63 118 6.53e-26 103
MsaG043744 MtrunA17_Chr8g0381821 50.833 120 42 2 68 172 180 297 4.57e-32 119
MsaG043744 MtrunA17_Chr8g0381821 83.636 55 9 0 13 67 63 117 1.94e-25 102
MsaG043744 MtrunA17_Chr3g0123791 48.800 125 47 2 68 175 181 305 5.21e-31 117
MsaG043744 MtrunA17_Chr3g0123791 80.000 55 11 0 13 67 64 118 8.07e-24 97.8
MsaG043744 MtrunA17_Chr4g0055431 51.220 123 40 3 68 173 187 306 8.44e-31 116
MsaG043744 MtrunA17_Chr4g0055431 70.909 55 16 0 13 67 70 124 2.22e-19 85.5
MsaG043744 MtrunA17_Chr4g0045371 50.407 123 45 2 68 175 199 320 1.05e-30 116
MsaG043744 MtrunA17_Chr4g0045371 83.636 55 9 0 13 67 82 136 2.69e-26 104
MsaG043744 MtrunA17_Chr1g0162301 47.967 123 48 2 68 175 200 321 5.15e-29 112
MsaG043744 MtrunA17_Chr1g0162301 83.636 55 9 0 13 67 83 137 4.12e-26 104
MsaG043744 MtrunA17_Chr5g0402661 45.528 123 51 2 68 175 194 315 6.73e-28 108
MsaG043744 MtrunA17_Chr5g0402661 72.727 55 15 0 13 67 77 131 1.59e-22 94.4
MsaG043744 MtrunA17_Chr8g0374571 45.528 123 51 2 68 175 199 320 7.28e-27 106
MsaG043744 MtrunA17_Chr8g0374571 80.000 55 11 0 13 67 82 136 3.28e-24 99.0
MsaG043744 MtrunA17_Chr6g0453681 28.085 235 87 9 15 175 84 310 1.42e-14 72.4
MsaG043744 MtrunA17_Chr6g0468751 28.962 183 64 5 15 137 84 260 3.21e-14 71.6
MsaG043744 MtrunA17_Chr5g0432491 53.846 52 24 0 15 66 88 139 3.27e-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
MsaG043744 AT1G10940.2 67.692 130 27 1 68 182 188 317 1.34e-56 185
MsaG043744 AT1G10940.2 74.603 63 8 1 13 67 63 125 2.26e-23 97.4
MsaG043744 AT1G10940.1 67.692 130 27 1 68 182 180 309 1.39e-56 184
MsaG043744 AT1G10940.1 85.455 55 8 0 13 67 63 117 4.33e-26 104
MsaG043744 AT1G60940.1 65.926 135 31 1 68 187 180 314 1.01e-55 182
MsaG043744 AT1G60940.1 83.636 55 9 0 13 67 63 117 1.62e-25 103
MsaG043744 AT1G60940.2 65.926 135 31 1 68 187 180 314 1.01e-55 182
MsaG043744 AT1G60940.2 83.636 55 9 0 13 67 63 117 1.62e-25 103
MsaG043744 AT5G63650.1 68.939 132 26 1 69 185 181 312 4.00e-55 181
MsaG043744 AT5G63650.1 78.182 55 12 0 13 67 63 117 1.75e-23 97.4
MsaG043744 AT5G08590.2 66.165 133 29 2 69 186 105 236 6.96e-52 170
MsaG043744 AT5G08590.2 75.000 40 10 0 28 67 2 41 1.14e-14 72.0
MsaG043744 AT5G08590.1 66.165 133 29 2 69 186 181 312 4.11e-51 170
MsaG043744 AT5G08590.1 74.545 55 14 0 13 67 63 117 1.86e-22 94.7
MsaG043744 AT2G23030.1 60.274 146 38 3 70 195 182 327 3.86e-47 159
MsaG043744 AT2G23030.1 74.545 55 14 0 13 67 63 117 1.39e-20 89.4
MsaG043744 AT4G33950.2 49.206 126 44 3 68 176 197 319 7.96e-31 117
MsaG043744 AT4G33950.2 83.636 55 9 0 13 67 80 134 4.51e-26 104
MsaG043744 AT4G33950.1 49.206 126 44 3 68 176 197 319 1.37e-30 116
MsaG043744 AT4G33950.1 83.636 55 9 0 13 67 80 134 4.50e-26 104
MsaG043744 AT1G78290.3 50.394 127 42 3 68 179 180 300 8.40e-30 114
