AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036947

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036947 MtrunA17_Chr7g0231911 92.114 317 22 1 1 317 1 314 0.0 563
MsaG036947 MtrunA17_Chr3g0122411 54.676 139 59 2 98 236 115 249 9.52e-42 150
MsaG036947 MtrunA17_Chr4g0046991 72.840 81 22 0 152 232 73 153 1.22e-36 129
MsaG036947 MtrunA17_Chr7g0258471 51.145 131 61 1 104 231 91 221 6.96e-36 134
MsaG036947 MtrunA17_Chr5g0420051 51.852 135 59 2 98 229 127 258 2.87e-35 132
MsaG036947 MtrunA17_Chr2g0282521 70.238 84 25 0 144 227 56 139 3.79e-35 124
MsaG036947 MtrunA17_Chr8g0360361 68.235 85 27 0 152 236 65 149 7.50e-35 125
MsaG036947 MtrunA17_Chr3g0132091 55.000 100 45 0 134 233 55 154 2.27e-34 128
MsaG036947 MtrunA17_Chr8g0334671 67.857 84 27 0 145 228 180 263 2.73e-34 127
MsaG036947 MtrunA17_Chr4g0061651 53.175 126 55 2 101 225 74 196 4.92e-34 129
MsaG036947 MtrunA17_Chr2g0308321 57.895 114 39 3 138 251 160 264 7.44e-34 130
MsaG036947 MtrunA17_Chr7g0270541 59.091 110 44 1 128 236 120 229 7.82e-34 131
MsaG036947 MtrunA17_Chr8g0386271 54.545 99 45 0 138 236 85 183 2.80e-32 123
MsaG036947 MtrunA17_Chr2g0302791 51.163 129 52 3 122 246 116 237 2.43e-31 124
MsaG036947 MtrunA17_Chr1g0194121 60.000 95 38 0 137 231 132 226 3.70e-31 123
MsaG036947 MtrunA17_Chr7g0224821 65.000 80 28 0 152 231 77 156 5.73e-31 119
MsaG036947 MtrunA17_Chr8g0377421 38.983 177 75 5 87 243 58 221 1.45e-29 114
MsaG036947 MtrunA17_Chr1g0162871 66.667 81 27 0 152 232 104 184 2.01e-29 118
MsaG036947 MtrunA17_Chr8g0377401 45.985 137 51 2 99 227 116 237 8.01e-29 111
MsaG036947 MtrunA17_Chr2g0286661 50.515 97 48 0 134 230 85 181 1.71e-21 95.1
MsaG036947 MtrunA17_Chr1g0175031 48.980 98 47 1 104 198 23 120 4.65e-19 82.0
MsaG036947 MtrunA17_Chr2g0317041 55.714 70 30 1 129 198 77 145 1.21e-16 75.9
MsaG036947 MtrunA17_Chr8g0377431 38.889 108 64 1 98 205 99 204 2.29e-15 73.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036947 AT1G27370.6 54.839 124 55 1 103 225 126 249 4.96e-38 138
MsaG036947 AT1G27370.1 54.839 124 55 1 103 225 126 249 1.58e-37 138
MsaG036947 AT1G27370.5 54.839 124 55 1 103 225 126 249 1.58e-37 138
MsaG036947 AT1G27370.3 54.839 124 55 1 103 225 126 249 1.58e-37 138
MsaG036947 AT1G27370.2 54.839 124 55 1 103 225 126 249 1.58e-37 138
MsaG036947 AT1G27370.4 54.839 124 55 1 103 225 126 249 1.58e-37 138
MsaG036947 AT1G27370.7 54.839 124 55 1 103 225 126 249 1.58e-37 138
MsaG036947 AT1G27360.2 56.098 123 54 0 103 225 126 248 1.96e-37 137
MsaG036947 AT1G27360.1 56.098 123 54 0 103 225 126 248 1.96e-37 137
MsaG036947 AT1G27360.3 56.098 123 54 0 103 225 126 248 1.96e-37 137
