AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020294


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020294 MtrunA17_Chr4g0025531 89.787 235 23 1 1 235 1 234 1.06e-144 403
MsaG020294 MtrunA17_Chr3g0135891 51.969 127 49 3 106 220 16 142 3.48e-31 112
MsaG020294 MtrunA17_Chr5g0422421 28.634 227 111 8 1 205 1 198 4.88e-17 77.4
MsaG020294 MtrunA17_Chr1g0206721 31.098 164 96 4 1 150 1 161 1.02e-16 76.6
MsaG020294 MtrunA17_Chr3g0119901 44.706 85 46 1 1 85 1 84 2.07e-16 75.1
MsaG020294 MtrunA17_Chr1g0208561 30.323 155 96 4 1 143 1 155 2.16e-16 75.5
MsaG020294 MtrunA17_Chr8g0379021 31.410 156 99 2 4 151 7 162 3.83e-16 73.6
MsaG020294 MtrunA17_Chr3g0089141 30.323 155 96 4 1 143 1 155 4.40e-16 74.7
MsaG020294 MtrunA17_Chr1g0149391 28.866 194 115 7 1 182 1 183 5.71e-16 74.3
MsaG020294 MtrunA17_Chr1g0206701 32.609 138 78 3 1 126 1 135 6.92e-16 74.3
MsaG020294 MtrunA17_Chr2g0292791 33.333 135 81 3 1 126 1 135 1.03e-15 73.9
MsaG020294 MtrunA17_Chr3g0085241 45.122 82 44 1 4 85 36 116 1.08e-15 73.9
MsaG020294 MtrunA17_Chr8g0355091 31.852 135 83 3 1 126 1 135 1.67e-15 73.2
MsaG020294 MtrunA17_Chr1g0206991 31.707 164 101 5 1 153 1 164 2.02e-15 72.0
MsaG020294 MtrunA17_Chr3g0099421 32.667 150 85 3 1 137 26 172 2.10e-15 73.2
MsaG020294 MtrunA17_Chr1g0188671 40.244 82 49 0 1 82 39 120 2.59e-15 73.2
MsaG020294 MtrunA17_Chr3g0099411 40.244 82 49 0 1 82 1 82 3.23e-15 72.0
MsaG020294 MtrunA17_Chr2g0317481 29.710 138 88 3 1 129 1 138 3.82e-15 72.0
MsaG020294 MtrunA17_Chr1g0208581 43.056 72 41 0 1 72 1 72 3.97e-15 72.0
MsaG020294 MtrunA17_Chr2g0317451 29.710 138 88 3 1 129 1 138 4.10e-15 72.0
MsaG020294 MtrunA17_Chr2g0333981 29.747 158 99 4 4 151 7 162 4.58e-15 70.9
MsaG020294 MtrunA17_Chr5g0422941 26.786 168 103 4 1 156 1 160 8.22e-15 71.2
MsaG020294 MtrunA17_Chr5g0419601 40.260 77 46 0 1 77 1 77 3.86e-14 69.3
MsaG020294 MtrunA17_Chr2g0325971 29.747 158 93 5 1 143 1 155 4.29e-14 69.3
MsaG020294 MtrunA17_Chr1g0187361 27.919 197 113 5 1 182 1 183 1.04e-13 68.2
MsaG020294 MtrunA17_Chr4g0052081 39.130 69 42 0 9 77 2 70 1.48e-13 66.6
MsaG020294 MtrunA17_Chr4g0052061 36.145 83 53 0 9 91 2 84 2.03e-13 65.9
MsaG020294 MtrunA17_Chr2g0300421 32.653 98 63 1 1 98 1 95 4.84e-13 65.1
MsaG020294 MtrunA17_Chr3g0089151 37.500 72 45 0 1 72 1 72 8.35e-13 63.5
MsaG020294 MtrunA17_Chr2g0300441 25.904 166 106 4 1 152 1 163 2.09e-12 64.7
MsaG020294 MtrunA17_Chr8g0356071 28.947 114 68 2 9 116 2 108 1.05e-11 61.2
MsaG020294 MtrunA17_Chr3g0111841 43.103 58 33 0 15 72 2 59 5.35e-11 57.0
MsaG020294 MtrunA17_Chr8g0376821 33.750 80 52 1 9 87 2 81 5.61e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020294 AT4G36590.1 50.000 68 34 0 5 72 3 70 1.72e-17 79.3
MsaG020294 AT1G29962.1 46.250 80 42 1 1 80 1 79 1.54e-16 75.5
MsaG020294 AT2G34440.1 35.659 129 75 4 9 130 2 129 4.12e-16 73.9
MsaG020294 AT2G24840.1 43.750 80 45 0 7 86 61 140 1.05e-15 74.7
MsaG020294 AT5G60440.1 28.293 205 119 6 5 200 3 188 2.19e-14 71.2
MsaG020294 AT1G28460.1 45.455 77 41 1 1 77 1 76 5.07e-14 68.6
MsaG020294 AT3G04100.1 37.931 87 51 1 2 88 7 90 1.37e-12 65.1
MsaG020294 AT1G01530.1 32.710 107 68 1 5 107 3 109 1.79e-12 65.5
MsaG020294 AT1G28450.1 41.250 80 46 1 1 80 1 79 8.82e-12 62.4
MsaG020294 AT1G65360.1 43.333 60 34 0 9 68 7 66 9.75e-12 63.2

