AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024771

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024771 MtrunA17_Chr3g0093391 97.959 98 2 0 1 98 1 98 2.89e-62 196
MsaG024771 MtrunA17_Chr3g0093571 92.857 98 7 0 1 98 3 100 6.20e-59 187
MsaG024771 MtrunA17_Chr4g0039141 85.484 62 9 0 1 62 81 142 4.42e-33 113
MsaG024771 MtrunA17_Chr4g0051261 53.623 69 32 0 23 91 4 72 1.55e-20 83.2
MsaG024771 MtrunA17_Chr2g0293491 53.623 69 32 0 23 91 4 72 2.14e-20 82.8
MsaG024771 MtrunA17_Chr4g0057791 60.000 65 26 0 18 82 213 277 1.60e-19 81.6
MsaG024771 MtrunA17_Chr4g0061141 58.333 72 28 2 21 91 103 173 1.26e-18 79.3
MsaG024771 MtrunA17_Chr1g0191221 56.000 75 31 2 18 91 117 190 1.74e-18 78.6
MsaG024771 MtrunA17_Chr3g0122781 58.108 74 31 0 16 89 409 482 2.57e-18 78.2
MsaG024771 MtrunA17_Chr8g0377071 56.000 75 33 0 15 89 377 451 4.73e-18 77.4
MsaG024771 MtrunA17_Chr4g0002001 60.000 55 22 0 23 77 4 58 8.22e-18 75.9
MsaG024771 MtrunA17_Chr3g0131861 54.667 75 32 2 18 91 92 165 1.74e-17 75.9
MsaG024771 MtrunA17_Chr8g0385971 54.667 75 32 2 18 91 85 158 1.99e-17 75.9
MsaG024771 MtrunA17_Chr4g0066691 56.000 75 31 2 18 91 99 172 2.49e-17 75.5
MsaG024771 MtrunA17_Chr2g0286421 53.333 75 33 2 18 91 97 170 2.55e-17 75.5
MsaG024771 MtrunA17_Chr7g0273601 53.333 75 33 2 18 91 102 175 3.98e-17 74.7
MsaG024771 MtrunA17_Chr2g0317501 54.667 75 32 2 18 91 129 202 5.81e-17 74.3
MsaG024771 MtrunA17_Chr1g0187371 49.275 69 34 1 21 88 16 84 2.22e-16 72.0
MsaG024771 MtrunA17_Chr7g0218071 51.389 72 33 2 21 91 118 188 2.80e-16 72.4
MsaG024771 MtrunA17_Chr6g0453711 46.575 73 37 2 20 91 107 178 5.03e-16 71.6
MsaG024771 MtrunA17_Chr4g0040141 48.000 75 37 2 18 91 124 197 3.92e-15 69.3
MsaG024771 MtrunA17_Chr6g0483151 48.529 68 35 0 18 85 9 76 5.48e-15 68.6
MsaG024771 MtrunA17_Chr5g0396361 48.000 75 37 2 18 91 135 208 8.98e-15 68.2
MsaG024771 MtrunA17_Chr3g0099951 45.714 70 36 1 21 88 12 81 1.40e-13 64.7
MsaG024771 MtrunA17_Chr2g0324461 45.333 75 39 2 18 91 136 209 2.00e-13 64.3
MsaG024771 MtrunA17_Chr1g0201571 40.000 75 45 0 17 91 120 194 4.22e-13 63.5
MsaG024771 MtrunA17_Chr1g0194881 85.294 34 5 0 1 34 3 36 6.19e-13 62.8
MsaG024771 MtrunA17_Chr5g0443551 85.714 28 4 0 1 28 40 67 8.73e-12 57.4
MsaG024771 MtrunA17_Chr8g0358921 37.143 70 44 0 24 93 48 117 3.27e-11 57.8
