AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG030865

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030865 MtrunA17_Chr4g0050701 29.412 187 107 8 4 176 11 186 4.09e-16 73.9
MsaG030865 MtrunA17_Chr5g0417791 30.000 160 86 6 4 146 3 153 4.90e-15 72.0
MsaG030865 MtrunA17_Chr7g0266701 29.143 175 99 8 1 153 1 172 5.12e-15 72.0
MsaG030865 MtrunA17_Chr4g0056541 32.468 154 87 5 4 146 7 154 5.58e-15 73.2
MsaG030865 MtrunA17_Chr8g0345731 30.968 155 93 5 2 145 22 173 7.12e-15 70.1
MsaG030865 MtrunA17_Chr2g0326361 31.447 159 85 5 4 145 14 165 9.10e-15 72.0
MsaG030865 MtrunA17_Chr2g0318101 30.488 164 93 5 4 161 15 163 1.20e-14 72.0
MsaG030865 MtrunA17_Chr4g0047841 33.835 133 75 4 4 130 15 140 3.08e-14 70.9
MsaG030865 MtrunA17_Chr7g0263931 31.214 173 92 7 4 156 11 176 4.83e-14 70.1
MsaG030865 MtrunA17_Chr8g0359921 31.447 159 83 7 4 146 14 162 5.00e-14 70.1
MsaG030865 MtrunA17_Chr8g0372121 32.468 154 87 5 4 146 6 153 7.89e-14 69.3
MsaG030865 MtrunA17_Chr2g0318081 31.210 157 84 7 4 146 16 162 1.30e-13 68.9
MsaG030865 MtrunA17_Chr8g0345691 30.380 158 87 7 1 145 9 156 1.52e-12 66.2
MsaG030865 MtrunA17_Chr7g0252971 27.381 168 89 7 4 146 8 167 5.19e-12 64.3
MsaG030865 MtrunA17_Chr1g0197351 32.716 162 83 6 4 146 42 196 5.27e-12 64.7
MsaG030865 MtrunA17_Chr1g0183741 31.169 154 86 8 4 146 10 154 6.08e-12 63.5
MsaG030865 MtrunA17_Chr3g0124761 29.375 160 87 7 4 147 7 156 6.26e-12 63.9
MsaG030865 MtrunA17_Chr7g0261411 32.468 154 84 8 4 146 10 154 6.78e-12 63.5
MsaG030865 MtrunA17_Chr2g0309331 29.936 157 88 6 4 146 10 158 8.64e-12 63.9
MsaG030865 MtrunA17_Chr1g0201021 33.333 132 75 5 6 131 21 145 9.73e-12 63.9
MsaG030865 MtrunA17_Chr3g0128151 26.984 189 103 10 1 170 19 191 1.01e-11 63.9
MsaG030865 MtrunA17_Chr4g0076731 33.577 137 73 7 2 130 52 178 1.17e-11 63.5
MsaG030865 MtrunA17_Chr8g0345711 29.286 140 84 5 2 133 10 142 1.25e-11 61.2
MsaG030865 MtrunA17_Chr8g0384351 29.697 165 94 7 4 165 10 155 1.27e-11 61.6
MsaG030865 MtrunA17_Chr4g0026141 29.878 164 90 8 2 146 3 160 2.83e-11 61.6
MsaG030865 MtrunA17_Chr8g0345671 28.947 152 91 6 4 145 11 155 3.10e-11 62.4
MsaG030865 MtrunA17_Chr6g0484441 30.519 154 87 6 4 146 5 149 3.47e-11 62.0
MsaG030865 MtrunA17_Chr4g0054791 33.333 135 76 7 4 130 6 134 7.49e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030865 AT2G24430.2 34.395 157 84 6 2 146 14 163 7.24e-16 75.5
MsaG030865 AT2G24430.1 34.395 157 84 6 2 146 14 163 7.24e-16 75.5