Find 43 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCGAGTTAACAACACTTTC+AGG 0.165743 4:+48966990 MsaT020294.1:CDS
TTGAAGAAGTTGGAAAGTTC+TGG 0.270990 4:+48967221 MsaT020294.1:CDS
TGCACCAACTTCATGATCTT+TGG 0.281401 4:-48967552 None:intergenic
ACACAAGGAGTCAACCTTAT+TGG 0.301989 4:+48967934 MsaT020294.1:CDS
GATGGGTTTCCATAACAAAA+TGG 0.311638 4:-48967053 None:intergenic
ATAACCAATGTCTTGAAAAC+TGG 0.328346 4:+48967323 MsaT020294.1:CDS
ATCATTTCCTCTTCCATTGA+AGG 0.330256 4:-48967116 None:intergenic
CTTATTGGTGTAAGCGGAAT+AGG 0.333563 4:+48967949 MsaT020294.1:CDS
CTTCTACCATGTCATATATC+TGG 0.335672 4:-48968000 None:intergenic
CTATTCCGCTTACACCAATA+AGG 0.352863 4:-48967948 None:intergenic
TTTCTTTCACTTGATCATAT+TGG 0.353442 4:-48967265 None:intergenic
AGTTGGAAAGTTCTGGATAT+TGG 0.382288 4:+48967228 MsaT020294.1:CDS
ATTCTCATGCTTTCTCCAAC+GGG 0.403336 4:+48967026 MsaT020294.1:CDS
TTTATTTACGACAGCAACTA+AGG 0.422183 4:-48967297 None:intergenic
TTTGTTATAGATTCAGAAGA+TGG 0.427015 4:-48967071 None:intergenic
GGAAGAGGAAATGATGAAAC+CGG 0.442189 4:+48967124 MsaT020294.1:CDS
CCGAGTTAACAACACTTTCA+GGG 0.450892 4:+48966991 MsaT020294.1:CDS
CCCTGAAAGTGTTGTTAACT+CGG 0.457016 4:-48966991 None:intergenic
CGTAGCAATTTCTACCATTG+AGG 0.467584 4:+48967481 MsaT020294.1:intron
GAAGGATGAAAATCCTTCAA+TGG 0.468568 4:+48967103 MsaT020294.1:CDS
GACTCCATTCAGTTCCTCAA+TGG 0.472764 4:-48967495 None:intergenic
GGTGTAAGCGGAATAGGATA+TGG 0.475102 4:+48967955 MsaT020294.1:CDS
TGTTGCATTTACAACGAGAA+AGG 0.475609 4:+48966947 MsaT020294.1:CDS
TATTCTCATGCTTTCTCCAA+CGG 0.502164 4:+48967025 MsaT020294.1:CDS
TGAAAATCCTTCAATGGAAG+AGG 0.510231 4:+48967109 MsaT020294.1:CDS
TTGTTATAGATTCAGAAGAT+GGG 0.510327 4:-48967070 None:intergenic
TCTACCATTGAGGAACTGAA+TGG 0.512244 4:+48967491 MsaT020294.1:CDS
TTGTCCTCAAAGACAAAAGA+AGG 0.512656 4:-48967527 None:intergenic
GCATTTACAACGAGAAAGGC+TGG 0.523590 4:+48966951 MsaT020294.1:CDS
TTATCCAAAAGGTAAAGGTA+TGG 0.531949 4:+48967876 MsaT020294.1:intron
GCGCCGAAGAGGTCATCAAA+AGG 0.555723 4:+48966876 MsaT020294.1:CDS
AACACCAAAGATCATGAAGT+TGG 0.566706 4:+48967548 MsaT020294.1:CDS
TGGATATTGGTCGATAAAAG+AGG 0.572226 4:+48967241 MsaT020294.1:CDS
GTCAACCTTATTGGTGTAAG+CGG 0.584588 4:+48967943 MsaT020294.1:CDS
CGAGTTAACAACACTTTCAG+GGG 0.590811 4:+48966992 MsaT020294.1:CDS
ACCAATGTCTTGAAAACTGG+AGG 0.591573 4:+48967326 MsaT020294.1:CDS
AGCGGAATAGGATATGGAAG+TGG 0.601533 4:+48967961 MsaT020294.1:CDS
GAGTAAGAATGGCGCCGAAG+AGG 0.609055 4:+48966865 None:intergenic
GGAGGAGAGATTGACCCTCA+TGG 0.634950 4:+48967344 MsaT020294.1:CDS
AAGATGTACACATACCATGA+GGG 0.689701 4:-48967358 None:intergenic
TGAAAGTGTTGTTAACTCGG+AGG 0.701093 4:-48966988 None:intergenic
AAGCATGAGAATATCAACTG+AGG 0.718686 4:-48967015 None:intergenic
AAAGGCTGGAATTTACAACA+AGG 0.729615 4:+48966965 MsaT020294.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 48966873 48968011 48966873 ID=MsaG020294
Chr4 mRNA 48966873 48968011 48966873 ID=MsaT020294.1;Parent=MsaG020294
Chr4 exon 48966873 48967365 48966873 ID=MsaT020294.1.exon1;Parent=MsaT020294.1
Chr4 CDS 48966873 48967365 48966873 ID=cds.MsaT020294.1;Parent=MsaT020294.1
Chr4 exon 48967486 48967575 48967486 ID=MsaT020294.1.exon2;Parent=MsaT020294.1
Chr4 CDS 48967486 48967575 48967486 ID=cds.MsaT020294.1;Parent=MsaT020294.1
Chr4 exon 48967887 48968011 48967887 ID=MsaT020294.1.exon3;Parent=MsaT020294.1
Chr4 CDS 48967887 48968011 48967887 ID=cds.MsaT020294.1;Parent=MsaT020294.1
Gene Sequence