MsaG024771 MtrunA17_Chr8g0339221 42.424 66 33 2 26 89 7 69 7.00e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024771 AT5G10270.1 85.859 99 13 1 1 98 3 101 3.84e-52 170
MsaG024771 AT5G64960.1 86.735 98 12 1 2 98 4 101 2.58e-51 168
MsaG024771 AT1G67580.1 58.667 75 31 0 15 89 398 472 6.27e-24 94.7
MsaG024771 AT1G67580.2 58.667 75 31 0 15 89 398 472 6.27e-24 94.7
MsaG024771 AT3G48750.1 54.167 72 33 0 20 91 1 72 4.31e-21 85.1
MsaG024771 AT5G63370.2 46.154 91 41 2 3 89 147 233 4.54e-19 80.9
MsaG024771 AT5G63370.3 46.154 91 41 2 3 89 147 233 4.54e-19 80.9
MsaG024771 AT5G63370.7 46.154 91 41 2 3 89 281 367 4.66e-19 80.9
MsaG024771 AT5G63370.8 46.154 91 41 2 3 89 281 367 4.66e-19 80.9
MsaG024771 AT5G63370.4 46.154 91 41 2 3 89 281 367 4.66e-19 80.9
MsaG024771 AT5G63370.6 46.154 91 41 2 3 89 281 367 4.66e-19 80.9
MsaG024771 AT5G63370.1 46.154 91 41 2 3 89 281 367 4.66e-19 80.9
MsaG024771 AT5G63370.5 47.191 89 39 2 5 89 283 367 4.68e-19 80.9
MsaG024771 AT5G63370.10 47.191 89 39 2 5 89 283 367 4.68e-19 80.9
MsaG024771 AT1G18670.2 61.111 72 26 2 21 91 129 199 4.73e-19 80.9
MsaG024771 AT5G63370.9 46.154 91 41 2 3 89 147 233 5.06e-19 80.5
MsaG024771 AT1G18670.3 61.111 72 26 2 21 91 129 199 7.02e-19 80.1
MsaG024771 AT1G18670.1 61.111 72 26 2 21 91 129 199 8.69e-19 80.1
MsaG024771 AT1G76540.1 50.704 71 34 1 19 88 10 80 9.51e-18 76.3
MsaG024771 AT1G74330.3 56.944 72 29 2 21 91 119 189 1.85e-17 76.3
MsaG024771 AT1G33770.1 53.247 77 30 2 18 91 136 209 1.95e-17 76.3
MsaG024771 AT3G05050.3 57.333 75 30 2 18 91 133 206 2.41e-17 75.9
MsaG024771 AT3G05050.2 57.333 75 30 2 18 91 133 206 2.41e-17 75.9
MsaG024771 AT3G05050.1 57.333 75 30 2 18 91 133 206 2.41e-17 75.9
MsaG024771 AT5G50860.2 53.333 75 33 2 18 91 109 182 2.66e-17 75.9
MsaG024771 AT1G74330.2 56.944 72 29 2 21 91 119 189 2.72e-17 75.9
MsaG024771 AT1G74330.1 56.944 72 29 2 21 91 119 189 2.74e-17 75.9
MsaG024771 AT5G50860.1 53.333 75 33 2 18 91 109 182 3.99e-17 75.1
MsaG024771 AT1G54610.1 53.333 75 33 2 18 91 113 186 4.48e-17 75.1
MsaG024771 AT1G54610.3 53.333 75 33 2 18 91 113 186 4.48e-17 75.1
MsaG024771 AT1G54610.2 53.333 75 33 2 18 91 113 186 4.48e-17 75.1
MsaG024771 AT1G71530.4 51.948 77 31 2 18 91 142 215 5.30e-17 74.7
MsaG024771 AT1G57700.1 51.948 77 31 2 18 91 141 214 5.53e-17 74.7
MsaG024771 AT1G71530.3 51.948 77 31 2 18 91 142 215 6.95e-17 74.3
