AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043090

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043090 MtrunA17_Chr8g0360361 98.333 180 3 0 1 180 1 180 5.37e-131 364
MsaG043090 MtrunA17_Chr4g0046991 69.231 91 28 0 56 146 64 154 4.44e-43 140
MsaG043090 MtrunA17_Chr7g0270541 51.974 152 54 2 15 154 90 234 1.53e-38 139
MsaG043090 MtrunA17_Chr3g0122411 70.732 82 24 0 63 144 163 244 9.25e-38 134
MsaG043090 MtrunA17_Chr7g0258471 68.889 90 25 1 57 143 131 220 1.27e-37 133
MsaG043090 MtrunA17_Chr2g0282521 66.279 86 29 0 57 142 56 141 4.05e-37 125
MsaG043090 MtrunA17_Chr8g0334671 72.941 85 23 0 55 139 177 261 4.44e-37 130
MsaG043090 MtrunA17_Chr1g0194121 63.810 105 38 0 50 154 132 236 1.47e-36 134
MsaG043090 MtrunA17_Chr7g0231911 65.591 93 32 0 57 149 141 233 3.70e-36 127
MsaG043090 MtrunA17_Chr1g0162871 60.784 102 40 0 53 154 92 193 3.88e-34 127
MsaG043090 MtrunA17_Chr2g0302791 71.250 80 23 0 65 144 139 218 1.66e-33 125
MsaG043090 MtrunA17_Chr3g0132091 65.385 78 27 0 65 142 73 150 3.13e-32 118
MsaG043090 MtrunA17_Chr7g0224821 63.291 79 29 0 65 143 77 155 3.98e-32 118
MsaG043090 MtrunA17_Chr4g0061651 65.476 84 28 1 65 147 123 206 5.22e-32 119
MsaG043090 MtrunA17_Chr8g0377401 65.789 76 26 0 62 137 159 234 3.56e-31 113
MsaG043090 MtrunA17_Chr5g0420051 67.105 76 25 0 63 138 179 254 3.95e-31 116
MsaG043090 MtrunA17_Chr8g0386271 57.292 96 41 0 54 149 88 183 5.37e-31 115
MsaG043090 MtrunA17_Chr8g0377421 57.955 88 37 0 62 149 129 216 1.29e-30 113
MsaG043090 MtrunA17_Chr2g0308321 68.919 74 23 0 65 138 171 244 3.73e-30 115
MsaG043090 MtrunA17_Chr2g0317041 72.857 70 16 2 45 111 76 145 1.13e-26 99.0
MsaG043090 MtrunA17_Chr2g0286661 42.857 98 56 0 65 162 103 200 7.06e-20 86.3
MsaG043090 MtrunA17_Chr1g0175031 68.000 50 16 0 62 111 71 120 1.88e-17 74.7
MsaG043090 MtrunA17_Chr2g0317031 55.072 69 29 1 112 180 9 75 3.41e-16 69.7
MsaG043090 MtrunA17_Chr8g0377431 55.172 58 26 0 63 120 149 206 1.76e-15 71.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043090 AT3G15270.1 48.913 184 87 5 1 180 1 181 9.14e-43 141
MsaG043090 AT3G60030.1 49.682 157 73 2 1 154 63 216 5.81e-40 144
MsaG043090 AT1G53160.2 55.118 127 52 2 59 180 48 174 2.02e-39 132
MsaG043090 AT1G53160.1 55.118 127 52 2 59 180 48 174 2.02e-39 132
MsaG043090 AT2G33810.1 66.667 87 29 0 56 142 45 131 7.98e-39 129
MsaG043090 AT1G53160.3 69.231 91 27 1 59 148 48 138 1.09e-38 130
MsaG043090 AT1G02065.1 61.111 108 41 1 52 159 175 281 5.66e-37 130
MsaG043090 AT2G47070.1 50.000 142 66 2 33 173 78 215 3.24e-36 133
