AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017046

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017046 MtrunA17_Chr3g0135671 95.000 140 7 0 1 140 91 230 1.12e-95 275
MsaG017046 MtrunA17_Chr4g0055931 54.545 88 36 2 2 88 96 180 6.69e-26 99.8
MsaG017046 MtrunA17_Chr6g0488471 58.333 84 31 2 1 83 97 177 1.84e-25 97.8
MsaG017046 MtrunA17_Chr8g0389241 61.111 72 25 1 1 72 105 173 1.67e-24 95.1
MsaG017046 MtrunA17_Chr2g0331031 66.154 65 19 1 1 65 109 170 1.12e-23 94.4
MsaG017046 MtrunA17_Chr5g0429521 49.485 97 42 2 1 97 132 221 2.28e-23 92.8
MsaG017046 MtrunA17_Chr3g0104071 56.410 78 27 2 1 78 147 217 1.33e-21 88.2
MsaG017046 MtrunA17_Chr7g0241761 67.797 59 19 0 1 59 140 198 1.37e-21 88.2
MsaG017046 MtrunA17_Chr4g0062741 57.353 68 26 1 1 68 138 202 2.31e-21 87.4
MsaG017046 MtrunA17_Chr1g0210471 69.492 59 16 1 2 60 125 181 2.60e-21 86.3
MsaG017046 MtrunA17_Chr4g0059701 74.468 47 12 0 1 47 84 130 4.19e-21 86.3
MsaG017046 MtrunA17_Chr5g0415191 75.000 48 12 0 1 48 102 149 4.87e-21 86.7
MsaG017046 MtrunA17_Chr1g0162081 51.899 79 35 1 1 79 122 197 5.50e-21 86.3
MsaG017046 MtrunA17_Chr5g0436501 70.370 54 16 0 1 54 125 178 8.14e-21 85.5
MsaG017046 MtrunA17_Chr5g0409841 51.316 76 36 1 3 78 94 168 3.80e-20 82.8
MsaG017046 MtrunA17_Chr5g0440741 54.688 64 29 0 3 66 102 165 6.25e-20 83.2
MsaG017046 MtrunA17_Chr5g0440731 53.125 64 30 0 3 66 107 170 8.44e-20 83.2
MsaG017046 MtrunA17_Chr6g0452791 68.750 48 15 0 1 48 80 127 1.69e-19 79.7
MsaG017046 MtrunA17_Chr3g0092621 59.322 59 24 0 1 59 84 142 2.12e-19 79.7
MsaG017046 MtrunA17_Chr5g0409831 65.217 46 16 0 3 48 79 124 1.31e-16 73.6
MsaG017046 MtrunA17_Chr1g0192061 49.231 65 32 1 3 67 63 126 2.27e-14 66.6
MsaG017046 MtrunA17_Chr3g0113121 48.571 70 32 1 3 68 97 166 3.49e-13 63.9
MsaG017046 MtrunA17_Chr5g0432921 64.583 48 16 1 3 50 115 161 5.60e-13 63.5
MsaG017046 MtrunA17_Chr5g0432941 64.583 48 16 1 3 50 115 161 5.71e-13 63.5
MsaG017046 MtrunA17_Chr8g0365011 42.500 80 32 2 3 68 94 173 2.94e-12 62.4
MsaG017046 MtrunA17_Chr8g0364731 50.769 65 31 1 10 74 10 73 1.57e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017046 AT5G56840.1 46.617 133 67 2 1 133 91 219 2.78e-25 96.7
MsaG017046 AT5G47390.1 55.952 84 25 2 2 85 97 168 5.69e-25 98.2
MsaG017046 AT2G38090.1 66.102 59 20 0 1 59 141 199 5.17e-22 89.4
MsaG017046 AT5G58900.1 66.102 59 20 0 1 59 141 199 5.69e-22 89.0
MsaG017046 AT5G01200.1 64.407 59 21 0 1 59 146 204 1.20e-21 87.8
MsaG017046 AT5G61620.1 60.000 70 25 1 2 71 109 175 1.21e-21 88.6
MsaG017046 AT1G70000.1 78.723 47 10 0 2 48 99 145 1.90e-21 87.4
MsaG017046 AT1G70000.2 78.723 47 10 0 2 48 99 145 1.90e-21 87.4
MsaG017046 AT1G49010.1 60.294 68 24 2 1 68 134 198 2.74e-21 87.8
MsaG017046 AT3G16350.1 75.000 48 12 0 1 48 137 184 4.65e-21 87.8
MsaG017046 AT5G04760.1 53.750 80 31 2 2 77 100 177 2.19e-20 83.6
MsaG017046 AT5G08520.1 57.353 68 26 2 1 68 118 182 3.77e-20 84.3
MsaG017046 AT3G11280.2 64.407 59 21 0 1 59 127 185 1.15e-19 82.4
MsaG017046 AT3G11280.1 64.407 59 21 0 1 59 127 185 1.15e-19 82.4
MsaG017046 AT5G05790.2 64.407 59 21 0 1 59 131 189 2.21e-19 82.0
MsaG017046 AT5G05790.1 64.407 59 21 0 1 59 131 189 2.21e-19 82.0
MsaG017046 AT1G74840.2 70.213 47 14 0 1 47 96 142 3.40e-19 80.9
MsaG017046 AT4G09450.1 51.899 79 35 2 1 77 91 168 4.62e-19 79.7
MsaG017046 AT1G74840.1 70.213 47 14 0 1 47 96 142 4.81e-19 80.9
MsaG017046 AT1G19000.2 70.213 47 14 0 1 47 102 148 7.80e-19 80.5
MsaG017046 AT1G19000.1 70.213 47 14 0 1 47 102 148 7.80e-19 80.5
MsaG017046 AT3G10580.2 53.030 66 26 1 1 66 95 155 2.19e-18 79.0
MsaG017046 AT3G10580.1 53.030 66 26 1 1 66 95 155 3.21e-18 79.0
MsaG017046 AT3G10590.1 41.758 91 52 1 2 91 112 202 2.92e-13 64.7
MsaG017046 AT5G23650.1 63.830 47 17 0 1 47 120 166 4.15e-13 65.5

