AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038697

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038697 MtrunA17_Chr4g0059701 90.909 88 8 0 124 211 80 167 2.53e-40 139
MsaG038697 MtrunA17_Chr3g0092621 75.581 86 19 1 122 205 76 161 7.31e-40 134
MsaG038697 MtrunA17_Chr6g0488471 75.362 69 17 0 124 192 93 161 9.41e-34 122
MsaG038697 MtrunA17_Chr4g0055931 73.611 72 19 0 124 195 91 162 1.20e-33 122
MsaG038697 MtrunA17_Chr2g0331031 68.919 74 23 0 124 197 105 178 3.66e-33 122
MsaG038697 MtrunA17_Chr5g0415191 83.784 74 12 0 124 197 98 171 4.39e-32 118
MsaG038697 MtrunA17_Chr8g0389241 72.464 69 18 1 124 192 101 168 4.38e-31 115
MsaG038697 MtrunA17_Chr4g0062741 69.014 71 22 0 124 194 134 204 1.14e-29 111
MsaG038697 MtrunA17_Chr1g0210471 57.303 89 38 0 118 206 114 202 1.72e-29 110
MsaG038697 MtrunA17_Chr1g0162081 67.606 71 23 0 124 194 118 188 1.50e-28 108
MsaG038697 MtrunA17_Chr3g0104071 55.914 93 38 1 124 213 143 235 1.04e-27 107
MsaG038697 MtrunA17_Chr5g0429521 64.000 75 27 0 124 198 128 202 1.07e-27 106
MsaG038697 MtrunA17_Chr7g0241761 57.955 88 36 1 106 193 119 205 2.87e-27 105
MsaG038697 MtrunA17_Chr6g0452791 73.770 61 16 0 128 188 80 140 3.09e-26 99.8
MsaG038697 MtrunA17_Chr7g0267431 68.354 79 22 1 72 150 38 113 5.71e-25 100
MsaG038697 MtrunA17_Chr5g0436501 55.952 84 35 1 124 205 121 204 1.14e-24 97.8
MsaG038697 MtrunA17_Chr3g0135671 59.722 72 26 1 127 195 90 161 3.44e-24 95.9
MsaG038697 MtrunA17_Chr5g0440741 46.250 80 37 2 130 203 102 181 5.49e-18 80.1
MsaG038697 MtrunA17_Chr5g0409841 43.373 83 42 2 130 207 94 176 7.49e-18 79.0
MsaG038697 MtrunA17_Chr5g0440731 45.122 82 39 2 128 203 105 186 2.65e-17 78.6
MsaG038697 MtrunA17_Chr5g0409831 44.186 86 42 2 128 207 77 162 2.90e-17 77.4
MsaG038697 MtrunA17_Chr8g0365011 47.436 78 27 2 130 193 94 171 1.20e-14 70.9
MsaG038697 MtrunA17_Chr8g0364731 57.627 59 23 1 137 193 10 68 2.69e-14 68.6
MsaG038697 MtrunA17_Chr3g0113121 47.222 72 31 1 130 194 97 168 2.71e-13 66.2
MsaG038697 MtrunA17_Chr1g0192061 48.571 70 32 2 130 196 63 131 6.62e-13 64.7
MsaG038697 MtrunA17_Chr5g0432941 44.000 75 39 2 130 202 115 188 2.48e-12 63.9
MsaG038697 MtrunA17_Chr5g0432921 44.000 75 39 2 130 202 115 188 3.14e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038697 AT5G47390.1 64.444 90 32 0 124 213 92 181 2.86e-37 133
MsaG038697 AT1G49010.1 70.423 71 21 0 124 194 130 200 5.11e-30 113
MsaG038697 AT1G70000.1 71.765 85 24 0 124 208 94 178 7.90e-30 111
MsaG038697 AT1G70000.2 71.765 85 24 0 124 208 94 178 7.90e-30 111
MsaG038697 AT5G04760.1 60.714 84 32 1 119 201 90 173 2.73e-29 108
MsaG038697 AT5G56840.1 64.198 81 24 2 124 203 87 163 6.89e-29 108
MsaG038697 AT3G16350.1 57.282 103 42 1 113 213 122 224 9.64e-29 111
MsaG038697 AT2G38090.1 61.538 78 30 0 124 201 137 214 3.25e-28 108
MsaG038697 AT1G74840.2 78.049 82 16 1 124 205 92 171 4.22e-28 106
MsaG038697 AT5G58900.1 66.197 71 24 0 124 194 137 207 4.45e-28 107
MsaG038697 AT5G08520.1 66.197 71 24 0 124 194 114 184 4.84e-28 107
MsaG038697 AT1G19000.2 71.765 85 24 0 124 208 98 182 5.58e-28 107
MsaG038697 AT1G19000.1 71.765 85 24 0 124 208 98 182 5.58e-28 107
MsaG038697 AT1G74840.1 78.049 82 16 1 124 205 92 171 6.35e-28 106
MsaG038697 AT5G61620.1 65.672 67 23 0 127 193 107 173 8.25e-27 104
MsaG038697 AT5G01200.1 61.972 71 27 0 124 194 142 212 6.06e-25 99.0
MsaG038697 AT5G05790.2 58.667 75 31 0 120 194 123 197 3.55e-24 97.1
MsaG038697 AT5G05790.1 58.667 75 31 0 120 194 123 197 3.55e-24 97.1
MsaG038697 AT3G11280.2 58.108 74 31 0 124 197 123 196 7.92e-24 95.9
MsaG038697 AT3G11280.1 58.108 74 31 0 124 197 123 196 7.92e-24 95.9
MsaG038697 AT4G09450.1 50.000 78 39 0 124 201 87 164 2.05e-20 85.5
MsaG038697 AT3G10580.2 56.716 67 27 1 127 193 94 158 5.02e-20 85.5
MsaG038697 AT3G10580.1 56.716 67 27 1 127 193 94 158 7.63e-20 85.5
MsaG038697 AT5G23650.1 55.714 70 31 0 124 193 116 185 8.01e-19 83.6
MsaG038697 AT3G10590.1 46.154 78 41 1 129 206 112 188 6.19e-17 76.3
MsaG038697 AT3G09180.2 53.571 56 25 1 72 127 38 92 2.40e-12 65.5
MsaG038697 AT3G09180.3 53.571 56 25 1 72 127 38 92 3.03e-12 65.1
MsaG038697 AT3G09180.1 53.571 56 25 1 72 127 38 92 3.03e-12 65.1