MsaG043090 AT2G42200.1 70.370 81 24 0 63 143 72 152 3.04e-34 124
MsaG043090 AT1G69170.1 71.053 76 22 0 63 138 122 197 4.90e-33 121
MsaG043090 AT1G20980.1 56.034 116 49 2 54 168 109 223 8.85e-33 123
MsaG043090 AT5G43270.3 64.706 85 30 0 63 147 167 251 3.02e-32 120
MsaG043090 AT5G43270.1 64.706 85 30 0 63 147 167 251 3.02e-32 120
MsaG043090 AT5G43270.2 64.706 85 30 0 63 147 167 251 3.02e-32 120
MsaG043090 AT1G76580.2 69.136 81 25 0 63 143 112 192 1.25e-31 120
MsaG043090 AT5G50570.1 62.500 80 30 0 63 142 99 178 1.28e-31 117
MsaG043090 AT5G50570.2 62.500 80 30 0 63 142 99 178 1.28e-31 117
MsaG043090 AT5G50670.1 62.500 80 30 0 63 142 99 178 1.28e-31 117
MsaG043090 AT5G50670.2 62.500 80 30 0 63 142 99 178 1.28e-31 117
MsaG043090 AT1G76580.3 69.136 81 25 0 63 143 112 192 1.36e-31 120
MsaG043090 AT1G76580.1 69.136 81 25 0 63 143 112 192 2.29e-31 119
MsaG043090 AT3G57920.1 62.500 88 33 0 65 152 59 146 4.18e-31 115
MsaG043090 AT1G27370.6 62.195 82 31 0 57 138 168 249 7.08e-30 112
MsaG043090 AT1G27360.2 57.000 100 37 1 49 142 159 258 1.16e-29 112
MsaG043090 AT1G27360.1 57.000 100 37 1 49 142 159 258 1.16e-29 112
MsaG043090 AT1G27360.3 57.000 100 37 1 49 142 159 258 1.16e-29 112
MsaG043090 AT1G27360.4 57.000 100 37 1 49 142 159 258 1.16e-29 112
MsaG043090 AT1G27370.1 62.195 82 31 0 57 138 168 249 2.13e-29 112
MsaG043090 AT1G27370.5 62.195 82 31 0 57 138 168 249 2.13e-29 112
MsaG043090 AT1G27370.3 62.195 82 31 0 57 138 168 249 2.13e-29 112
MsaG043090 AT1G27370.2 62.195 82 31 0 57 138 168 249 2.13e-29 112
MsaG043090 AT1G27370.4 62.195 82 31 0 57 138 168 249 2.13e-29 112
MsaG043090 AT1G27370.7 62.195 82 31 0 57 138 168 249 2.13e-29 112
MsaG043090 AT1G02065.2 70.492 61 18 0 52 112 175 235 8.65e-24 94.4
MsaG043090 AT2G47070.2 72.881 59 16 0 90 148 2 60 2.85e-23 96.3
MsaG043090 AT5G18830.3 42.017 119 62 2 20 138 100 211 1.65e-20 88.6
MsaG043090 AT5G18830.1 42.017 119 62 2 20 138 100 211 1.88e-20 88.2
MsaG043090 AT5G18830.2 42.017 119 62 2 20 138 100 211 2.02e-20 88.2

Find 66 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGAAACTCGCACACTTTA+TGG 0.154731 8:+35309090 None:intergenic
CTTCCCTCATTGGCAGCTTC+CGG 0.190285 8:+35308362 None:intergenic
TTCCCTCATTGGCAGCTTCC+GGG 0.279455 8:+35308363 None:intergenic
GGGGTTGGTGGCGGGAGAAG+AGG 0.324301 8:-35309197 MsaT043090.1:CDS
GCTGTGACTGCTTCCCTCAT+TGG 0.328447 8:+35308352 None:intergenic
ATGAACTTACCAGGCAGTTC+TGG 0.332336 8:-35308287 MsaT043090.1:CDS
GCACCCGTTGTGGTGGTTGC+AGG 0.348317 8:-35309062 MsaT043090.1:CDS