MsaG043744 AT1G78290.3 74.545 55 14 0 13 67 63 117 4.33e-22 93.6
MsaG043744 AT1G78290.2 50.394 127 42 3 68 179 180 300 8.40e-30 114
MsaG043744 AT1G78290.2 74.545 55 14 0 13 67 63 117 4.33e-22 93.6
MsaG043744 AT5G66880.1 46.269 134 54 3 68 185 198 329 4.59e-28 109
MsaG043744 AT5G66880.1 76.364 55 13 0 13 67 81 135 1.12e-24 100
MsaG043744 AT5G66880.2 46.269 134 54 3 68 185 198 329 4.59e-28 109
MsaG043744 AT5G66880.2 76.364 55 13 0 13 67 81 135 1.12e-24 100
MsaG043744 AT3G50500.1 45.113 133 57 2 68 185 199 330 8.90e-28 109
MsaG043744 AT3G50500.1 83.636 55 9 0 13 67 82 136 3.75e-26 104
MsaG043744 AT3G50500.2 45.113 133 57 2 68 185 206 337 1.00e-27 108
MsaG043744 AT3G50500.2 83.636 55 9 0 13 67 82 136 4.10e-26 104
MsaG043744 AT4G40010.1 46.094 128 51 1 65 174 177 304 1.21e-26 105
MsaG043744 AT4G40010.1 80.000 55 11 0 13 67 63 117 3.42e-24 99.4
MsaG043744 AT4G11373.1 55.385 65 22 1 4 68 23 80 5.47e-15 69.3
MsaG043744 AT5G39440.1 24.542 273 123 10 15 224 84 336 6.41e-14 70.9
MsaG043744 AT3G01090.3 27.586 203 79 6 15 157 84 278 3.02e-13 68.9
MsaG043744 AT3G01090.1 27.586 203 79 6 15 157 84 278 3.02e-13 68.9
MsaG043744 AT3G01090.2 27.586 203 79 6 15 157 107 301 3.11e-13 68.9
MsaG043744 AT3G29160.3 26.601 203 81 6 15 157 85 279 5.74e-13 67.8
MsaG043744 AT3G29160.1 26.108 203 82 6 15 157 85 279 2.66e-12 66.2
MsaG043744 AT3G29160.2 26.108 203 82 6 15 157 85 279 2.66e-12 66.2
MsaG043744 AT2G26980.1 25.000 240 98 9 15 179 79 311 3.92e-12 65.5
MsaG043744 AT2G26980.2 50.000 52 26 0 15 66 79 130 1.89e-11 62.8

Find 67 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATTTGTTGCTAATCCATTA+AGG 0.221829 8:-50467834 MsaT043744.1:CDS
TCATCAAAACATACCCTTAA+TGG 0.235037 8:+50467820 None:intergenic
GTTACTATTGCTAAATGATT+AGG 0.250308 8:+50468436 None:intergenic
TTACTATTGCTAAATGATTA+GGG 0.261994 8:+50468437 None:intergenic
TTCTTTCAGCAGCTGATATC+TGG 0.275921 8:-50468247 MsaT043744.1:CDS
CTCCAACTAGCATGACATAA+TGG 0.301708 8:+50468078 None:intergenic
TGAGATATGTGAACATAATC+AGG 0.310733 8:+50467883 None:intergenic
TCTAGGCCGGTCAAAGGTTT+TGG 0.324015 8:-50467315 MsaT043744.1:CDS
GCTGAACCGACCAGCATTAC+AGG 0.337585 8:+50468378 None:intergenic
ACTAAATGCCTAGGCCTTGA+TGG 0.340428 8:+50466378 None:intergenic
AAAAGCTTGGGTTGCCTCTC+TGG 0.343755 8:+50467400 None:intergenic
ATTTGTTGCTAATCCATTAA+GGG 0.394009 8:-50467833 MsaT043744.1:intron
CACTTTGAATAGAAAAGCTT+GGG 0.403772 8:+50467388 None:intergenic
GAGAACCTCCTCCGGTATCT+AGG 0.405420 8:-50467332 MsaT043744.1:CDS
AGCATATCCCTTTGAGGATC+GGG 0.410059 8:-50468057 MsaT043744.1:CDS
AGGCTTGATGGTGCAATTCA+TGG 0.410361 8:+50469035 None:intergenic
AAGCTTCACCAGAGGCTTGA+TGG 0.417893 8:+50469023 None:intergenic
