AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014590

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014590 MtrunA17_Chr3g0107381 93.665 221 8 1 1 215 1 221 4.24e-154 426
MsaG014590 MtrunA17_Chr3g0110131 53.361 238 87 4 1 215 1 237 9.09e-75 226
MsaG014590 MtrunA17_Chr8g0351751 47.984 248 91 7 1 215 1 243 4.70e-63 196
MsaG014590 MtrunA17_Chr3g0107461 52.174 161 76 1 1 160 1 161 7.64e-56 175
MsaG014590 MtrunA17_Chr4g0014321 50.641 156 76 1 1 155 1 156 2.56e-53 171
MsaG014590 MtrunA17_Chr4g0013041 50.649 154 73 2 1 153 1 152 2.92e-51 164
MsaG014590 MtrunA17_Chr4g0014031 43.172 227 113 5 1 214 1 224 6.37e-51 164
MsaG014590 MtrunA17_Chr3g0107331 47.712 153 80 0 3 155 2 154 9.09e-51 162
MsaG014590 MtrunA17_Chr4g0014121 52.866 157 73 1 1 156 29 185 5.26e-49 158
MsaG014590 MtrunA17_Chr4g0014131 53.548 155 71 1 1 154 1 155 1.09e-48 159
MsaG014590 MtrunA17_Chr5g0432691 43.125 160 91 0 1 160 1 160 5.82e-47 152
MsaG014590 MtrunA17_Chr2g0283941 43.956 182 96 3 1 181 1 177 9.81e-47 154
MsaG014590 MtrunA17_Chr2g0296831 59.836 122 49 0 1 122 1 122 1.01e-46 150
MsaG014590 MtrunA17_Chr4g0031421 52.414 145 64 3 29 171 1 142 1.18e-43 143
MsaG014590 MtrunA17_Chr3g0107351 41.830 153 89 0 3 155 2 154 3.64e-42 140
MsaG014590 MtrunA17_Chr5g0420351 45.455 154 83 1 1 154 1 153 4.88e-42 139
MsaG014590 MtrunA17_Chr3g0107361 41.250 160 94 0 3 162 2 161 3.51e-41 137
MsaG014590 MtrunA17_Chr3g0105791 49.306 144 70 2 29 171 1 142 5.92e-41 136
MsaG014590 MtrunA17_Chr3g0107341 39.241 158 96 0 3 160 2 159 5.23e-39 132
MsaG014590 MtrunA17_Chr2g0296861 44.937 158 87 0 1 158 1 158 4.71e-37 127
MsaG014590 MtrunA17_Chr7g0218151 47.059 153 80 1 1 153 1 152 9.99e-36 123
MsaG014590 MtrunA17_Chr1g0197261 37.662 154 95 1 1 154 1 153 1.35e-34 120
MsaG014590 MtrunA17_Chr1g0193311 45.455 154 83 1 1 154 1 153 2.44e-34 120
MsaG014590 MtrunA17_Chr4g0012761 45.752 153 82 1 1 153 1 152 4.71e-34 119
MsaG014590 MtrunA17_Chr1g0188681 42.484 153 87 1 1 153 1 152 8.88e-34 118
MsaG014590 MtrunA17_Chr1g0197461 38.158 152 93 1 3 154 2 152 2.00e-33 117
MsaG014590 MtrunA17_Chr3g0106421 40.541 148 85 2 29 173 1 148 2.23e-33 119
MsaG014590 MtrunA17_Chr1g0188661 43.791 153 85 1 1 153 1 152 3.26e-32 114
MsaG014590 MtrunA17_Chr3g0106501 46.457 127 67 1 29 154 1 127 7.85e-32 113
MsaG014590 MtrunA17_Chr1g0197321 36.129 155 97 2 1 154 1 154 4.04e-30 109