AGAAGAAAGGGGTTGGTGGC+GGG 0.365879 8:-35309205 MsaT043090.1:CDS
GTTGGTGGCGGGAGAAGAGG+AGG 0.385258 8:-35309194 MsaT043090.1:CDS
AAGAAGAAAGGGGTTGGTGG+CGG 0.389287 8:-35309206 MsaT043090.1:CDS
AGCTGCCGCAGGCGGTTGGC+TGG 0.389734 8:-35308413 MsaT043090.1:CDS
CTGAAGAAGAGAAGAAGAAA+GGG 0.392986 8:-35309217 MsaT043090.1:CDS
TTAGCTTCATCTAATGTTGA+AGG 0.400420 8:+35308256 None:intergenic
CAACATGGTGGAAGAAGAAA+TGG 0.403464 8:-35309279 MsaT043090.1:CDS
AGCCCTGCAACCACCACAAC+GGG 0.406005 8:+35309059 None:intergenic
TGGTTGCAGGGCTGAGGCAG+AGG 0.413422 8:-35309049 MsaT043090.1:CDS
GGCGGGAGAAGAGGAGGTGG+TGG 0.439561 8:-35309188 MsaT043090.1:CDS
ATCCTGCATTGAGTTTCCTT+AGG 0.443576 8:+35308314 None:intergenic
AAATGAAGTAGAAGAGGAGG+AGG 0.457054 8:-35309255 MsaT043090.1:CDS
GGGAGAAGAGGAGGTGGTGG+CGG 0.468248 8:-35309185 MsaT043090.1:CDS
GAGAAGAAGAAAGGGGTTGG+TGG 0.470818 8:-35309209 MsaT043090.1:CDS
CTCATTGGCAGCTTCCGGGT+TGG 0.474954 8:+35308367 None:intergenic
AACCACCACAACGGGTGCCT+TGG 0.478730 8:+35309067 None:intergenic
CGCACACTTTATGGCGGCGA+TGG 0.480858 8:+35309099 None:intergenic
CACCTCTCTGCTTGGCAACA+AGG 0.490126 8:+35309152 None:intergenic
GGTGGCGGGAGAAGAGGAGG+TGG 0.492712 8:-35309191 MsaT043090.1:CDS
CCGCTCCACACCTCTCTGCT+TGG 0.493345 8:+35309144 None:intergenic
GAGGTGTGGAGCGGATTTGA+CGG 0.501356 8:-35309135 MsaT043090.1:CDS
AATGGAAAATGAAGTAGAAG+AGG 0.504373 8:-35309261 MsaT043090.1:CDS
ACTGAAGAAGAGAAGAAGAA+AGG 0.514644 8:-35309218 MsaT043090.1:CDS
AAGAAGCTGCCGCAGGCGGT+TGG 0.518296 8:-35308417 MsaT043090.1:CDS
GAAGAGAAGAAGAAAGGGGT+TGG 0.521760 8:-35309212 MsaT043090.1:CDS
GGAAAATGAAGTAGAAGAGG+AGG 0.522072 8:-35309258 MsaT043090.1:CDS
GAGGAAGAGAACATTGATGA+TGG 0.526926 8:-35309318 MsaT043090.1:CDS
TTGTGGTGGTTGCAGGGCTG+AGG 0.534426 8:-35309055 MsaT043090.1:CDS
GCTGTGCAGGTTCCATGACT+TGG 0.541073 8:-35308459 MsaT043090.1:intron
CACCCGTTGTGGTGGTTGCA+GGG 0.543935 8:-35309061 MsaT043090.1:CDS
TTCCAAGGCACCCGTTGTGG+TGG 0.545459 8:-35309069 MsaT043090.1:CDS
TCATTCCAAGGCACCCGTTG+TGG 0.554790 8:-35309072 MsaT043090.1:CDS
CTCACAAAACAATGGAAGCT+AGG 0.561345 8:-35309349 None:intergenic
AACCCGGAAGCTGCCAATGA+GGG 0.564949 8:-35308365 MsaT043090.1:CDS
GACTTATAACCAGAACTGCC+TGG 0.566906 8:+35308278 None:intergenic
CAACCCGGAAGCTGCCAATG+AGG 0.568620 8:-35308366 MsaT043090.1:CDS
CATCAAACTCTACCAAGTCA+TGG 0.569400 8:+35308447 None:intergenic
AACCTAAGGAAACTCAATGC+AGG 0.572114 8:-35308316 MsaT043090.1:CDS
CTGGACACAATGAACGGCGC+CGG 0.573671 8:-35308394 MsaT043090.1:CDS