CGAAAAGCATCTTCCTGCAC+TGG 0.438370 8:-50466309 MsaT043744.1:CDS
GCTGATTCAGTTAGCTCCCT+TGG 0.441373 8:+50467438 None:intergenic
CATGTTTCATTTCCCAGTGC+AGG 0.455967 8:+50466296 None:intergenic
ACACTTTGAATAGAAAAGCT+TGG 0.460081 8:+50467387 None:intergenic
TAGCAACAAATATACGAGAT+AGG 0.461711 8:+50467845 None:intergenic
TCCAACTAGCATGACATAAT+GGG 0.469374 8:+50468079 None:intergenic
ATCAAGCCTCTGGTGAAGCT+TGG 0.488088 8:-50469021 MsaT043744.1:CDS
ACCCATTATGTCATGCTAGT+TGG 0.497773 8:-50468080 MsaT043744.1:CDS
GACATAATGGGTCACTCCAC+AGG 0.498563 8:+50468091 None:intergenic
ATATCAAACCATCAAGGCCT+AGG 0.510554 8:-50466386 MsaT043744.1:CDS
CCTTTGACCGGCCTAGATAC+CGG 0.512013 8:+50467321 None:intergenic
GAATTGCACCATCAAGCCTC+TGG 0.521090 8:-50469031 MsaT043744.1:CDS
GAGCATATCCCTTTGAGGAT+CGG 0.523974 8:-50468058 MsaT043744.1:CDS
TCCCAGCCAAAACCTTTGAC+CGG 0.527754 8:+50467309 None:intergenic
GATAATGAAAATTGTGGGAG+AGG 0.536919 8:-50467358 MsaT043744.1:CDS
AGTTGGAGCATATCCCTTTG+AGG 0.541202 8:-50468063 MsaT043744.1:CDS
GGACGAGATAATGAAAATTG+TGG 0.541311 8:-50467364 MsaT043744.1:CDS
AGGGTCATCCCGATCCTCAA+AGG 0.547475 8:+50468049 None:intergenic
ACCTCCTCCGGTATCTAGGC+CGG 0.548787 8:-50467328 MsaT043744.1:CDS
GACGAGATAATGAAAATTGT+GGG 0.549780 8:-50467363 MsaT043744.1:CDS
GGGTCATCCCGATCCTCAAA+GGG 0.551772 8:+50468050 None:intergenic
CCGGTATCTAGGCCGGTCAA+AGG 0.553923 8:-50467321 MsaT043744.1:CDS
ACCGGCCTAGATACCGGAGG+AGG 0.562102 8:+50467327 None:intergenic
ATAGTAACACAATATGCAGC+TGG 0.566363 8:-50468421 MsaT043744.1:CDS
TGTCTATTACTGTCATGCTA+TGG 0.568349 8:-50468224 MsaT043744.1:intron
TTTGAGAGGACCTGTAATGC+TGG 0.569556 8:-50468388 MsaT043744.1:CDS
TTGGCTGATGTGTGGTCCTG+TGG 0.571735 8:-50468107 MsaT043744.1:CDS
AGAGGCAAGAGAACCTCCTC+CGG 0.578941 8:-50467340 MsaT043744.1:CDS
AGTTGTAACAGTCGTAACAC+GGG 0.580372 8:+50467246 None:intergenic
GAAAAGCATCTTCCTGCACT+GGG 0.583858 8:-50466308 MsaT043744.1:CDS
GGTGAAGCTTGGCTTTCTCG+AGG 0.584023 8:-50469010 MsaT043744.1:intron
AGAGGACCTGTAATGCTGGT+CGG 0.592162 8:-50468384 MsaT043744.1:CDS
GAGATATGTGAACATAATCA+GGG 0.595221 8:+50467884 None:intergenic
AAGTTGTAACAGTCGTAACA+CGG 0.596504 8:+50467245 None:intergenic
ACCAGCGTGCTGAGACTCGT+TGG 0.596894 8:+50466334 None:intergenic
AACACAATATGCAGCTGGAG+GGG 0.600335 8:-50468416 MsaT043744.1:CDS
GACTTCAACACTAAATGCCT+AGG 0.609727 8:+50466369 None:intergenic
CAACAAATATACGAGATAGG+AGG 0.614585 8:+50467848 None:intergenic
TAACACAATATGCAGCTGGA+GGG 0.615840 8:-50468417 MsaT043744.1:CDS
TACTATTGCTAAATGATTAG+GGG 0.616535 8:+50468438 None:intergenic
GAGACTCGTTGGTTTCGTGA+TGG 0.621363 8:+50466345 None:intergenic
TGGTCGGTTCAGCGAAGATG+AGG 0.629226 8:-50468368 MsaT043744.1:intron
CTGGAGGGGAACTCTTTGAG+AGG 0.634190 8:-50468402 MsaT043744.1:CDS
