AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038003

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038003 MtrunA17_Chr7g0241761 96.091 307 12 0 1 307 7 313 0.0 614
MsaG038003 MtrunA17_Chr5g0429521 58.675 317 106 9 1 306 1 303 9.78e-115 333
MsaG038003 MtrunA17_Chr3g0104071 53.231 325 115 12 5 305 5 316 1.13e-102 303
MsaG038003 MtrunA17_Chr5g0436501 62.500 208 69 2 5 210 3 203 5.69e-87 261
MsaG038003 MtrunA17_Chr1g0162081 51.031 194 84 2 24 209 7 197 1.67e-56 184
MsaG038003 MtrunA17_Chr1g0210471 50.000 182 74 4 27 202 22 192 2.63e-53 174
MsaG038003 MtrunA17_Chr4g0062741 38.214 280 130 7 24 272 3 270 2.02e-51 171
MsaG038003 MtrunA17_Chr8g0365011 36.434 258 125 8 27 269 6 239 3.56e-36 131
MsaG038003 MtrunA17_Chr6g0488471 78.873 71 15 0 128 198 91 161 3.84e-33 123
MsaG038003 MtrunA17_Chr2g0331031 74.648 71 18 0 129 199 104 174 4.76e-31 119
MsaG038003 MtrunA17_Chr4g0055931 70.667 75 22 0 126 200 87 161 1.06e-30 117
MsaG038003 MtrunA17_Chr8g0389241 76.056 71 16 1 128 198 99 168 1.53e-30 116
MsaG038003 MtrunA17_Chr5g0415191 67.949 78 25 0 128 205 96 173 1.62e-27 108
MsaG038003 MtrunA17_Chr4g0059701 66.667 78 26 0 122 199 72 149 1.48e-25 103
MsaG038003 MtrunA17_Chr3g0135671 48.718 117 53 3 92 208 54 163 4.45e-25 100
MsaG038003 MtrunA17_Chr3g0092621 54.545 77 35 0 134 210 84 160 2.34e-23 94.4
MsaG038003 MtrunA17_Chr5g0432941 33.333 192 110 5 28 217 21 196 4.38e-23 95.1
MsaG038003 MtrunA17_Chr5g0432921 34.359 195 105 7 28 217 20 196 1.60e-22 93.6
MsaG038003 MtrunA17_Chr5g0440731 53.086 81 35 1 123 200 94 174 1.85e-22 94.7
MsaG038003 MtrunA17_Chr5g0440741 55.696 79 32 1 125 200 91 169 4.92e-22 93.6
MsaG038003 MtrunA17_Chr5g0409841 57.534 73 29 1 130 200 88 160 6.66e-21 89.4
MsaG038003 MtrunA17_Chr5g0409831 57.895 76 29 1 130 202 73 148 6.30e-20 86.7
MsaG038003 MtrunA17_Chr6g0452791 72.917 48 13 0 134 181 80 127 4.10e-19 83.2
MsaG038003 MtrunA17_Chr8g0364741 36.975 119 64 2 25 142 6 114 1.22e-18 80.5
MsaG038003 MtrunA17_Chr3g0141601 50.000 78 36 1 27 101 5 82 3.78e-18 77.8
MsaG038003 MtrunA17_Chr8g0364731 60.294 68 25 1 144 209 11 78 6.55e-18 80.1
MsaG038003 MtrunA17_Chr1g0155181 48.611 72 37 0 24 95 2 73 8.08e-18 77.0
MsaG038003 MtrunA17_Chr5g0404101 46.667 75 40 0 17 91 7 81 2.27e-17 75.9
MsaG038003 MtrunA17_Chr3g0144631 50.000 68 34 0 27 94 14 81 1.00e-16 73.9