MsaG030865 AT5G08790.1 28.230 209 109 8 4 181 7 205 4.48e-14 70.1
MsaG030865 AT4G27410.3 30.114 176 88 8 4 151 14 182 4.71e-14 70.5
MsaG030865 AT1G26870.1 31.613 155 91 5 2 149 14 160 1.55e-13 69.7
MsaG030865 AT1G54330.1 30.719 153 89 6 4 146 6 151 2.21e-13 68.6
MsaG030865 AT5G63790.2 30.864 162 84 7 4 147 60 211 5.06e-13 67.8
MsaG030865 AT5G63790.1 30.864 162 84 7 4 147 50 201 5.14e-13 67.4
MsaG030865 AT3G44290.1 27.778 144 94 4 6 145 16 153 5.80e-13 67.4
MsaG030865 AT3G44290.2 27.778 144 94 4 6 145 16 153 6.05e-13 66.2
MsaG030865 AT4G17980.1 31.013 158 87 6 4 145 6 157 7.75e-13 66.6
MsaG030865 AT1G65910.1 30.128 156 89 6 4 146 6 154 8.08e-13 67.8
MsaG030865 AT5G04395.1 32.237 152 82 6 4 138 28 175 1.09e-12 64.7
MsaG030865 AT4G17980.2 30.818 159 88 6 3 145 5 157 1.25e-12 66.2
MsaG030865 AT2G02450.1 31.953 169 94 7 6 162 53 212 1.28e-12 66.6
MsaG030865 AT2G02450.2 31.395 172 97 7 3 162 50 212 1.70e-12 66.6
MsaG030865 AT5G39610.1 31.013 158 85 7 4 146 20 168 1.82e-12 65.9
MsaG030865 AT5G64530.1 28.866 194 104 7 4 176 3 183 2.14e-12 63.9
MsaG030865 AT5G22290.1 29.655 145 91 5 6 145 23 161 2.19e-12 65.9
MsaG030865 AT3G49530.1 28.834 163 89 9 1 146 10 162 3.79e-12 65.5
MsaG030865 AT3G49530.2 28.834 163 89 9 1 146 10 162 4.46e-12 65.1
MsaG030865 AT2G43000.1 30.968 155 84 8 6 146 20 165 5.15e-12 64.3
MsaG030865 AT5G46590.1 31.210 157 86 7 4 145 6 155 1.02e-11 63.5
MsaG030865 AT3G29035.1 32.331 133 75 5 4 130 24 147 1.05e-11 63.9
MsaG030865 AT3G15510.1 30.303 132 79 4 10 135 23 147 1.06e-11 63.9
MsaG030865 AT4G35580.1 28.395 162 96 7 1 149 6 160 1.29e-11 63.9
MsaG030865 AT3G18400.1 31.410 156 86 8 4 147 5 151 1.58e-11 63.2
MsaG030865 AT5G13180.1 29.139 151 93 5 4 146 14 158 1.65e-11 62.8
MsaG030865 AT5G50820.1 34.351 131 71 5 4 130 17 136 1.86e-11 61.6
MsaG030865 AT3G10500.1 31.410 156 87 6 4 146 9 157 3.38e-11 62.8
MsaG030865 AT5G39820.1 32.353 136 77 4 2 130 18 145 6.18e-11 61.6

Find 59 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGGATATGGACTCTGAATT+TGG 0.191632 6:-15478092 MsaT030865.1:CDS
GGCATTGTAAGACTGGATTT+TGG 0.240614 6:-15478420 MsaT030865.1:CDS
CCATGGTTCTGACCTGATTA+AGG 0.246294 6:-15478554 MsaT030865.1:CDS
TGAAGGAACTCAAAACTTAA+AGG 0.268346 6:-15478009 MsaT030865.1:CDS
CCTCCTCGGCTCATCAGTTT+TGG 0.286371 6:+15478441 None:intergenic
CTGCCCGAGAGGGATGGATA+TGG 0.358342 6:-15478105 MsaT030865.1:CDS
GAAGGAACTCAAAACTTAAA+GGG 0.389904 6:-15478008 MsaT030865.1:CDS
ACTCAAAACTTAAAGGGGTT+GGG 0.396296 6:-15478002 MsaT030865.1:CDS