MsaG024771 AT1G66750.1 45.946 74 40 0 12 85 2 75 6.99e-17 74.3
MsaG024771 AT5G39420.1 50.704 71 35 0 21 91 103 173 7.96e-17 74.3
MsaG024771 AT1G09600.1 48.649 74 38 0 18 91 158 231 9.10e-17 74.3
MsaG024771 AT1G71530.2 51.948 77 31 2 18 91 142 215 1.01e-16 73.9
MsaG024771 AT1G20930.1 47.887 71 36 1 19 88 12 82 2.05e-16 72.8
MsaG024771 AT1G53050.2 52.000 75 34 2 18 91 129 202 2.22e-16 73.2
MsaG024771 AT1G53050.1 52.000 75 34 2 18 91 129 202 2.22e-16 73.2
MsaG024771 AT1G71530.1 51.948 77 31 2 18 91 142 215 3.82e-16 72.4
MsaG024771 AT2G38620.2 43.529 85 38 1 23 97 4 88 4.14e-16 71.6
MsaG024771 AT4G10010.2 50.649 77 32 2 18 91 151 224 6.91e-16 71.6
MsaG024771 AT2G38620.3 43.529 85 38 1 23 97 4 88 2.78e-15 68.9
MsaG024771 AT2G38620.1 43.529 85 38 1 23 97 4 88 2.78e-15 68.9
MsaG024771 AT1G73690.1 47.059 68 36 0 18 85 6 73 3.76e-15 69.7
MsaG024771 AT5G64960.2 88.889 36 4 0 63 98 13 48 3.97e-15 69.7
MsaG024771 AT3G54180.1 56.364 55 24 0 23 77 4 58 4.42e-15 68.9
MsaG024771 AT1G18040.1 45.205 73 40 0 13 85 2 74 6.50e-15 68.9
MsaG024771 AT1G03740.2 46.053 76 39 2 18 92 208 282 7.18e-15 68.9
MsaG024771 AT1G03740.1 46.053 76 39 2 18 92 208 282 7.42e-15 68.9
MsaG024771 AT5G44290.6 40.217 92 49 3 1 91 119 205 1.04e-13 65.5
MsaG024771 AT3G01085.1 50.000 70 33 2 23 91 115 183 1.16e-13 65.5
MsaG024771 AT3G01085.2 50.000 70 33 2 23 91 115 183 1.16e-13 65.5
MsaG024771 AT3G01085.3 50.000 70 33 2 23 91 115 183 1.25e-13 65.5
MsaG024771 AT5G44290.7 40.217 92 49 3 1 91 119 205 1.74e-13 64.7
MsaG024771 AT5G44290.2 40.217 92 49 3 1 91 119 205 1.88e-13 64.7
MsaG024771 AT5G44290.5 40.217 92 49 3 1 91 119 205 1.88e-13 64.7
MsaG024771 AT5G44290.4 40.217 92 49 3 1 91 119 205 1.88e-13 64.7
MsaG024771 AT5G44290.1 40.217 92 49 3 1 91 119 205 1.88e-13 64.7
MsaG024771 AT5G44290.3 40.217 92 49 3 1 91 119 205 1.88e-13 64.7
MsaG024771 AT4G22940.1 43.333 90 45 3 1 89 85 169 5.08e-12 60.8
MsaG024771 AT4G22940.2 43.333 90 45 3 1 89 85 169 1.08e-11 59.7

Find 25 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAATCGGCGAAGGCACTTA+TGG 0.185430 5:+643603 MsaT024771.1:CDS
TGAAAATGTTATCAAGTTAA+AGG 0.254582 5:+643940 MsaT024771.1:CDS
ATTTCTCGTATAGCAGTAAT+AGG 0.291287 5:-643893 None:intergenic
CTTCCTTAATCATCTTTCTC+AGG 0.318392 5:-643983 None:intergenic