MsaG038003 MtrunA17_Chr8g0373131 50.000 70 34 1 26 95 2 70 4.13e-16 72.0
MsaG038003 MtrunA17_Chr8g0373111 50.000 70 34 1 26 95 2 70 4.55e-16 71.6
MsaG038003 MtrunA17_Chr8g0373121 50.000 70 34 1 26 95 2 70 4.55e-16 71.6
MsaG038003 MtrunA17_Chr6g0449111 44.928 69 38 0 24 92 5 73 1.74e-15 70.5
MsaG038003 MtrunA17_Chr7g0255841 53.030 66 31 0 32 97 15 80 1.52e-14 68.2
MsaG038003 MtrunA17_Chr3g0081631 43.529 85 38 2 29 112 10 85 1.10e-13 65.9
MsaG038003 MtrunA17_Chr8g0373101 47.143 70 36 1 26 95 2 70 1.30e-13 65.1
MsaG038003 MtrunA17_Chr3g0113121 48.000 75 32 1 136 203 97 171 1.89e-13 68.2
MsaG038003 MtrunA17_Chr1g0192061 52.113 71 29 2 136 202 63 132 4.39e-13 66.6
MsaG038003 MtrunA17_Chr5g0404301 49.206 63 31 1 27 89 2 63 6.63e-13 62.8
MsaG038003 MtrunA17_Chr8g0370121 44.068 59 33 0 122 180 88 146 5.07e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038003 AT2G38090.1 75.238 210 45 2 1 203 1 210 4.72e-117 339
MsaG038003 AT5G58900.1 64.651 215 59 5 5 205 1 212 7.28e-91 272
MsaG038003 AT5G01200.1 59.817 219 63 6 1 203 6 215 1.05e-81 248
MsaG038003 AT3G11280.2 58.937 207 66 4 5 203 1 196 1.07e-75 233
MsaG038003 AT3G11280.1 58.937 207 66 4 5 203 1 196 1.07e-75 233
MsaG038003 AT5G05790.2 60.638 188 67 3 27 212 29 211 4.52e-72 224
MsaG038003 AT5G05790.1 60.638 188 67 3 27 212 29 211 4.52e-72 224
MsaG038003 AT5G08520.1 50.000 188 91 2 24 209 7 193 1.93e-54 179
MsaG038003 AT1G49010.1 48.500 200 80 4 27 204 6 204 8.63e-50 168
MsaG038003 AT5G04760.1 47.027 185 86 3 27 211 4 176 1.30e-47 159
MsaG038003 AT5G23650.1 45.304 181 91 3 26 201 10 187 2.07e-44 154
MsaG038003 AT3G10580.2 38.043 184 92 4 32 214 11 173 6.14e-32 119
MsaG038003 AT5G47390.1 76.712 73 17 0 126 198 88 160 8.65e-32 122
MsaG038003 AT3G10580.1 38.043 184 92 4 32 214 11 173 1.10e-31 120
MsaG038003 AT5G61620.1 56.436 101 37 1 105 205 86 179 7.40e-29 113
MsaG038003 AT5G56840.1 59.551 89 34 2 129 215 86 174 1.23e-27 107
MsaG038003 AT1G70000.1 72.222 72 20 0 128 199 92 163 1.32e-26 105
MsaG038003 AT1G70000.2 72.222 72 20 0 128 199 92 163 1.32e-26 105
MsaG038003 AT4G09450.1 37.572 173 87 3 28 200 6 157 1.94e-26 103
MsaG038003 AT3G16350.1 84.906 53 8 0 129 181 132 184 1.91e-25 105
MsaG038003 AT1G19000.2 64.935 77 27 0 130 206 98 174 1.43e-24 100