TGGATGCAGAAGGGAGTTGC+CGG 0.400199 6:-15478400 MsaT030865.1:CDS
GCAATTCAAACGGATCATAT+TGG 0.403266 6:+15478518 None:intergenic
GATTTGCTTCCACCTGGTGC+TGG 0.403266 6:-15478649 MsaT030865.1:CDS
CCTTGTGTGAGGGAACAAAA+AGG 0.407725 6:+15478483 None:intergenic
ACAGTCGCAGCTCCTTAATC+AGG 0.424695 6:+15478542 None:intergenic
TGGATATGGACTCTGAATTT+GGG 0.437102 6:-15478091 MsaT030865.1:CDS
AACTCAAAACTTAAAGGGGT+TGG 0.440825 6:-15478003 MsaT030865.1:CDS
AAGACACGGCAAACAACAAA+AGG 0.468267 6:+15478131 None:intergenic
CTCAAAACTTAAAGGGGTTG+GGG 0.473201 6:-15478001 MsaT030865.1:CDS
GTTGCCGGAGATATTATTGT+TGG 0.478019 6:-15478385 MsaT030865.1:CDS
CCGAGGAGGCATTGTAAGAC+TGG 0.478926 6:-15478427 MsaT030865.1:CDS
TGTTGGAGCTGATGATGTGT+TGG 0.484498 6:-15478368 MsaT030865.1:CDS
TGACTATGTTGTCTCCTACA+TGG 0.488176 6:-15477178 MsaT030865.1:CDS
GCTAGTTCTAGTGCTGGTGC+TGG 0.493321 6:-15477979 MsaT030865.1:CDS
AGCTCCAACAATAATATCTC+CGG 0.494190 6:+15478381 None:intergenic
TGGAGCTGATGATGTGTTGG+TGG 0.508683 6:-15478365 MsaT030865.1:CDS
GCTGGTGCTGGTGCTGAGAA+AGG 0.512599 6:-15477967 MsaT030865.1:intron
GTTGGGGCTAGTTCTAGTGC+TGG 0.513052 6:-15477985 MsaT030865.1:CDS
AGAACGCAATCAAAACTAGT+TGG 0.520035 6:-15478300 MsaT030865.1:CDS
GAAGAGGTTCAGAATTTCCA+TGG 0.526667 6:-15478571 MsaT030865.1:CDS
TCTGATGACAAGGCGAATGA+AGG 0.528665 6:-15478026 MsaT030865.1:CDS
GCAATGGATTTGCTTCCACC+TGG 0.532019 6:-15478655 MsaT030865.1:CDS
CCAGTCTTACAATGCCTCCT+CGG 0.543084 6:+15478427 None:intergenic
GAAGGGACGAAGCCAGCACC+AGG 0.543610 6:+15478637 None:intergenic
AGTCCATATCCATCCCTCTC+GGG 0.545419 6:+15478102 None:intergenic
CTACATGGAAACTATGATGC+CGG 0.546460 6:-15477163 MsaT030865.1:CDS
CTTTGACTGCCCGAGAGGGA+TGG 0.547673 6:-15478111 MsaT030865.1:CDS
ACCGTCATCGACATCAGATA+AGG 0.555984 6:+15478067 None:intergenic
AGTGCATGCTTAAGTTGCTC+CGG 0.556054 6:+15477144 None:intergenic
GTCGATGACGGTAAAGCTGC+TGG 0.560518 6:-15478056 MsaT030865.1:CDS
TGAGCAAGATGCAATTCAAA+CGG 0.561766 6:+15478508 None:intergenic
CAGTAAAACTCCCTTGTGTG+AGG 0.577220 6:+15478472 None:intergenic
CACTCAGGTTAACAACCCTC+AGG 0.577476 6:-15478263 MsaT030865.1:intron
TAACAAGGAGTTCGTCAGAA+GGG 0.582203 6:+15478620 None:intergenic
GAGTCCATATCCATCCCTCT+CGG 0.585457 6:+15478101 None:intergenic
TCCTTATCTGATGTCGATGA+CGG 0.589354 6:-15478068 MsaT030865.1:CDS
CGTGTCTTTGACTGCCCGAG+AGG 0.594003 6:-15478116 MsaT030865.1:CDS
CGGCATCATAGTTTCCATGT+AGG 0.599293 6:+15477164 None:intergenic