MsaG014590 MtrunA17_Chr1g0188651 43.791 153 83 2 1 153 1 150 4.53e-29 106
MsaG014590 MtrunA17_Chr4g0008701 34.146 164 104 2 1 161 1 163 1.32e-23 97.8
MsaG014590 MtrunA17_Chr7g0267601 31.098 164 109 2 1 161 1 163 3.36e-22 94.0
MsaG014590 MtrunA17_Chr3g0128721 28.947 152 108 0 3 154 6 157 5.07e-20 87.8
MsaG014590 MtrunA17_Chr6g0457851 25.786 159 104 5 1 153 11 161 1.45e-15 74.3
MsaG014590 MtrunA17_Chr2g0296851 48.193 83 42 1 74 155 1 83 2.50e-15 68.9
MsaG014590 MtrunA17_Chr1g0212151 28.369 141 87 5 1 135 1 133 9.70e-15 72.0
MsaG014590 MtrunA17_Chr6g0449851 25.333 225 140 9 1 215 1 207 1.38e-13 68.2
MsaG014590 MtrunA17_Chr4g0022641 28.676 136 91 4 1 131 1 135 3.10e-13 67.8
MsaG014590 MtrunA17_Chr4g0059631 30.147 136 89 4 1 131 1 135 1.14e-12 65.1
MsaG014590 MtrunA17_Chr6g0449861 29.204 113 73 3 1 107 9 120 1.18e-12 65.9
MsaG014590 MtrunA17_Chr1g0212471 25.862 174 114 3 1 168 1 165 1.39e-11 61.2
MsaG014590 MtrunA17_Chr4g0061691 29.586 169 101 4 1 165 1 155 5.12e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014590 AT5G48670.1 52.000 175 82 1 1 173 1 175 5.37e-54 176
MsaG014590 AT3G05860.2 39.801 201 113 3 1 195 1 199 2.89e-41 139
MsaG014590 AT3G05860.1 40.838 191 105 3 1 185 1 189 3.26e-40 138
MsaG014590 AT3G05860.3 41.304 184 100 3 1 178 1 182 2.04e-39 136
MsaG014590 AT1G65300.1 40.789 152 90 0 3 154 2 153 1.10e-37 132
MsaG014590 AT5G26650.1 40.397 151 90 0 4 154 2 152 1.85e-35 129
MsaG014590 AT5G27810.1 60.215 93 37 0 29 121 1 93 1.86e-35 122
MsaG014590 AT1G65330.1 39.474 152 92 0 3 154 2 153 5.35e-35 125
MsaG014590 AT1G31630.1 38.816 152 90 3 3 153 2 151 6.24e-34 124
MsaG014590 AT5G27960.1 38.411 151 93 0 4 154 2 152 4.83e-33 121
MsaG014590 AT1G31640.1 40.000 150 89 1 3 152 2 150 5.16e-33 124
MsaG014590 AT5G26630.1 40.909 154 91 0 1 154 1 154 7.24e-33 118
MsaG014590 AT2G28700.1 36.667 150 93 2 1 149 1 149 1.42e-28 109
MsaG014590 AT1G22590.2 36.025 161 94 2 1 158 1 155 3.95e-26 99.4
MsaG014590 AT5G06500.1 29.714 175 119 2 1 175 1 171 6.84e-23 92.8
MsaG014590 AT5G26580.1 33.117 154 89 1 1 154 1 140 6.95e-23 94.7
MsaG014590 AT2G40210.1 42.188 128 74 0 1 128 1 128 2.14e-22 94.0
MsaG014590 AT2G15660.1 29.268 123 80 2 38 157 31 149 3.41e-12 64.3
MsaG014590 AT5G55690.1 35.714 98 56 2 1 91 1 98 1.93e-11 62.4
MsaG014590 AT5G55690.2 35.714 98 56 2 1 91 1 98 1.93e-11 62.4