MsaG036947 AT1G27360.4 56.098 123 54 0 103 225 126 248 1.96e-37 137
MsaG036947 AT2G33810.1 69.231 78 24 0 152 229 54 131 2.32e-35 125
MsaG036947 AT5G43270.3 54.615 130 55 3 98 225 115 242 3.14e-35 132
MsaG036947 AT5G43270.1 54.615 130 55 3 98 225 115 242 3.14e-35 132
MsaG036947 AT5G43270.2 54.615 130 55 3 98 225 115 242 3.14e-35 132
MsaG036947 AT3G15270.1 58.491 106 40 1 152 253 63 168 4.86e-35 125
MsaG036947 AT2G42200.1 63.736 91 33 0 149 239 71 161 2.61e-33 126
MsaG036947 AT1G53160.3 70.000 80 24 0 152 231 54 133 2.81e-33 121
MsaG036947 AT1G02065.1 70.513 78 23 0 148 225 184 261 3.03e-33 125
MsaG036947 AT1G53160.2 70.000 80 24 0 152 231 54 133 3.58e-33 120
MsaG036947 AT1G53160.1 70.000 80 24 0 152 231 54 133 3.58e-33 120
MsaG036947 AT3G60030.1 58.654 104 42 1 134 236 108 211 5.54e-33 129
MsaG036947 AT1G69170.1 53.982 113 39 1 113 225 98 197 1.49e-32 125
MsaG036947 AT3G57920.1 51.639 122 43 2 104 225 27 132 1.97e-32 123
MsaG036947 AT5G50570.1 57.303 89 38 0 145 233 94 182 8.00e-31 119
MsaG036947 AT5G50570.2 57.303 89 38 0 145 233 94 182 8.00e-31 119
MsaG036947 AT5G50670.1 57.303 89 38 0 145 233 94 182 8.00e-31 119
MsaG036947 AT5G50670.2 57.303 89 38 0 145 233 94 182 8.00e-31 119
MsaG036947 AT1G76580.3 66.667 81 27 0 151 231 113 193 1.15e-30 122
MsaG036947 AT1G76580.2 66.667 81 27 0 151 231 113 193 1.17e-30 122
MsaG036947 AT1G76580.1 66.667 81 27 0 151 231 113 193 2.21e-30 121
MsaG036947 AT1G20980.1 70.130 77 23 0 152 228 120 196 3.59e-30 121
MsaG036947 AT2G47070.1 69.333 75 23 0 152 226 106 180 1.03e-29 119
MsaG036947 AT5G18830.2 44.211 95 53 0 143 237 129 223 2.08e-19 89.4
MsaG036947 AT5G18830.1 44.211 95 53 0 143 237 129 223 2.10e-19 89.4
MsaG036947 AT5G18830.3 44.211 95 53 0 143 237 129 223 2.16e-19 89.4
MsaG036947 AT1G02065.2 45.794 107 43 4 104 206 149 244 4.59e-19 85.1
MsaG036947 AT2G47070.2 72.549 51 14 0 176 226 1 51 8.90e-18 84.3

Find 101 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTGGTGGTGGTGGGCTGGC+TGG 0.192462 7:-48472618 MsaT036947.1:CDS
GTGGTGGTGGTGGGCTGGCT+GGG 0.252093 7:-48472617 MsaT036947.1:CDS
CATATGTTGTGGAAAATAAT+TGG 0.254106 7:+48468516 None:intergenic
GATGTGAGTGGTGGTGGTGG+TGG 0.270666 7:-48472627 MsaT036947.1:CDS
AAACCCAACACCACAACTTT+TGG 0.295801 7:+48472426 None:intergenic
TGGTGGTGGTGGGCTGGCTG+GGG 0.322295 7:-48472616 MsaT036947.1:CDS
TGTCATCTCGGACTGATTCA+TGG 0.336380 7:-48468696 MsaT036947.1:CDS
ATGTGAGTGGTGGTGGTGGT+GGG 0.341112 7:-48472626 MsaT036947.1:CDS
TGGGAAGACTTCGGCGGTGG+TGG 0.341149 7:-48472559 MsaT036947.1:CDS
CACCTCACATGTTTGAAGTT+GGG 0.387603 7:-48472669 MsaT036947.1:CDS