Find 48 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCGGAGTCTCGGCTTGATT+CGG 0.388701 7:+79680169 None:intergenic
ATGATATGTTCGGCTTGATT+CGG 0.395107 7:+79680117 None:intergenic
TTGACCTGTTCTGCCTCCAC+TGG 0.404876 7:+79676027 None:intergenic
TTGCCCTTGGAGTTTGTGTA+TGG 0.405123 7:-79680707 MsaT038697.1:CDS
AATTCCAGTGGAGGCAGAAC+AGG 0.422715 7:-79676031 MsaT038697.1:CDS
TGATACGTTCGGCGATGATT+CGG 0.436169 7:+79680151 None:intergenic
AGAAAGTGAGAAAAGGTGAT+TGG 0.439667 7:-79677797 MsaT038697.1:CDS
TTGTTGCGGTTGTTAATATG+AGG 0.443091 7:-79680682 MsaT038697.1:CDS
TGTTAATATGAGGGTGGAGT+TGG 0.464910 7:-79680672 MsaT038697.1:intron
GGAGAAGATCGGCGCTGATT+CGG 0.472449 7:+79680085 None:intergenic
TCAAATGACGGTGTTGCCCT+TGG 0.476105 7:-79680720 None:intergenic
TTTCAAGACCTTCGATCCCT+CGG 0.505836 7:-79679970 MsaT038697.1:intron
AACGCATACCGAGGGATCGA+AGG 0.511646 7:+79679962 None:intergenic
TTCGGCTTGATTCGGAGTCT+CGG 0.518270 7:+79680125 None:intergenic
GTCATCGACGATATCAAGTT+CGG 0.525721 7:-79680208 MsaT038697.1:CDS
TGTTGCGGTTGTTAATATGA+GGG 0.530020 7:-79680681 MsaT038697.1:CDS
GATGTCGGCGATGATATGTT+CGG 0.532622 7:+79680107 None:intergenic
GGTGGTGATATCAAAGAGAC+TGG 0.540239 7:+79677665 None:intergenic
TAAAGCTTCGAGGAGAAGAT+CGG 0.546795 7:+79680074 None:intergenic
ATCGGCGCTGATTCGGATGT+CGG 0.551088 7:+79680092 None:intergenic
TCTTTGACGAAAACTTGAAG+AGG 0.553058 7:+79680015 None:intergenic
AACAGGTCAAGAATCAAGAT+AGG 0.553293 7:-79676014 MsaT038697.1:CDS
TCGGCGATGATTCGGAGTCT+CGG 0.556071 7:+79680159 None:intergenic
CGGCGATGACTAAAGCTTCG+AGG 0.557359 7:+79680064 None:intergenic
AGTCTCGGCGATGATACGTT+CGG 0.557448 7:+79680140 None:intergenic
TGCGGTTGTTAATATGAGGG+TGG 0.557791 7:-79680678 MsaT038697.1:CDS
GGATTGGAGAAAGTGAGAAA+AGG 0.560332 7:-79677804 MsaT038697.1:CDS
TTGTGCTCTTCCTCAGTCCA+CGG 0.578432 7:+79677840 None:intergenic
TATCAAAGAGACTGGATCTA+CGG 0.592657 7:+79677673 None:intergenic
ATTGCCTTGATGAGGTTGAA+CGG 0.594399 7:+79680041 None:intergenic
GTCTTGAAAATGATGTTGCA+TGG 0.601638 7:+79679984 None:intergenic
GTGAGAAAAGGTGATTGGAG+AGG 0.602581 7:-79677792 MsaT038697.1:CDS
GACGATTGAGATTACTTCGG+CGG 0.616099 7:+79677700 None:intergenic
GTGATTGGAGAGGAATCTCA+AGG 0.619264 7:-79677782 MsaT038697.1:CDS
GTTTGTGTATGGTATTGTTG+CGG 0.624399 7:-79680696 MsaT038697.1:CDS
TGAATGGATCAGGGATTCCG+TGG 0.626840 7:-79677857 MsaT038697.1:intron
GCCGCCGTTCAACCTCATCA+AGG 0.628875 7:-79680045 MsaT038697.1:CDS
AGAGGCTTATTGCCTTGATG+AGG 0.633931 7:+79680033 None:intergenic
CTTTGATATCACCACCGACA+CGG 0.638033 7:-79677658 MsaT038697.1:intron
TTAGGTATCTGCAATTCCAG+TGG 0.643696 7:-79676043 MsaT038697.1:intron
GGTATCTGCAATTCCAGTGG+AGG 0.652641 7:-79676040 MsaT038697.1:CDS
AATACCATACACAAACTCCA+AGG 0.658663 7:+79680703 None:intergenic
ATCAGGGATTCCGTGGACTG+AGG 0.660333 7:-79677850 MsaT038697.1:intron
ATACCATACACAAACTCCAA+GGG 0.668173 7:+79680704 None:intergenic
GACGACGATTGAGATTACTT+CGG 0.681636 7:+79677697 None:intergenic
TGATATCGTCGATGACACAA+AGG 0.683462 7:+79680215 None:intergenic
GCATGACTTGCAACATACGT+AGG 0.714534 7:+79677738 None:intergenic
GCCTTGATGAGGTTGAACGG+CGG 0.715253 7:+79680044 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 79676008 79680738 79676008 ID=MsaG038697
Chr7 mRNA 79676008 79680738 79676008 ID=MsaT038697.1;Parent=MsaG038697
Chr7 exon 79676008 79676061 79676008 ID=MsaT038697.1.exon4;Parent=MsaT038697.1
Chr7 CDS 79676008 79676061 79676008 ID=cds.MsaT038697.1;Parent=MsaT038697.1
Chr7 exon 79677659 79677867 79677659 ID=MsaT038697.1.exon3;Parent=MsaT038697.1
Chr7 CDS 79677659 79677867 79677659 ID=cds.MsaT038697.1;Parent=MsaT038697.1
Chr7 exon 79679971 79680283 79679971 ID=MsaT038697.1.exon2;Parent=MsaT038697.1
Chr7 CDS 79679971 79680283 79679971 ID=cds.MsaT038697.1;Parent=MsaT038697.1
Chr7 exon 79680673 79680738 79680673 ID=MsaT038697.1.exon1;Parent=MsaT038697.1
Chr7 CDS 79680673 79680738 79680673 ID=cds.MsaT038697.1;Parent=MsaT038697.1
Gene Sequence