>MsaT020294.1

ATGGCGCCGAAGAGGTCATCAAAAGGAAAACAAAAAATTGAGTTGAAAAAAATTGAGAAAAAGGATGATCTCTTTGTTGCATTTACAACGAGAAAGGCTGGAATTTACAACAAGGCCTCCGAGTTAACAACACTTTCAGGGGCCTCAGTTGATATTCTCATGCTTTCTCCAACGGGAAAACCATTTTGTTATGGAAACCCATCTTCTGAATCTATAACAAAAACTAGTTTGAAGGATGAAAATCCTTCAATGGAAGAGGAAATGATGAAACCGGAGATTATAGAGCAAAATGAAAAAAATGATGATCTTTTGGATAAAAAGCATGTTGCGGAAGCACAACGTAAAAATTTGAAGAAGTTGGAAAGTTCTGGATATTGGTCGATAAAAGAGGACCAATATGATCAAGTGAAAGAAATTGACAAATCCTTAGTTGCTGTCGTAAATAAATTGATAACCAATGTCTTGAAAACTGGAGGAGAGATTGACCCTCATGCAATTTCTACCATTGAGGAACTGAATGGAGTCAAAACAAATCCTTCTTTTGTCTTTGAGGACAACACCAAAGATCATGAAGTTGGTGCAAGTAAAGGTATGGTTGCTAAAGCCTCTCAAGATATAGCTACAAAAAAAACACAAGGAGTCAACCTTATTGGTGTAAGCGGAATAGGATATGGAAGTGGTGTTGATCATGCTTCTCCAGATATATGA

Protein sequence

>MsaT020294.1

MAPKRSSKGKQKIELKKIEKKDDLFVAFTTRKAGIYNKASELTTLSGASVDILMLSPTGKPFCYGNPSSESITKTSLKDENPSMEEEMMKPEIIEQNEKNDDLLDKKHVAEAQRKNLKKLESSGYWSIKEDQYDQVKEIDKSLVAVVNKLITNVLKTGGEIDPHAISTIEELNGVKTNPSFVFEDNTKDHEVGASKGMVAKASQDIATKKTQGVNLIGVSGIGYGSGVDHASPDI*