GGCGGTGGTGGGTGGTTATA+CGG 0.389810 7:-48472547 MsaT036947.1:CDS
GGAGGATATTGTGGTGGTGG+TGG 0.392988 7:-48472579 MsaT036947.1:CDS
AAAAGTTGTGGTGTTGGGTT+TGG 0.400118 7:-48472424 MsaT036947.1:CDS
GTGACAAGGTGTCAGGTGGA+TGG 0.400175 7:-48472522 MsaT036947.1:CDS
TTTGAGGATGTGAGTGGTGG+TGG 0.427873 7:-48472633 MsaT036947.1:CDS
GCACCAAAAGTTGTGGTGTT+GGG 0.429036 7:-48472429 MsaT036947.1:CDS
AGAAAACCGAGCATCGATAA+TGG 0.432077 7:-48468617 MsaT036947.1:CDS
CGTCGCCTTCGTTCTGAGGC+AGG 0.441947 7:+48472754 None:intergenic
AAACATGTGAGGTGTGGATC+AGG 0.445259 7:+48472678 None:intergenic
CGTTATTGCTAGTATTACTT+TGG 0.445973 7:+48472925 None:intergenic
GGGAAGACTTCGGCGGTGGT+GGG 0.446610 7:-48472558 MsaT036947.1:CDS
GAGGATGTGAGTGGTGGTGG+TGG 0.448169 7:-48472630 MsaT036947.1:CDS
CTTTCTCTCTTCTGTCATCT+CGG 0.450629 7:-48468708 MsaT036947.1:CDS
ATACGGTGGAGGTGTGTCTC+GGG 0.452355 7:-48472712 MsaT036947.1:CDS
ACACCTCACATGTTTGAAGT+TGG 0.453165 7:-48472670 MsaT036947.1:CDS
CATGTTTGAAGTTGGGGAAG+AGG 0.460346 7:-48472662 MsaT036947.1:CDS
CATACGGTGGAGGTGTGTCT+CGG 0.463683 7:-48472713 MsaT036947.1:CDS
ATATAAACAAACATGGACTT+TGG 0.464767 7:-48472978 None:intergenic
TAGCTAGACCTGCCTCGTTA+CGG 0.470096 7:+48472790 None:intergenic
AGTTGTAGAAGGAGACTGGC+AGG 0.470576 7:-48469750 MsaT036947.1:CDS
GCCTAGCCATTATCGATGCT+CGG 0.471586 7:+48468611 None:intergenic
GATTCTGTCAACAGTGTAGC+AGG 0.478919 7:-48472395 MsaT036947.1:intron
GGCACCAAAAGTTGTGGTGT+TGG 0.478965 7:-48472430 MsaT036947.1:CDS
GAAAATAATTGGACTCGGAA+TGG 0.482926 7:+48468527 None:intergenic
TACGGCGGTGACAAGGTGTC+AGG 0.483370 7:-48472529 MsaT036947.1:CDS
AATTCCTCCCAACAGAATCA+TGG 0.485519 7:+48469700 None:intergenic
ACCTGCCTCGTTACGGTTGG+CGG 0.491349 7:+48472797 None:intergenic
AAGACTTCGGCGGTGGTGGG+TGG 0.492037 7:-48472555 MsaT036947.1:CDS
TGGTGGGAAGACTTCGGCGG+TGG 0.492165 7:-48472562 MsaT036947.1:CDS
CAAAGTAATACTAGCAATAA+CGG 0.492833 7:-48472924 MsaT036947.1:CDS
ACCTCACATGTTTGAAGTTG+GGG 0.495007 7:-48472668 MsaT036947.1:CDS
GGGCTGGCTGGGGAGAAGAA+AGG 0.498662 7:-48472606 MsaT036947.1:CDS
GCCGCCAACCGTAACGAGGC+AGG 0.504436 7:-48472798 MsaT036947.1:CDS
TGAATGCTAAGGAGTATCAT+AGG 0.506629 7:-48472482 MsaT036947.1:CDS
AAGAAGTTGTAGAAGGAGAC+TGG 0.506657 7:-48469754 MsaT036947.1:CDS
CCATGCCGTGGAAGATTACA+AGG 0.507477 7:-48468554 MsaT036947.1:CDS
GGCTGGCTGGGGAGAAGAAA+GGG 0.509726 7:-48472605 MsaT036947.1:CDS
GGAGTATCATAGGAGACATA+AGG 0.511196 7:-48472472 MsaT036947.1:CDS
GACTGATTCATGGCTTTCAC+CGG 0.514906 7:-48468686 MsaT036947.1:CDS
CGTCCGTCGCCTTCGTTCTG+AGG 0.519896 7:+48472750 None:intergenic
