AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG019935


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019935 MtrunA17_Chr4g0025361 95.455 132 1 2 1 132 51 177 2.26e-86 249
MsaG019935 MtrunA17_Chr2g0322221 65.972 144 35 6 1 132 54 195 2.70e-50 158
MsaG019935 MtrunA17_Chr4g0063931 62.245 98 31 2 34 125 84 181 6.36e-31 109
MsaG019935 MtrunA17_Chr4g0011841 92.000 50 4 0 63 112 135 184 3.91e-28 102
MsaG019935 MtrunA17_Chr4g0056521 63.291 79 20 2 63 132 130 208 1.70e-27 101
MsaG019935 MtrunA17_Chr5g0413381 48.421 95 39 2 18 107 73 162 3.72e-22 86.7
MsaG019935 MtrunA17_Chr5g0419871 69.091 55 15 1 54 106 101 155 9.90e-19 77.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019935 AT1G08465.1 55.147 136 48 5 5 132 54 184 1.88e-39 131
MsaG019935 AT2G45190.2 60.952 105 30 3 39 132 49 153 1.42e-33 115
MsaG019935 AT2G45190.1 61.538 104 29 3 40 132 114 217 4.67e-33 116
MsaG019935 AT2G26580.2 65.591 93 26 2 31 118 72 163 5.81e-30 106
MsaG019935 AT2G26580.1 65.591 93 26 2 31 118 72 163 5.81e-30 106
MsaG019935 AT4G00180.2 67.089 79 17 1 63 132 120 198 3.66e-29 105
MsaG019935 AT4G00180.1 67.089 79 17 1 63 132 151 229 7.81e-29 105
MsaG019935 AT1G23420.1 70.588 51 15 0 60 110 130 180 1.57e-18 78.6
MsaG019935 AT1G69180.1 66.667 48 16 0 59 106 109 156 1.82e-18 77.4
MsaG019935 AT1G23420.2 70.588 51 15 0 60 110 161 211 4.27e-18 77.8