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACATTGTGCCACATGGTTTC+TGG 0.169034 3:-75674550 MsaT014590.1:CDS
TCCCCTCCTCTTTGTGTCAC+TGG 0.360448 3:+75675802 None:intergenic
CTCCAGTCACATTTCCAGCT+TGG 0.368302 3:+75674678 None:intergenic
CAGAGGTTTGGCCTTCGCCC+TGG 0.370238 3:-75675006 MsaT014590.1:CDS
AAATGTGACTGGAGGGGAGC+AGG 0.397749 3:-75674669 MsaT014590.1:CDS
AGAGGTTTGGCCTTCGCCCT+GGG 0.401660 3:-75675005 MsaT014590.1:CDS
AACAAAGGAATGACAACAAA+AGG 0.420798 3:-75674862 MsaT014590.1:CDS
GATGTGTTACCATTTGAAAA+TGG 0.433134 3:-75674575 MsaT014590.1:CDS
GGCCAATGCTGCCTTTGCAT+TGG 0.439467 3:+75674626 None:intergenic
TTCGCCCTGGGGAGTGCAAA+AGG 0.444082 3:-75674993 MsaT014590.1:CDS
ACGATCCTCAACCAGAGGTT+TGG 0.446002 3:-75675018 MsaT014590.1:CDS
CACATCACCAATGTTGTTGT+TGG 0.473556 3:+75674592 None:intergenic
GACTGGAGGGGAGCAGGGAA+TGG 0.473606 3:-75674663 MsaT014590.1:CDS
GCTCTAGTTCGGGCAATCTC+CGG 0.474104 3:+75674957 None:intergenic
ATCCAATGCAAAGGCAGCAT+TGG 0.475495 3:-75674628 MsaT014590.1:CDS
CAGGGCGAAGGCCAAACCTC+TGG 0.485317 3:+75675007 None:intergenic
CGATCAGTCTCAAGCTGAAG+AGG 0.491578 3:-75674711 MsaT014590.1:CDS
AATGTGACTGGAGGGGAGCA+GGG 0.507720 3:-75674668 MsaT014590.1:CDS
AAAAGGTGCTGTCAAGGTTC+CGG 0.507965 3:-75674976 MsaT014590.1:CDS
CTTTGTGTCACTGGTGATGT+AGG 0.508282 3:+75675811 None:intergenic
AAGAGAGTTTCTTGAAGCAA+AGG 0.517056 3:-75674913 MsaT014590.1:CDS
ATGTTTCAATGCCTTAATGC+TGG 0.536723 3:-75674821 MsaT014590.1:CDS
CGCTGCCATGACTAGGAAGA+AGG 0.539960 3:-75675843 None:intergenic
TTCTCAACGCTGCCATGACT+AGG 0.541469 3:-75675850 None:intergenic
GATTTCACCAACAACAACAT+TGG 0.549412 3:-75674599 MsaT014590.1:CDS
ATGAAATCAGCACGCTCTGT+GGG 0.552209 3:-75675072 MsaT014590.1:CDS
AACCAAGCTGGAAATGTGAC+TGG 0.555977 3:-75674680 MsaT014590.1:CDS
AGAACTTGAAACAGATCGAT+AGG 0.558346 3:-75674739 MsaT014590.1:CDS
GAGTGCAAAAGGTGCTGTCA+AGG 0.560319 3:-75674982 MsaT014590.1:CDS
GAGGTTGTTCAAAACCAAGC+TGG 0.560495 3:-75674692 MsaT014590.1:CDS
GCTCACCTTCTTCCTAGTCA+TGG 0.576647 3:+75675838 None:intergenic
CACCAGTGACACAAAGAGGA+GGG 0.584600 3:-75675804 MsaT014590.1:CDS
AAGCTGGAAATGTGACTGGA+GGG 0.588063 3:-75674676 MsaT014590.1:CDS
GCAAAGGCAGCATTGGCCAA+TGG 0.595451 3:-75674621 MsaT014590.1:CDS
TTGTTGTTGGTGAAATCCAT+TGG 0.595560 3:+75674605 None:intergenic
GAAGGCCAAACCTCTGGTTG+AGG 0.596659 3:+75675013 None:intergenic
AAGAACAGCTGAAGAAACAA+AGG 0.602104 3:-75674877 MsaT014590.1:CDS