Find 34 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAGCTTGGGAAGGGTAAC+TGG 0.328316 3:+105178674 MsaT017046.1:CDS
CATGCCTCTGTTAGCTCTAA+TGG 0.334233 3:-105179137 None:intergenic
CTTATGCAGCTGATATCATT+TGG 0.348494 3:-105178966 None:intergenic
TTTGTGCATGACTAGCTACC+TGG 0.362976 3:-105178738 None:intergenic
TTTGGAGTCAAATTTATTCC+TGG 0.373119 3:-105178948 None:intergenic
AATTTCTACTTCCACTTAGT+TGG 0.375503 3:-105178989 None:intergenic
CTCAACATTCAATACTGAAA+TGG 0.409371 3:+105179036 MsaT017046.1:CDS
CTTAGAGGACTTGAGAAGCT+TGG 0.418302 3:+105178661 MsaT017046.1:CDS
TCCGTTGATGTTGAAGAGTT+AGG 0.422454 3:-105179059 None:intergenic
TTAGAGGACTTGAGAAGCTT+GGG 0.428690 3:+105178662 MsaT017046.1:CDS
GCAAGTTTGAGTTCTAAATC+AGG 0.432705 3:-105179104 None:intergenic
GAGCACATGATATTTCTTAG+AGG 0.438938 3:+105178646 MsaT017046.1:CDS
CTCTGTTAGCTCTAATGGCA+TGG 0.487511 3:-105179132 None:intergenic
TTACATAATGGAGGCTAAGA+TGG 0.500282 3:-105178810 None:intergenic
AAATCAGGTGCTGCACTATG+AGG 0.523156 3:-105179089 None:intergenic
TCTGTTAGCTCTAATGGCAT+GGG 0.534114 3:-105179131 None:intergenic
TGATCAAGCTATTCTGAGAC+TGG 0.538315 3:-105178774 None:intergenic
ACACTACTGGTTAGCTTAAG+GGG 0.538405 3:-105179162 None:intergenic
TTGTGCATGACTAGCTACCT+GGG 0.547274 3:-105178737 None:intergenic
TTAATTTACTTACATAATGG+AGG 0.564586 3:-105178819 None:intergenic
GGACTTGAGAAGCTTGGGAA+GGG 0.571874 3:+105178667 MsaT017046.1:CDS
ATGTGCTCCTCCTCGGTCCA+CGG 0.572063 3:-105178631 None:intergenic
GCCTAACTCTTCAACATCAA+CGG 0.576928 3:+105179058 MsaT017046.1:CDS
CATTTCAGTATTGAATGTTG+AGG 0.583001 3:-105179035 None:intergenic
AGCTGCATAAGCCAACTAAG+TGG 0.584599 3:+105178978 MsaT017046.1:CDS
AAATATCATGTGCTCCTCCT+CGG 0.585344 3:-105178638 None:intergenic
AGGACTTGAGAAGCTTGGGA+AGG 0.598172 3:+105178666 MsaT017046.1:CDS
ATCAGGTATGCCGTGGACCG+AGG 0.606863 3:+105178621 None:intergenic
GCATGACTAGCTACCTGGGT+TGG 0.613754 3:-105178733 None:intergenic
CTTGGGAAGGGTAACTGGAG+AGG 0.645821 3:+105178679 MsaT017046.1:CDS
AGGTATGCCGTGGACCGAGG+AGG 0.665092 3:+105178624 None:intergenic
TCAAGCTATTCTGAGACTGG+CGG 0.679211 3:-105178771 None:intergenic
TGAGGATGAGAAAGCCACTG+AGG 0.730112 3:-105179017 None:intergenic
CATGCCATTAGAGCTAACAG+AGG 0.740508 3:+105179133 MsaT017046.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 105178628 105179169 105178628 ID=MsaG017046
Chr3 mRNA 105178628 105179169 105178628 ID=MsaT017046.1;Parent=MsaG017046
Chr3 exon 105178628 105178828 105178628 ID=MsaT017046.1.exon1;Parent=MsaT017046.1
Chr3 CDS 105178628 105178828 105178628 ID=cds.MsaT017046.1;Parent=MsaT017046.1
Chr3 exon 105178933 105179169 105178933 ID=MsaT017046.1.exon2;Parent=MsaT017046.1
Chr3 CDS 105178933 105179169 105178933 ID=cds.MsaT017046.1;Parent=MsaT017046.1
Gene Sequence

