AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008458

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008458 MtrunA17_Chr2g0303181 99.265 136 1 0 1 136 1 136 1.10e-96 276
MsaG008458 MtrunA17_Chr8g0381011 69.014 142 41 1 1 142 1 139 1.40e-66 199
MsaG008458 MtrunA17_Chr4g0054701 58.621 116 45 1 2 117 31 143 2.39e-46 147
MsaG008458 MtrunA17_Chr4g0047341 44.737 76 42 0 44 119 40 115 5.51e-22 85.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008458 AT4G20380.2 58.571 140 48 3 1 131 6 144 2.38e-48 154
MsaG008458 AT4G20380.7 58.571 140 48 3 1 131 6 144 2.38e-48 154
MsaG008458 AT4G20380.6 58.571 140 48 3 1 131 1 139 3.86e-48 153
MsaG008458 AT4G20380.3 58.571 140 48 3 1 131 1 139 3.86e-48 153
MsaG008458 AT4G20380.4 58.571 140 48 3 1 131 1 139 3.86e-48 153
MsaG008458 AT4G20380.1 58.571 140 48 3 1 131 1 139 3.86e-48 153
MsaG008458 AT4G20380.5 58.571 140 48 3 1 131 1 139 3.86e-48 153
MsaG008458 AT1G32540.1 60.177 113 42 2 2 114 65 174 1.91e-45 147
MsaG008458 AT1G32540.3 58.772 114 44 1 2 115 32 142 5.01e-45 144
MsaG008458 AT1G32540.2 58.772 114 44 1 2 115 32 142 5.01e-45 144
MsaG008458 AT4G20380.8 49.398 166 48 3 1 131 1 165 6.93e-45 146
MsaG008458 AT1G32540.5 59.459 111 42 1 2 112 32 139 2.77e-44 143
MsaG008458 AT4G20380.9 58.400 125 42 3 1 116 1 124 6.09e-42 136
MsaG008458 AT1G32540.7 61.039 77 27 2 2 78 65 138 1.15e-27 100
MsaG008458 AT1G32540.7 50.000 68 33 1 45 111 66 133 4.45e-14 65.5
MsaG008458 AT1G32540.4 58.974 78 29 1 2 79 32 106 3.01e-27 98.2
MsaG008458 AT1G32540.4 50.000 68 33 1 45 111 33 100 1.78e-14 65.5
MsaG008458 AT1G32540.6 58.974 78 29 1 2 79 32 106 3.01e-27 98.2
MsaG008458 AT1G32540.6 50.000 68 33 1 45 111 33 100 1.78e-14 65.5
MsaG008458 AT4G21610.1 47.500 80 42 0 43 122 57 136 1.23e-24 92.8
MsaG008458 AT4G21610.1 33.750 80 49 1 2 81 58 133 5.89e-11 57.4
MsaG008458 AT4G21610.2 45.946 74 40 0 43 116 57 130 4.14e-21 83.6