AAGGAATGACAACAAAAGGA+AGG 0.606288 3:-75674858 MsaT014590.1:CDS
TGTCACTGGTGATGTAGGCA+AGG 0.608234 3:+75675816 None:intergenic
AGCTGGAAATGTGACTGGAG+GGG 0.624312 3:-75674675 MsaT014590.1:CDS
GAGGTTTGGCCTTCGCCCTG+GGG 0.626406 3:-75675004 MsaT014590.1:CDS
ACCAGTGACACAAAGAGGAG+GGG 0.628101 3:-75675803 MsaT014590.1:CDS
ACATCACCAGTGACACAAAG+AGG 0.631331 3:-75675808 MsaT014590.1:CDS
CAAGCTGGAAATGTGACTGG+AGG 0.651743 3:-75674677 MsaT014590.1:CDS
ATGATCTCAATGATATCTCA+TGG 0.651968 3:-75674772 MsaT014590.1:CDS
ACATTGCTGATCCAATGCAA+AGG 0.652826 3:-75674637 MsaT014590.1:CDS
TGAGATCATCCATGCCAACA+TGG 0.658598 3:+75674786 None:intergenic
AATGGTAACATTGTGCCACA+TGG 0.661986 3:-75674557 MsaT014590.1:CDS
TCAAAACGATCCTCAACCAG+AGG 0.673462 3:-75675023 MsaT014590.1:CDS
GATGAAATCAGCACGCTCTG+TGG 0.675321 3:-75675073 MsaT014590.1:CDS
TCACCAGTGACACAAAGAGG+AGG 0.677630 3:-75675805 MsaT014590.1:CDS
GATCAAGGCCAGAAACCATG+TGG 0.733784 3:+75674542 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 75674544 75675858 75674544 ID=MsaG014590
Chr3 mRNA 75674544 75675858 75674544 ID=MsaT014590.1;Parent=MsaG014590
Chr3 exon 75674544 75675112 75674544 ID=MsaT014590.1.exon2;Parent=MsaT014590.1
Chr3 CDS 75674544 75675112 75674544 ID=cds.MsaT014590.1;Parent=MsaT014590.1
Chr3 exon 75675780 75675858 75675780 ID=MsaT014590.1.exon1;Parent=MsaT014590.1
Chr3 CDS 75675780 75675858 75675780 ID=cds.MsaT014590.1;Parent=MsaT014590.1
Gene Sequence

>MsaT014590.1

ATGACTAGGAAGAAGGTGAGCCTTGCCTACATCACCAGTGACACAAAGAGGAGGGGAACATTCAAGAAAAGAAAAAATGGTTTGATCAAGAAGATTGATGAAATCAGCACGCTCTGTGGGATTGAAGCATGTGCAATCATCTTTGATCAAAACGATCCTCAACCAGAGGTTTGGCCTTCGCCCTGGGGAGTGCAAAAGGTGCTGTCAAGGTTCCGGAGATTGCCCGAACTAGAGCAAAGCAAAAAAATGTTCAATCAAGAGAGTTTCTTGAAGCAAAGGATCCAAAAAGCTCAAGAACAGCTGAAGAAACAAAGGAATGACAACAAAAGGAAGGAAATGACTCATCTGATGTTTCAATGCCTTAATGCTGGTCAGATTTTTGACCATGTTGGCATGGATGATCTCAATGATATCTCATGGTTGATTGATCAGAACTTGAAACAGATCGATAGGAAACTCGATCAGTCTCAAGCTGAAGAGGTTGTTCAAAACCAAGCTGGAAATGTGACTGGAGGGGAGCAGGGAATGGAGAACATTGCTGATCCAATGCAAAGGCAGCATTGGCCAATGGATTTCACCAACAACAACATTGGTGATGTGTTACCATTTGAAAATGGTAACATTGTGCCACATGGTTTCTGGCCTTGA
Protein sequence

>MsaT014590.1

MTRKKVSLAYITSDTKRRGTFKKRKNGLIKKIDEISTLCGIEACAIIFDQNDPQPEVWPSPWGVQKVLSRFRRLPELEQSKKMFNQESFLKQRIQKAQEQLKKQRNDNKRKEMTHLMFQCLNAGQIFDHVGMDDLNDISWLIDQNLKQIDRKLDQSQAEEVVQNQAGNVTGGEQGMENIADPMQRQHWPMDFTNNNIGDVLPFENGNIVPHGFWP*