GAGGATATTGTGGTGGTGGT+GGG 0.521993 7:-48472578 MsaT036947.1:CDS
AGAGCTCCCATGATTCTGTT+GGG 0.525869 7:-48469707 MsaT036947.1:CDS
TGACAAGGTGTCAGGTGGAT+GGG 0.531625 7:-48472521 MsaT036947.1:CDS
AAGAGCTCCCATGATTCTGT+TGG 0.535482 7:-48469708 MsaT036947.1:CDS
TAAACAAACATGGACTTTGG+AGG 0.536667 7:-48472975 None:intergenic
GGGGAGAAGAAAGGGAAAGG+AGG 0.540943 7:-48472597 MsaT036947.1:CDS
AAAGGAGGATATTGTGGTGG+TGG 0.543034 7:-48472582 MsaT036947.1:CDS
CATCAAATTCTGACACAACA+TGG 0.543897 7:+48469784 None:intergenic
TGCAACAATCTTACCTTGTG+AGG 0.547389 7:+48469677 None:intergenic
TGGTGGTGGTGGGAAGACTT+CGG 0.549471 7:-48472568 MsaT036947.1:CDS
AAAGGGAAAGGAGGATATTG+TGG 0.551862 7:-48472588 MsaT036947.1:CDS
TGCCTCGTTACGGTTGGCGG+CGG 0.558232 7:+48472800 None:intergenic
ATTCCTCCCAACAGAATCAT+GGG 0.563033 7:+48469701 None:intergenic
CGACAGTATCGGAGTGCATA+CGG 0.565269 7:-48472729 MsaT036947.1:CDS
GATCTCCTTGTAATCTTCCA+CGG 0.568098 7:+48468549 None:intergenic
TTGTGGAAAATAATTGGACT+CGG 0.569226 7:+48468522 None:intergenic
TATCGGAGTGCATACGGTGG+AGG 0.569830 7:-48472723 MsaT036947.1:CDS
AATACGTCTTAGACAGAGAC+TGG 0.570424 7:-48468588 MsaT036947.1:CDS
GTGGTTATACGGCGGTGACA+AGG 0.572879 7:-48472536 MsaT036947.1:CDS
CCTTGTAATCTTCCACGGCA+TGG 0.577549 7:+48468554 None:intergenic
AAACAAACATGGACTTTGGA+GGG 0.586271 7:-48472974 None:intergenic
AGCAATAACGGTAACAGTAA+CGG 0.588128 7:-48472912 MsaT036947.1:CDS
TACGGTGGAGGTGTGTCTCG+GGG 0.588358 7:-48472711 MsaT036947.1:CDS
GGTTTGTGAGATGCATTCAA+AGG 0.590461 7:-48472451 MsaT036947.1:CDS
CGTGGCATTGATGAATGCTA+AGG 0.590898 7:-48472493 MsaT036947.1:CDS
AACTTCAAACATGTGAGGTG+TGG 0.592893 7:+48472672 None:intergenic
CATCTTACAGAGAGGTCAGC+CGG 0.592957 7:+48468667 None:intergenic
TTCAAAGGCACCAAAAGTTG+TGG 0.596745 7:-48472436 MsaT036947.1:CDS
CTCCGCCGCCAACCGTAACG+AGG 0.600437 7:-48472802 MsaT036947.1:CDS
AAGGCGACGGACGACAGTAT+CGG 0.601886 7:-48472740 MsaT036947.1:CDS
AGTAGTGGTAGTACTACTAC+TGG 0.602278 7:-48472876 MsaT036947.1:CDS
GGCGGTGACAAGGTGTCAGG+TGG 0.614891 7:-48472526 MsaT036947.1:CDS
ACCGAGCATCGATAATGGCT+AGG 0.618479 7:-48468612 MsaT036947.1:CDS
GCATTTGCAGCACCATGCCG+TGG 0.620143 7:-48468566 MsaT036947.1:CDS
GTACTACTACTGGTACTGCA+TGG 0.620845 7:-48472866 MsaT036947.1:CDS
TAGACCTGCCTCGTTACGGT+TGG 0.627426 7:+48472794 None:intergenic
AACCATCACTAATGTGTCTG+CGG 0.630280 7:+48468490 None:intergenic
CTGCCTCAGAACGAAGGCGA+CGG 0.639717 7:-48472753 MsaT036947.1:CDS
TCCCCAACTTCAAACATGTG+AGG 0.641757 7:+48472667 None:intergenic
GCTGGGGAGAAGAAAGGGAA+AGG 0.645912 7:-48472600 MsaT036947.1:CDS
GTTGTAGAAGGAGACTGGCA+GGG 0.647920 7:-48469749 MsaT036947.1:CDS