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGGAGCTGGTTGTTTCATT+AGG 0.307392 2:-35559914 None:intergenic
GGAGGAAGAACAGGAATAAC+AGG 0.354231 2:-35555788 None:intergenic
GGCAGTTCCCACAACGGATA+TGG 0.376956 2:-35559132 None:intergenic
GTTATTCCTGTTCTTCCTCC+TGG 0.387766 2:+35555791 MsaT008458.1:CDS
CGGAGCCACATTATGTGTAC+TGG 0.429482 2:+35555695 MsaT008458.1:CDS
AAGATACCAGGAGGAAGAAC+AGG 0.433787 2:-35555797 None:intergenic
AGAAGATACCGTTTCGGAGC+TGG 0.444161 2:-35559927 None:intergenic
CAAACATTGCTTGCTCCTCT+AGG 0.449369 2:-35555740 None:intergenic
AGGAGTTGGCGGCCTTCCAT+TGG 0.478744 2:-35559882 None:intergenic
ATATCCGTTGTGGGAACTGC+CGG 0.504182 2:+35559134 MsaT008458.1:CDS
TGCAGTAGAAGATACCGTTT+CGG 0.505298 2:-35559933 None:intergenic
AAATGAACCATATCCGTTGT+GGG 0.521367 2:+35559125 MsaT008458.1:CDS
GTTTCATTAGGTGTCAGTAC+AGG 0.522934 2:-35559902 None:intergenic
TTGCTCCTCTAGGGTAAAGC+AGG 0.536954 2:-35555730 None:intergenic
GAGGATACATGAGTGTTGTC+CGG 0.538194 2:-35559153 None:intergenic
AAACATTGCTTGCTCCTCTA+GGG 0.540478 2:-35555739 None:intergenic
GAAATGTCACAACTTTATTG+TGG 0.542581 2:+35556842 MsaT008458.1:CDS
CAAATGAACCATATCCGTTG+TGG 0.547355 2:+35559124 MsaT008458.1:CDS
TGAAACAACCAGCTCCGAAA+CGG 0.550490 2:+35559919 MsaT008458.1:CDS
AAGATTTATAGTGTTACAGC+AGG 0.559794 2:-35556918 None:intergenic
AACACTATAAATCTTGTGCC+AGG 0.563885 2:+35556926 MsaT008458.1:CDS
TTAGGTGTCAGTACAGGAGT+TGG 0.564205 2:-35559896 None:intergenic
GGTGTCAGTACAGGAGTTGG+CGG 0.576256 2:-35559893 None:intergenic
ACAACACTCATGTATCCTCA+TGG 0.578970 2:+35559157 MsaT008458.1:CDS
ATGTCACAACTTTATTGTGG+AGG 0.583864 2:+35556845 MsaT008458.1:CDS
ACATTATGTGTACTGGGTGT+AGG 0.596546 2:+35555702 MsaT008458.1:CDS
TCCTGTAGATGACCAATGGA+AGG 0.615310 2:+35559870 MsaT008458.1:intron
AACATCCTGCTTTACCCTAG+AGG 0.636037 2:+35555725 MsaT008458.1:CDS
CAAACTGCACATTTGACTGA+AGG 0.636685 2:-35559184 None:intergenic
TACACCCAGTACACATAATG+TGG 0.639256 2:-35555700 None:intergenic
ATTGTCCTGTAGATGACCAA+TGG 0.647818 2:+35559866 MsaT008458.1:intron
GGAGCCACATTATGTGTACT+GGG 0.663903 2:+35555696 MsaT008458.1:CDS
GAGGAAGAACAGGAATAACA+GGG 0.675525 2:-35555787 None:intergenic
ACATTGCTAATGCACGCACG+TGG 0.683036 2:+35556875 MsaT008458.1:CDS
TTGTCCGGCAGTTCCCACAA+CGG 0.690082 2:-35559138 None:intergenic
GTTACAGCAGGAACATCTCA+CGG 0.690666 2:-35556906 None:intergenic
TTGACTGAAGGAGCTCCATG+AGG 0.723404 2:-35559172 None:intergenic
AGGAAGAACAGGAATAACAG+GGG 0.773701 2:-35555786 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 35555692 35559970 35555692 ID=MsaG008458
Chr2 mRNA 35555692 35559970 35555692 ID=MsaT008458.1;Parent=MsaG008458
Chr2 exon 35555692 35555812 35555692 ID=MsaT008458.1.exon1;Parent=MsaT008458.1
Chr2 CDS 35555692 35555812 35555692 ID=cds.MsaT008458.1;Parent=MsaT008458.1
Chr2 exon 35556837 35556947 35556837 ID=MsaT008458.1.exon2;Parent=MsaT008458.1
Chr2 CDS 35556837 35556947 35556837 ID=cds.MsaT008458.1;Parent=MsaT008458.1
Chr2 exon 35559116 35559228 35559116 ID=MsaT008458.1.exon3;Parent=MsaT008458.1
Chr2 CDS 35559116 35559228 35559116 ID=cds.MsaT008458.1;Parent=MsaT008458.1
Chr2 exon 35559878 35559970 35559878 ID=MsaT008458.1.exon4;Parent=MsaT008458.1
Chr2 CDS 35559878 35559970 35559878 ID=cds.MsaT008458.1;Parent=MsaT008458.1
Gene Sequence

>MsaT008458.1

ATGCGGAGCCACATTATGTGTACTGGGTGTAGGAACATCCTGCTTTACCCTAGAGGAGCAAGCAATGTTTGCTGTGCAGTGTGCAGCACAATTACCCCTGTTATTCCTGTTCTTCCTCCTGGAATGGAAATGTCACAACTTTATTGTGGAGGTTGTAGAACATTGCTAATGCACGCACGTGGAGCTACTACCGTGAGATGTTCCTGCTGTAACACTATAAATCTTGTGCCAGATTCTAATCAAATGAACCATATCCGTTGTGGGAACTGCCGGACAACACTCATGTATCCTCATGGAGCTCCTTCAGTCAAATGTGCAGTTTGTCACTATATTACTAATGTCGATATGACCAATGGAAGGCCGCCAACTCCTGTACTGACACCTAATGAAACAACCAGCTCCGAAACGGTATCTTCTACTGCATCACTATACTTTTGA
Protein sequence

>MsaT008458.1

MRSHIMCTGCRNILLYPRGASNVCCAVCSTITPVIPVLPPGMEMSQLYCGGCRTLLMHARGATTVRCSCCNTINLVPDSNQMNHIRCGNCRTTLMYPHGAPSVKCAVCHYITNVDMTNGRPPTPVLTPNETTSSETVSSTASLYF*