GCAGGTATATCAAACCATCA+AGG 0.636338 8:-50466392 MsaT043744.1:intron
GTAACACAATATGCAGCTGG+AGG 0.654060 8:-50468418 MsaT043744.1:CDS
CAAGCTGCATATTACCAGAG+AGG 0.690799 8:-50467414 MsaT043744.1:CDS
ACCAACGAGTCTCAGCACGC+TGG 0.701653 8:-50466335 MsaT043744.1:CDS
AGAAAGCCAAGCTTCACCAG+AGG 0.702351 8:+50469015 None:intergenic
TTGACCGGCCTAGATACCGG+AGG 0.733082 8:+50467324 None:intergenic
GTTGTAACAGTCGTAACACG+GGG 0.737092 8:+50467247 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 50466302 50469055 50466302 ID=MsaG043744
Chr8 mRNA 50466302 50469055 50466302 ID=MsaT043744.1;Parent=MsaG043744
Chr8 exon 50466302 50466410 50466302 ID=MsaT043744.1.exon7;Parent=MsaT043744.1
Chr8 CDS 50466302 50466410 50466302 ID=cds.MsaT043744.1;Parent=MsaT043744.1
Chr8 exon 50467255 50467466 50467255 ID=MsaT043744.1.exon6;Parent=MsaT043744.1
Chr8 CDS 50467255 50467466 50467255 ID=cds.MsaT043744.1;Parent=MsaT043744.1
Chr8 exon 50467834 50467932 50467834 ID=MsaT043744.1.exon5;Parent=MsaT043744.1
Chr8 CDS 50467834 50467932 50467834 ID=cds.MsaT043744.1;Parent=MsaT043744.1
Chr8 exon 50468025 50468129 50468025 ID=MsaT043744.1.exon4;Parent=MsaT043744.1
Chr8 CDS 50468025 50468129 50468025 ID=cds.MsaT043744.1;Parent=MsaT043744.1
Chr8 exon 50468225 50468278 50468225 ID=MsaT043744.1.exon3;Parent=MsaT043744.1
Chr8 CDS 50468225 50468278 50468225 ID=cds.MsaT043744.1;Parent=MsaT043744.1
Chr8 exon 50468369 50468470 50468369 ID=MsaT043744.1.exon2;Parent=MsaT043744.1
Chr8 CDS 50468369 50468470 50468369 ID=cds.MsaT043744.1;Parent=MsaT043744.1
Chr8 exon 50469011 50469055 50469011 ID=MsaT043744.1.exon1;Parent=MsaT043744.1
Chr8 CDS 50469011 50469055 50469011 ID=cds.MsaT043744.1;Parent=MsaT043744.1
Gene Sequence

>MsaT043744.1

ATGAATTGCACCATCAAGCCTCTGGTGAAGCTTGGCTTTCTCGAGGTGGTTTTGACCCCTAATCATTTAGCAATAGTAACACAATATGCAGCTGGAGGGGAACTCTTTGAGAGGACCTGTAATGCTGGTCGGTTCAGCGAAGATGAGGCTAGATATTTCTTTCAGCAGCTGATATCTGGTGTCTATTACTGTCATGCTATGTTGGCTGATGTGTGGTCCTGTGGAGTGACCCATTATGTCATGCTAGTTGGAGCATATCCCTTTGAGGATCGGGATGACCCTAGAAATTTTATGAAAACAATCCAGCTCATAATGGCTCTTCAATACAAAATCCCTGATTATGTTCACATATCTCAAGATCGCAAAAGCCTCCTATCTCGTATATTTGTTGCTAATCCATTAAGGAATCTTCCAAGGGAGCTAACTGAATCAGCTCAAGCTGCATATTACCAGAGAGGCAACCCAAGCTTTTCTATTCAAAGTGTGGACGAGATAATGAAAATTGTGGGAGAGGCAAGAGAACCTCCTCCGGTATCTAGGCCGGTCAAAGGTTTTGGCTGGGAATGTGAAGAAAAAGAACACCTTGTTACGACTGCTCAAAACCCCGTGTTACGACTGTATATCAAACCATCAAGGCCTAGGCATTTAGTGTTGAAGTCACCATCACGAAACCAACGAGTCTCAGCACGCTGGTGTCGAAAAGCATCTTCCTGCACTGGGAAATGA
Protein sequence

>MsaT043744.1

MNCTIKPLVKLGFLEVVLTPNHLAIVTQYAAGGELFERTCNAGRFSEDEARYFFQQLISGVYYCHAMLADVWSCGVTHYVMLVGAYPFEDRDDPRNFMKTIQLIMALQYKIPDYVHISQDRKSLLSRIFVANPLRNLPRELTESAQAAYYQRGNPSFSIQSVDEIMKIVGEAREPPPVSRPVKGFGWECEEKEHLVTTAQNPVLRLYIKPSRPRHLVLKSPSRNQRVSARWCRKASSCTGK*