MsaG038003 AT1G19000.1 64.935 77 27 0 130 206 98 174 1.43e-24 100
MsaG038003 AT1G74840.2 80.769 52 10 0 129 180 91 142 1.41e-23 97.1
MsaG038003 AT1G74840.1 80.769 52 10 0 129 180 91 142 2.09e-23 97.4
MsaG038003 AT3G10590.1 35.204 196 118 7 28 220 6 195 4.33e-20 87.0
MsaG038003 AT1G75250.2 53.731 67 31 0 27 93 10 76 3.80e-17 75.9
MsaG038003 AT1G75250.1 53.731 67 31 0 27 93 10 76 1.10e-16 75.5
MsaG038003 AT4G39250.1 48.485 66 34 0 29 94 14 79 1.98e-15 71.2
MsaG038003 AT2G21650.1 47.761 67 35 0 29 95 14 80 4.74e-14 67.4
MsaG038003 AT1G19510.1 44.872 78 40 1 32 109 15 89 6.18e-14 67.0
MsaG038003 AT2G18328.1 46.032 63 34 0 33 95 15 77 8.60e-12 60.5

Find 70 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAACAACCAATTGGAATTT+TGG 0.118121 7:-69593697 None:intergenic
ACGAAGGCGGTTTCATTTCT+TGG 0.231424 7:-69595030 None:intergenic
TATTTCATTAGGCAGCTTTC+AGG 0.241192 7:+69594956 MsaT038003.1:CDS
AGGGTTGCTGAGATGATTCC+TGG 0.340116 7:+69593815 MsaT038003.1:CDS
TCCTTCTTCTCTGGACCATT+TGG 0.345458 7:+69595066 MsaT038003.1:CDS
TGCTTTGGCTTATTATGATA+AGG 0.376321 7:+69593772 MsaT038003.1:CDS
ATGCTCAGAAGTATTTCATT+AGG 0.387800 7:+69594945 MsaT038003.1:CDS
TTAGTTGAATTGAAAACAAA+TGG 0.411456 7:-69595175 None:intergenic
AAAAGTATGGCAAGGGAGAC+TGG 0.414734 7:+69594867 MsaT038003.1:CDS
CCTATATCCAAAATTCCAAT+TGG 0.417676 7:+69593690 MsaT038003.1:CDS
TGATGTGATTAAACAGTATA+GGG 0.417708 7:+69593850 MsaT038003.1:CDS
GCTGGTTTGATACCAGTTCC+TGG 0.417898 7:+69593902 MsaT038003.1:CDS
TAGTATCAAAAGGTGAAAAC+TGG 0.419071 7:-69595291 None:intergenic
GCAACCCTTATCCATCTATC+AGG 0.422928 7:-69593800 None:intergenic
TAAGCTCTTTGAGAATGCTT+TGG 0.425147 7:+69593757 MsaT038003.1:CDS
TTCTCTGGACCATTTGGTGA+AGG 0.432138 7:+69595072 MsaT038003.1:CDS
ATAAGGATACTCCTGATAGA+TGG 0.435285 7:+69593789 MsaT038003.1:CDS
TTCGACTCGGCCGTCGGAGC+AGG 0.440395 7:+69594018 MsaT038003.1:CDS
AAGTAACGATCCTTCTTCTC+TGG 0.444961 7:+69595057 MsaT038003.1:CDS
ACAAATGGCATGCCTTCATC+TGG 0.446288 7:-69595160 None:intergenic
TTTGTCCAGCATGGTTAAGC+AGG 0.451543 7:+69595120 MsaT038003.1:CDS
TTTCAGGAGGGAAGGATAAG+AGG 0.455606 7:+69594972 MsaT038003.1:CDS
GATGTGTGTGTTATTGAAGC+TGG 0.457311 7:+69593884 MsaT038003.1:CDS
ATACTCCTGATAGATGGATA+AGG 0.478456 7:+69593795 MsaT038003.1:CDS
GATTTGCAACCTTCACCAAA+TGG 0.478639 7:-69595081 None:intergenic