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGCTGATATCTGGATTAC+TGG 0.287474 4:-41314093 None:intergenic
GCCTCCCTGTGGCTGATATC+TGG 0.289400 4:-41314101 None:intergenic
GAAGCAAGCAGCAAGGAAAT+TGG 0.345303 4:+41312548 MsaT019935.1:CDS
GGAGGAAATTCAAAGGATTA+AGG 0.360502 4:+41314070 MsaT019935.1:CDS
CATTTCCCTCATATTCACTT+TGG 0.399992 4:+41315057 MsaT019935.1:CDS
ATTTCCCTCATATTCACTTT+GGG 0.416154 4:+41315058 MsaT019935.1:CDS
ATATAACTTACTTAATGAAC+CGG 0.422652 4:-41313712 None:intergenic
GGGAGTTGAGGAGGAGGAAA+TGG 0.440779 4:-41310647 None:intergenic
TGCTTCCCAAAGTGAATATG+AGG 0.444364 4:-41315063 None:intergenic
GGGACTCGTGAAAAGACTAA+TGG 0.445379 4:+41315111 MsaT019935.1:CDS
CGACGAATGGGAGGAATCCT+AGG 0.445790 4:-41312632 None:intergenic
GTGTTCCTTCTGCTTACAAC+CGG 0.449198 4:+41313693 MsaT019935.1:CDS
TGGGAAGCAGCAAGCAAAGT+TGG 0.453770 4:+41315077 MsaT019935.1:CDS
TCCTCCTCCTCAACTCCCTC+AGG 0.474865 4:+41310652 MsaT019935.1:CDS
CAACAAAATAGCATCATTTG+AGG 0.493091 4:+41312589 MsaT019935.1:CDS
AGAGTGTGACTCACGACGAA+TGG 0.516345 4:-41312645 None:intergenic
TAGTAGAGCACGAACATCCT+AGG 0.516780 4:+41312615 MsaT019935.1:CDS
GAGTGTGACTCACGACGAAT+GGG 0.531160 4:-41312644 None:intergenic
ACCTGAGGGAGTTGAGGAGG+AGG 0.539948 4:-41310653 None:intergenic
TGAATTATGTGCTGTTTCTG+TGG 0.544740 4:-41312521 None:intergenic
GGAGGAAATGGCTGAAGTAA+TGG 0.547935 4:-41310635 None:intergenic
CAGCAAGCAAAGTTGGATCA+TGG 0.562735 4:+41315084 MsaT019935.1:CDS
GCAAAGTTGGATCATGGTGA+AGG 0.573037 4:+41315090 MsaT019935.1:CDS
AAACATACCTGAGGGAGTTG+AGG 0.577695 4:-41310659 None:intergenic
ATGAACCGGTTGTAAGCAGA+AGG 0.582569 4:-41313698 None:intergenic
GTAATCCAGATATCAGCCAC+AGG 0.588300 4:+41314096 MsaT019935.1:CDS
CAAAGTTGGATCATGGTGAA+GGG 0.606710 4:+41315091 MsaT019935.1:CDS
TCTGTAGGGAGGAAATTCAA+AGG 0.621966 4:+41314063 MsaT019935.1:intron
CTGAGCTGAAAGCCTCCCTG+TGG 0.623676 4:-41314112 None:intergenic
CAGGGAGGCTTTCAGCTCAG+CGG 0.634037 4:+41314115 MsaT019935.1:CDS
CATACCTGAGGGAGTTGAGG+AGG 0.635233 4:-41310656 None:intergenic
TGTGACTCACGACGAATGGG+AGG 0.645995 4:-41312641 None:intergenic
TCATGAAGAAGCAAGCAGCA+AGG 0.659976 4:+41312541 MsaT019935.1:CDS
GCTTCCCAAAGTGAATATGA+GGG 0.661736 4:-41315062 None:intergenic
TCCAGATATCAGCCACAGGG+AGG 0.683704 4:+41314100 MsaT019935.1:CDS
TAATCCAGATATCAGCCACA+GGG 0.696359 4:+41314097 MsaT019935.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 41310626 41315143 41310626 ID=MsaG019935
Chr4 mRNA 41310626 41315143 41310626 ID=MsaT019935.1;Parent=MsaG019935
Chr4 exon 41310626 41310673 41310626 ID=MsaT019935.1.exon1;Parent=MsaT019935.1
Chr4 CDS 41310626 41310673 41310626 ID=cds.MsaT019935.1;Parent=MsaT019935.1
Chr4 exon 41312521 41312653 41312521 ID=MsaT019935.1.exon2;Parent=MsaT019935.1
Chr4 CDS 41312521 41312653 41312521 ID=cds.MsaT019935.1;Parent=MsaT019935.1
Chr4 exon 41313675 41313723 41313675 ID=MsaT019935.1.exon3;Parent=MsaT019935.1
Chr4 CDS 41313675 41313723 41313675 ID=cds.MsaT019935.1;Parent=MsaT019935.1
Chr4 exon 41314070 41314145 41314070 ID=MsaT019935.1.exon4;Parent=MsaT019935.1
Chr4 CDS 41314070 41314145 41314070 ID=cds.MsaT019935.1;Parent=MsaT019935.1
Chr4 exon 41315051 41315143 41315051 ID=MsaT019935.1.exon5;Parent=MsaT019935.1
Chr4 CDS 41315051 41315143 41315051 ID=cds.MsaT019935.1;Parent=MsaT019935.1
Gene Sequence

>MsaT019935.1

ATGGTGGCACCATTACTTCAGCCATTTCCTCCTCCTCAACTCCCTCAGCCACAGAAACAGCACATAATTCATGAAGAAGCAAGCAGCAAGGAAATTGGATCATCATCTTCAAAATGCAACAAAATAGCATCATTTGAGGCAGTAGTAGAGCACGAACATCCTAGGATTCCTCCCATTCGTCCTATAGAGAAAAGACATCGTGTTCCTTCTGCTTACAACCGGTTCATTAAGGAGGAAATTCAAAGGATTAAGGCCAGTAATCCAGATATCAGCCACAGGGAGGCTTTCAGCTCAGCGGCAAAAAATTGGGCACATTTCCCTCATATTCACTTTGGGAAGCAGCAAGCAAAGTTGGATCATGGTGAAGGGACTCGTGAAAAGACTAATGGATTCTACTGA

Protein sequence

>MsaT019935.1

MVAPLLQPFPPPQLPQPQKQHIIHEEASSKEIGSSSSKCNKIASFEAVVEHEHPRIPPIRPIEKRHRVPSAYNRFIKEEIQRIKASNPDISHREAFSSAAKNWAHFPHIHFGKQQAKLDHGEGTREKTNGFY*