GGGAAAGGAGGATATTGTGG+TGG 0.654744 7:-48472585 MsaT036947.1:CDS
TCAGGTGGATGGGTGTAACG+TGG 0.655827 7:-48472511 MsaT036947.1:CDS
GTTGGGAGGAATTCCTCACA+AGG 0.661568 7:-48469690 MsaT036947.1:intron
ATGTACCTGCCTCAGAACGA+AGG 0.668073 7:-48472759 MsaT036947.1:CDS
GCTCCCATGATTCTGTTGGG+AGG 0.673767 7:-48469704 MsaT036947.1:CDS
GTCTGCGGAAACATATGTTG+TGG 0.684762 7:+48468505 None:intergenic
TGGTGGTGGGAAGACTTCGG+CGG 0.698724 7:-48472565 MsaT036947.1:CDS
CAGCACTGCATCTTACAGAG+AGG 0.726579 7:+48468659 None:intergenic
CAGTATCGGAGTGCATACGG+TGG 0.746660 7:-48472726 MsaT036947.1:CDS
GGTGGTGGGTGGTTATACGG+CGG 0.751778 7:-48472544 MsaT036947.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 48468498 48472988 48468498 ID=MsaG036947
Chr7 mRNA 48468498 48472988 48468498 ID=MsaT036947.1;Parent=MsaG036947
Chr7 exon 48468498 48468739 48468498 ID=MsaT036947.1.exon3;Parent=MsaT036947.1
Chr7 CDS 48468498 48468739 48468498 ID=cds.MsaT036947.1;Parent=MsaT036947.1
Chr7 exon 48469691 48469809 48469691 ID=MsaT036947.1.exon2;Parent=MsaT036947.1
Chr7 CDS 48469691 48469809 48469691 ID=cds.MsaT036947.1;Parent=MsaT036947.1
Chr7 exon 48472396 48472988 48472396 ID=MsaT036947.1.exon1;Parent=MsaT036947.1
Chr7 CDS 48472396 48472988 48472396 ID=cds.MsaT036947.1;Parent=MsaT036947.1
Gene Sequence

>MsaT036947.1

ATGGACTTTGGAGGGAACATGTTCTGTCTCAACAACAGAGACCAAAGTAATACTAGCAATAACGGTAACAGTAACGGTTTTACTTGGTGTAGTAGTGGTAGTACTACTACTGGTACTGCATGGAACATGAATACTTTTAATGTTAATGAGGAAAACAATTCAGTCTCCGCCGCCAACCGTAACGAGGCAGGTCTAGCTAACGCGCTTATGTACCTGCCTCAGAACGAAGGCGACGGACGACAGTATCGGAGTGCATACGGTGGAGGTGTGTCTCGGGGTCATATGATGCCTGATCCACACCTCACATGTTTGAAGTTGGGGAAGAGGCATTATTTTGAGGATGTGAGTGGTGGTGGTGGTGGGCTGGCTGGGGAGAAGAAAGGGAAAGGAGGATATTGTGGTGGTGGTGGGAAGACTTCGGCGGTGGTGGGTGGTTATACGGCGGTGACAAGGTGTCAGGTGGATGGGTGTAACGTGGCATTGATGAATGCTAAGGAGTATCATAGGAGACATAAGGTTTGTGAGATGCATTCAAAGGCACCAAAAGTTGTGGTGTTGGGTTTGGAGCAAAGATTCTGTCAACAGTGTAGCAGGTTCCATGTTGTGTCAGAATTTGATGATTCAAAAAGAAGTTGTAGAAGGAGACTGGCAGGGCACAATGAGAGAAGAAGAAAGAGCTCCCATGATTCTGTTGGGAGGAATTCCTCACAAGGTGGGTGTGCTTTCTCTCTTCTGTCATCTCGGACTGATTCATGGCTTTCACCGGCTGACCTCTCTGTAAGATGCAGTGCTGCATTAAGCGAATTGATAGCAGAAAACCGAGCATCGATAATGGCTAGGCAATACGTCTTAGACAGAGACTGGCATTTGCAGCACCATGCCGTGGAAGATTACAAGGAGATCCATTCCGAGTCCAATTATTTTCCACAACATATGTTTCCGCAGACACATTAG
Protein sequence

>MsaT036947.1

MDFGGNMFCLNNRDQSNTSNNGNSNGFTWCSSGSTTTGTAWNMNTFNVNEENNSVSAANRNEAGLANALMYLPQNEGDGRQYRSAYGGGVSRGHMMPDPHLTCLKLGKRHYFEDVSGGGGGLAGEKKGKGGYCGGGGKTSAVVGGYTAVTRCQVDGCNVALMNAKEYHRRHKVCEMHSKAPKVVVLGLEQRFCQQCSRFHVVSEFDDSKRSCRRRLAGHNERRRKSSHDSVGRNSSQGGCAFSLLSSRTDSWLSPADLSVRCSAALSELIAENRASIMARQYVLDRDWHLQHHAVEDYKEIHSESNYFPQHMFPQTH*