GTGATGTGATTAAACAGTAT+AGG 0.483162 7:+69593849 MsaT038003.1:CDS
GACTGGAAATTACCAGATGA+AGG 0.483800 7:+69595148 MsaT038003.1:CDS
TACTCCTGATAGATGGATAA+GGG 0.485001 7:+69593796 MsaT038003.1:CDS
ACCAAATGGTCCAGAGAAGA+AGG 0.487953 7:-69595067 None:intergenic
TTCTTCCTTTCCTGCTCCGA+CGG 0.488987 7:-69594028 None:intergenic
CTAGTTGTATAACCAGGAAC+TGG 0.504989 7:-69593914 None:intergenic
ATTTGCAAAATAGTATCAAA+AGG 0.512642 7:-69595301 None:intergenic
CTCGGCCGTCGGAGCAGGAA+AGG 0.514515 7:+69594023 MsaT038003.1:CDS
CTATGCTCCTCTTCAGTCCA+TGG 0.515244 7:-69594058 None:intergenic
TTCACAAGAATCGAAATCAC+CGG 0.522859 7:+69595234 MsaT038003.1:CDS
GATTGACCACTGTGATATCA+TGG 0.524764 7:-69595006 None:intergenic
AACTAAAGGAAACATGTTTG+TGG 0.525249 7:+69595192 MsaT038003.1:CDS
TGGTTAAGCAGGAATTTGAC+TGG 0.530767 7:+69595131 MsaT038003.1:CDS
GGTATCCATGATGAGTGCTT+CGG 0.532341 7:-69595270 None:intergenic
AAATTCCTGCTTAACCATGC+TGG 0.533010 7:-69595125 None:intergenic
GCATGACTTGCGACTTGAGT+TGG 0.545637 7:-69594926 None:intergenic
GAATCATAATTTGTCCAGCA+TGG 0.552113 7:+69595111 MsaT038003.1:CDS
TTCATTAGGCAGCTTTCAGG+AGG 0.562103 7:+69594959 MsaT038003.1:CDS
ATGTTTGTGGCACCGTCGTG+CGG 0.567658 7:+69595205 MsaT038003.1:CDS
TCACAAGAATCGAAATCACC+GGG 0.573301 7:+69595235 MsaT038003.1:CDS
TGTTTGTGGCACCGTCGTGC+GGG 0.575136 7:+69595206 MsaT038003.1:CDS
TTATCTAGAACAATGAATAG+AGG 0.579227 7:+69593644 None:intergenic
GAGACTGGAGAAACATCTCT+AGG 0.579618 7:+69594882 MsaT038003.1:CDS
TAGGCAGCTTTCAGGAGGGA+AGG 0.581740 7:+69594964 MsaT038003.1:CDS
AAGTGGTTCGACTCGGCCGT+CGG 0.583732 7:+69594012 MsaT038003.1:CDS
TCGGAGCAGGAAAGGAAGAA+AGG 0.584815 7:+69594031 MsaT038003.1:CDS
GTACTCCGAAGCACTCATCA+TGG 0.587369 7:+69595265 MsaT038003.1:CDS
GACTTGAGTTGGTGTTCTTG+TGG 0.595027 7:-69594915 None:intergenic
TTGGATTGGGATAACAGTGA+AGG 0.598870 7:+69593947 MsaT038003.1:CDS
TCGTTACTTTCTGACGAAGG+CGG 0.604880 7:-69595043 None:intergenic
AAAGGAAGAAAGGTGTGCCA+TGG 0.605391 7:+69594041 MsaT038003.1:CDS
CATGGACTGAAGAGGAGCAT+AGG 0.606328 7:+69594059 MsaT038003.1:CDS
TGGATTGGGATAACAGTGAA+GGG 0.609140 7:+69593948 MsaT038003.1:CDS
AGGTGTGCCATGGACTGAAG+AGG 0.618331 7:+69594051 MsaT038003.1:CDS
GGAAAAGAAGTGGTTCGACT+CGG 0.625707 7:+69594005 MsaT038003.1:CDS
CTGGACAAATTATGATTCTG+TGG 0.628813 7:-69595106 None:intergenic
AGTGTTGGTGGGAAAAGAAG+TGG 0.631430 7:+69593995 MsaT038003.1:CDS