TGTGTCCAGCCAACCGCCTG+CGG 0.577001 8:+35308408 None:intergenic
AGTGTGCGAGTTTCATTCCA+AGG 0.582628 8:-35309084 MsaT043090.1:CDS
TGAAGAAGAGAAGAAGAAAG+GGG 0.585538 8:-35309216 MsaT043090.1:CDS
AGTCTAAAAGAAGCTGCCGC+AGG 0.602245 8:-35308424 MsaT043090.1:CDS
ACGGCGCCGGAAAACCAACC+CGG 0.609142 8:-35308381 MsaT043090.1:CDS
CAAAGGACAACATCAACCTA+AGG 0.609316 8:-35308330 MsaT043090.1:CDS
AATGAAGTAGAAGAGGAGGA+GGG 0.609345 8:-35309254 MsaT043090.1:CDS
AGGATTCAGATGAACTTACC+AGG 0.609388 8:-35308296 MsaT043090.1:CDS
CTAAAAGAAGCTGCCGCAGG+CGG 0.624624 8:-35308421 MsaT043090.1:CDS
TGTTGCCAAGCAGAGAGGTG+TGG 0.631386 8:-35309149 MsaT043090.1:CDS
GAGGGAAGCAGTCACAGCAA+AGG 0.634063 8:-35308347 MsaT043090.1:CDS
CAGCCCTGCAACCACCACAA+CGG 0.634176 8:+35309058 None:intergenic
CACCTTGTTGCCAAGCAGAG+AGG 0.641872 8:-35309154 MsaT043090.1:CDS
GGTTGGCTGGACACAATGAA+CGG 0.643542 8:-35308400 MsaT043090.1:CDS
CTCTCTGCTTGGCAACAAGG+TGG 0.645735 8:+35309155 None:intergenic
CCAAGCAGAGAGGTGTGGAG+CGG 0.655389 8:-35309144 MsaT043090.1:CDS
TGGAAGCTAGGAGTATTGAG+AGG 0.681882 8:-35309337 MsaT043090.1:CDS
GATGAGAAAGAACAACATGG+TGG 0.704351 8:-35309291 MsaT043090.1:CDS
GAAACTCGCACACTTTATGG+CGG 0.713336 8:+35309093 None:intergenic
AAAGATGAGAAAGAACAACA+TGG 0.748027 8:-35309294 MsaT043090.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 35308262 35309360 35308262 ID=MsaG043090
Chr8 mRNA 35308262 35309360 35308262 ID=MsaT043090.1;Parent=MsaG043090
Chr8 exon 35308262 35308472 35308262 ID=MsaT043090.1.exon2;Parent=MsaT043090.1
Chr8 CDS 35308262 35308472 35308262 ID=cds.MsaT043090.1;Parent=MsaT043090.1
Chr8 exon 35309029 35309360 35309029 ID=MsaT043090.1.exon1;Parent=MsaT043090.1
Chr8 CDS 35309029 35309360 35309029 ID=cds.MsaT043090.1;Parent=MsaT043090.1
Gene Sequence

>MsaT043090.1

ATGGAAGCTAGGAGTATTGAGAGGAAGAGAACATTGATGATGGAAAAGATGAGAAAGAACAACATGGTGGAAGAAGAAATGGAAAATGAAGTAGAAGAGGAGGAGGGTGATGTTAGTCTGACTGAAGAAGAGAAGAAGAAAGGGGTTGGTGGCGGGAGAAGAGGAGGTGGTGGCGGTGTTTCTCCACCTTGTTGCCAAGCAGAGAGGTGTGGAGCGGATTTGACGGATGCAAAGAGATACCATCGCCGCCATAAAGTGTGCGAGTTTCATTCCAAGGCACCCGTTGTGGTGGTTGCAGGGCTGAGGCAGAGGTTTTGTCAACAATGTAGCAGGTTCCATGACTTGGTAGAGTTTGATGAGTCTAAAAGAAGCTGCCGCAGGCGGTTGGCTGGACACAATGAACGGCGCCGGAAAACCAACCCGGAAGCTGCCAATGAGGGAAGCAGTCACAGCAAAGGACAACATCAACCTAAGGAAACTCAATGCAGGATTCAGATGAACTTACCAGGCAGTTCTGGTTATAAGTCCTTCAACATTAGATGA
Protein sequence

>MsaT043090.1

MEARSIERKRTLMMEKMRKNNMVEEEMENEVEEEEGDVSLTEEEKKKGVGGGRRGGGGGVSPPCCQAERCGADLTDAKRYHRRHKVCEFHSKAPVVVVAGLRQRFCQQCSRFHDLVEFDESKRSCRRRLAGHNERRRKTNPEAANEGSSHSKGQHQPKETQCRIQMNLPGSSGYKSFNIR*