>MsaT017046.1

ATGCCGTGGACCGAGGAGGAGCACATGATATTTCTTAGAGGACTTGAGAAGCTTGGGAAGGGTAACTGGAGAGGTATATCTAGAGATTTTGTAACAACAAAAACACCAACCCAGGTAGCTAGTCATGCACAAAAACATTTTCTCCGCCAGTCTCAGAATAGCTTGATCAATAGAAGAAAACACCATCTTAGCCTCCATTATGTGGGATGTGAAAAACCAGGAATAAATTTGACTCCAAATGATATCAGCTGCATAAGCCAACTAAGTGGAAGTAGAAATTTTCTTCCTCAGTGGCTTTCTCATCCTCAACATTCAATACTGAAATGGCCTAACTCTTCAACATCAACGGATTGTACTCCTCATAGTGCAGCACCTGATTTAGAACTCAAACTTGCAACTCCCATGCCATTAGAGCTAACAGAGGCATGCTCCCCTTAA
Protein sequence

>MsaT017046.1

MPWTEEEHMIFLRGLEKLGKGNWRGISRDFVTTKTPTQVASHAQKHFLRQSQNSLINRRKHHLSLHYVGCEKPGINLTPNDISCISQLSGSRNFLPQWLSHPQHSILKWPNSSTSTDCTPHSAAPDLELKLATPMPLELTEACSP*