GGCCCTGAGAAAGATGATTA+AGG 0.402221 5:+643980 MsaT024771.1:CDS
CAACTAGCAATGGCAGCAGC+TGG 0.409192 5:+643513 None:intergenic
TAATCATCTTTCTCAGGGCC+TGG 0.414426 5:-643977 None:intergenic
TTCACCGGTTTCGATCTCTT+TGG 0.427011 5:-643728 None:intergenic
TTCCTTAATCATCTTTCTCA+GGG 0.448783 5:-643982 None:intergenic
TTTGAGAAACTCGAACAAAT+CGG 0.450626 5:+643588 MsaT024771.1:CDS
AAATCGGCGAAGGCACTTAT+GGG 0.452605 5:+643604 MsaT024771.1:CDS
AAGGAAATCGTTACGTCTCC+AGG 0.454720 5:+643959 MsaT024771.1:CDS
TGCTTGCAGTCAAGTTTACA+TGG 0.493561 5:+643705 MsaT024771.1:intron
CTTGAGAGCAACAATTTCAC+CGG 0.511084 5:-643743 None:intergenic
CTCAAAGCAATCGACGCTAC+GGG 0.511892 5:-643571 None:intergenic
GTATGGATAATGAAAGAGAA+GGG 0.512036 5:+643773 MsaT024771.1:CDS
AACTAGCAATGGCAGCAGCT+GGG 0.520780 5:+643514 None:intergenic
TGCTCTCAAGCAAATACGTA+TGG 0.526233 5:+643756 MsaT024771.1:CDS
TCTCAAAGCAATCGACGCTA+CGG 0.534411 5:-643572 None:intergenic
ATGGCCAAAGAGATCGAAAC+CGG 0.536311 5:+643724 MsaT024771.1:CDS
CGTATGGATAATGAAAGAGA+AGG 0.557605 5:+643772 MsaT024771.1:CDS
TATGGATAATGAAAGAGAAG+GGG 0.649789 5:+643774 MsaT024771.1:CDS
ACGCTACGGGAACCACGCGA+AGG 0.656742 5:-643558 None:intergenic
AAACTCGAACAAATCGGCGA+AGG 0.657326 5:+643594 MsaT024771.1:CDS
TTAATTGATTCACCTTCGCG+TGG 0.661011 5:+643546 MsaT024771.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 643522 644000 643522 ID=MsaG024771
Chr5 mRNA 643522 644000 643522 ID=MsaT024771.1;Parent=MsaG024771
Chr5 exon 643522 643625 643522 ID=MsaT024771.1.exon1;Parent=MsaT024771.1
Chr5 CDS 643522 643625 643522 ID=cds.MsaT024771.1;Parent=MsaT024771.1
Chr5 exon 643714 643795 643714 ID=MsaT024771.1.exon2;Parent=MsaT024771.1
Chr5 CDS 643714 643795 643714 ID=cds.MsaT024771.1;Parent=MsaT024771.1
Chr5 exon 643890 644000 643890 ID=MsaT024771.1.exon3;Parent=MsaT024771.1
Chr5 CDS 643890 644000 643890 ID=cds.MsaT024771.1;Parent=MsaT024771.1
Gene Sequence

>MsaT024771.1

ATGGCAGCAGCTGGGCAACTAAACTTAATTGATTCACCTTCGCGTGGTTCCCGTAGCGTCGATTGCTTTGAGAAACTCGAACAAATCGGCGAAGGCACTTATGGTCAAGTTTACATGGCCAAAGAGATCGAAACCGGTGAAATTGTTGCTCTCAAGCAAATACGTATGGATAATGAAAGAGAAGGGTTTCCTATTACTGCTATACGAGAAATCAAAATTCTAAAGAAACTACATCATGAAAATGTTATCAAGTTAAAGGAAATCGTTACGTCTCCAGGCCCTGAGAAAGATGATTAA
Protein sequence

>MsaT024771.1

MAAAGQLNLIDSPSRGSRSVDCFEKLEQIGEGTYGQVYMAKEIETGEIVALKQIRMDNEREGFPITAIREIKILKKLHHENVIKLKEIVTSPGPEKDD*