AAAGAGCTAGTTGTATAACC+AGG 0.644968 7:-69593920 None:intergenic
GGATCGTTACTTTCTGACGA+AGG 0.646642 7:-69595046 None:intergenic
TCATTAGGCAGCTTTCAGGA+GGG 0.651718 7:+69594960 MsaT038003.1:CDS
CTTCGGAGTACATTACGCCC+CGG 0.658628 7:-69595253 None:intergenic
TGGTTGTTTCAAGAAAACAA+TGG 0.668637 7:+69593710 MsaT038003.1:CDS
TGTGAAGAAATCCCGCACGA+CGG 0.712958 7:-69595217 None:intergenic
CACAAGAATCGAAATCACCG+GGG 0.784252 7:+69595236 MsaT038003.1:CDS
AAGTATCCATGATATCACAG+TGG 0.791298 7:+69595000 MsaT038003.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 69593656 69595345 69593656 ID=MsaG038003
Chr7 mRNA 69593656 69595345 69593656 ID=MsaT038003.1;Parent=MsaG038003
Chr7 exon 69593656 69594080 69593656 ID=MsaT038003.1.exon1;Parent=MsaT038003.1
Chr7 CDS 69593656 69594080 69593656 ID=cds.MsaT038003.1;Parent=MsaT038003.1
Chr7 exon 69594847 69595345 69594847 ID=MsaT038003.1.exon2;Parent=MsaT038003.1
Chr7 CDS 69594847 69595345 69594847 ID=cds.MsaT038003.1;Parent=MsaT038003.1
Gene Sequence

>MsaT038003.1

ATGAATAGAGGAGTTGAAGTTCTATCACCAGCTTCCTATATCCAAAATTCCAATTGGTTGTTTCAAGAAAACAATGGTTCAAAATTTACTTCAGAAGAGAATAAGCTCTTTGAGAATGCTTTGGCTTATTATGATAAGGATACTCCTGATAGATGGATAAGGGTTGCTGAGATGATTCCTGGAAAAACTGTTGGTGATGTGATTAAACAGTATAGGGAGCTTGAAGAAGATGTGTGTGTTATTGAAGCTGGTTTGATACCAGTTCCTGGTTATACAACTAGCTCTTTTACATTGGATTGGGATAACAGTGAAGGGTATGATGAGTTCAAGCAGTTTTGTAGTGTTGGTGGGAAAAGAAGTGGTTCGACTCGGCCGTCGGAGCAGGAAAGGAAGAAAGGTGTGCCATGGACTGAAGAGGAGCATAGGCAATTTTTGTTGGGTCTGAAAAAGTATGGCAAGGGAGACTGGAGAAACATCTCTAGGAATTTTGTGACCACAAGAACACCAACTCAAGTCGCAAGTCATGCTCAGAAGTATTTCATTAGGCAGCTTTCAGGAGGGAAGGATAAGAGGAGATCAAGTATCCATGATATCACAGTGGTCAATCTCCAAGAAATGAAACCGCCTTCGTCAGAAAGTAACGATCCTTCTTCTCTGGACCATTTGGTGAAGGTTGCAAATCAACCACAGAATCATAATTTGTCCAGCATGGTTAAGCAGGAATTTGACTGGAAATTACCAGATGAAGGCATGCCATTTGTTTTCAATTCAACTAAAGGAAACATGTTTGTGGCACCGTCGTGCGGGATTTCTTCACAAGAATCGAAATCACCGGGGCGTAATGTACTCCGAAGCACTCATCATGGATACCAGTTTTCACCTTTTGATACTATTTTGCAAATGCAATCTATGCAGCATCAATGA
Protein sequence

>MsaT038003.1

MNRGVEVLSPASYIQNSNWLFQENNGSKFTSEENKLFENALAYYDKDTPDRWIRVAEMIPGKTVGDVIKQYRELEEDVCVIEAGLIPVPGYTTSSFTLDWDNSEGYDEFKQFCSVGGKRSGSTRPSEQERKKGVPWTEEEHRQFLLGLKKYGKGDWRNISRNFVTTRTPTQVASHAQKYFIRQLSGGKDKRRSSIHDITVVNLQEMKPPSSESNDPSSLDHLVKVANQPQNHNLSSMVKQEFDWKLPDEGMPFVFNSTKGNMFVAPSCGISSQESKSPGRNVLRSTHHGYQFSPFDTILQMQSMQHQ*