GGAGCTGATGATGTGTTGGT+GGG 0.610668 6:-15478364 MsaT030865.1:CDS
AGTAAAACTCCCTTGTGTGA+GGG 0.618109 6:+15478473 None:intergenic
GTGTCTTTGACTGCCCGAGA+GGG 0.620408 6:-15478115 MsaT030865.1:CDS
CTCTCGGGCAGTCAAAGACA+CGG 0.620690 6:+15478117 None:intergenic
AAGGAACTCAAAACTTAAAG+GGG 0.622436 6:-15478007 MsaT030865.1:CDS
CCTTAATCAGGTCAGAACCA+TGG 0.626777 6:+15478554 None:intergenic
TGGCAAGGTAGTAGCTAACA+AGG 0.628366 6:+15478605 None:intergenic
CCAAAACTGATGAGCCGAGG+AGG 0.639982 6:-15478441 MsaT030865.1:CDS
GGGACGAAGCCAGCACCAGG+TGG 0.645386 6:+15478640 None:intergenic
CTAACAAGGAGTTCGTCAGA+AGG 0.653784 6:+15478619 None:intergenic
TGGTGACGACTCTGATGACA+AGG 0.654982 6:-15478036 MsaT030865.1:CDS
CTGCCAAAACTGATGAGCCG+AGG 0.655541 6:-15478444 MsaT030865.1:CDS
GACTATGTACGAATACACTC+AGG 0.677311 6:-15478278 MsaT030865.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 15477122 15478674 15477122 ID=MsaG030865
Chr6 mRNA 15477122 15478674 15477122 ID=MsaT030865.1;Parent=MsaG030865
Chr6 exon 15477122 15477220 15477122 ID=MsaT030865.1.exon3;Parent=MsaT030865.1
Chr6 CDS 15477122 15477220 15477122 ID=cds.MsaT030865.1;Parent=MsaT030865.1
Chr6 exon 15477968 15478156 15477968 ID=MsaT030865.1.exon2;Parent=MsaT030865.1
Chr6 CDS 15477968 15478156 15477968 ID=cds.MsaT030865.1;Parent=MsaT030865.1
Chr6 exon 15478264 15478674 15478264 ID=MsaT030865.1.exon1;Parent=MsaT030865.1
Chr6 CDS 15478264 15478674 15478264 ID=cds.MsaT030865.1;Parent=MsaT030865.1
Gene Sequence

>MsaT030865.1

ATGGATTTGCTTCCACCTGGTGCTGGCTTCGTCCCTTCTGACGAACTCCTTGTTAGCTACTACCTTGCCAACAAAAACAATGAAGAGGTTCAGAATTTCCATGGTTCTGACCTGATTAAGGAGCTGCGACTGTACCAATATGATCCGTTTGAATTGCATCTTGCTCAGTCCTTTTTGTTCCCTCACACAAGGGAGTTTTACTGCTTCACTGCCAAAACTGATGAGCCGAGGAGGCATTGTAAGACTGGATTTTGGATGCAGAAGGGAGTTGCCGGAGATATTATTGTTGGAGCTGATGATGTGTTGGTGGGAAAGAAGTCTCTCTTCTTTTTCTATATAGGAAATTCCCCTCAGAACGCAATCAAAACTAGTTGGACTATGTACGAATACACTCAGGTTAACAACCCTCAGGCTCCTTTTGTTGTTTGCCGTGTCTTTGACTGCCCGAGAGGGATGGATATGGACTCTGAATTTGGGTCCTTATCTGATGTCGATGACGGTAAAGCTGCTGGTGACGACTCTGATGACAAGGCGAATGAAGGAACTCAAAACTTAAAGGGGTTGGGGCTAGTTCTAGTGCTGGTGCTGGTGCTGAGAAAGGCGAGTTATACTGCATTTCTTGACTATGTTGTCTCCTACATGGAAACTATGATGCCGGAGCAACTTAAGCATGCACTTCTAGATGAAGATTTTATTTAA
Protein sequence

>MsaT030865.1

MDLLPPGAGFVPSDELLVSYYLANKNNEEVQNFHGSDLIKELRLYQYDPFELHLAQSFLFPHTREFYCFTAKTDEPRRHCKTGFWMQKGVAGDIIVGADDVLVGKKSLFFFYIGNSPQNAIKTSWTMYEYTQVNNPQAPFVVCRVFDCPRGMDMDSEFGSLSDVDDGKAAGDDSDDKANEGTQNLKGLGLVLVLVLVLRKASYTAFLDYVVSYMETMMPEQLKHALLDEDFI*