>MsaT038697.1

ATGACGGTGTTGCCCTTGGAGTTTGTGTATGGTATTGTTGCGGTTGTTAATATGAGGGTGGAGTTGCGGTTTGTAGATAACAAAAATTCACTTTCGTTCATTGACAGAAACTCCTTTGTGTCATCGACGATATCAAGTTCGGCTCTTTCGTTCAACATCCGAATCAAGCCGAGACTCCGAATCATCGCCGAACGTATCATCGCCGAGACTCCGAATCAAGCCGAACATATCATCGCCGACATCCGAATCAGCGCCGATCTTCTCCTCGAAGCTTTAGTCATCGCCGCCGTTCAACCTCATCAAGGCAATAAGCCTCTTCAAGTTTTCGTCAAAGAGAATGCTTCCATGCAACATCATTTTCAAGACCTTCGATCCCTCGGGATTCCGTGGACTGAGGAAGAGCACAAGATGTTTTTGGTTGGATTGGAGAAAGTGAGAAAAGGTGATTGGAGAGGAATCTCAAGGAACTATGTGAAAACAAGAACGCCTACGTATGTTGCAAGTCATGCTCAGAAGTACTTTCTCCGCCGAAGTAATCTCAATCGTCGTCGCCGTAGATCCAGTCTCTTTGATATCACCACCGACACGGTATCTGCAATTCCAGTGGAGGCAGAACAGGTCAAGAATCAAGATAGGCCTTGA
Protein sequence

>MsaT038697.1

MTVLPLEFVYGIVAVVNMRVELRFVDNKNSLSFIDRNSFVSSTISSSALSFNIRIKPRLRIIAERIIAETPNQAEHIIADIRISADLLLEALVIAAVQPHQGNKPLQVFVKENASMQHHFQDLRSLGIPWTEEEHKMFLVGLEKVRKGDWRGISRNYVKTRTPTYVASHAQKYFLRRSNLNRRRRRSSLFDITTDTVSAIPVEAEQVKNQDRP*