AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043570

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043570 MtrunA17_Chr8g0364731 93.182 176 8 1 115 286 10 185 4.25e-116 331
MsaG043570 MtrunA17_Chr8g0365011 59.091 308 79 7 1 285 1 284 7.08e-112 324
MsaG043570 MtrunA17_Chr1g0162081 58.000 300 96 5 1 281 3 291 1.02e-109 319
MsaG043570 MtrunA17_Chr8g0364741 93.913 115 7 0 1 115 1 115 9.50e-77 229
MsaG043570 MtrunA17_Chr4g0062741 44.251 287 99 11 6 245 4 276 7.15e-62 197
MsaG043570 MtrunA17_Chr1g0210471 54.444 180 76 3 8 183 22 199 1.14e-52 172
MsaG043570 MtrunA17_Chr5g0436501 48.634 183 92 1 3 183 20 202 2.71e-51 169
MsaG043570 MtrunA17_Chr3g0104071 47.340 188 89 3 2 181 35 220 6.93e-51 170
MsaG043570 MtrunA17_Chr5g0429521 48.066 181 83 4 2 175 23 199 1.81e-49 166
MsaG043570 MtrunA17_Chr7g0241761 46.739 184 87 2 9 183 34 215 1.76e-47 160
MsaG043570 MtrunA17_Chr5g0432921 40.230 174 84 8 5 170 16 177 1.06e-25 101
MsaG043570 MtrunA17_Chr5g0432941 37.870 169 94 6 5 170 17 177 6.82e-25 99.4
MsaG043570 MtrunA17_Chr5g0440731 56.250 80 34 1 102 180 101 180 4.43e-24 99.0
MsaG043570 MtrunA17_Chr6g0488471 67.123 73 22 1 100 172 91 161 5.25e-24 98.6
MsaG043570 MtrunA17_Chr4g0055931 58.974 78 30 1 95 172 84 159 1.01e-23 98.6
MsaG043570 MtrunA17_Chr2g0331031 60.976 82 26 2 95 172 94 173 2.14e-23 97.8
MsaG043570 MtrunA17_Chr5g0440741 59.494 79 30 2 103 180 98 175 2.48e-23 96.7
MsaG043570 MtrunA17_Chr8g0389241 63.014 73 24 1 100 172 99 168 2.75e-23 96.3
MsaG043570 MtrunA17_Chr5g0409841 44.954 109 54 1 102 210 88 190 3.05e-23 95.1
MsaG043570 MtrunA17_Chr1g0155181 56.522 69 30 0 4 72 1 69 1.83e-21 86.3
MsaG043570 MtrunA17_Chr5g0415191 70.175 57 17 0 95 151 91 147 7.26e-20 87.8
MsaG043570 MtrunA17_Chr3g0144631 52.308 65 31 0 10 74 16 80 1.16e-19 81.3
MsaG043570 MtrunA17_Chr4g0059701 71.154 52 15 0 100 151 78 129 1.97e-19 85.9
MsaG043570 MtrunA17_Chr3g0141601 53.623 69 32 0 4 72 1 69 4.38e-19 80.1
MsaG043570 MtrunA17_Chr5g0409831 44.248 113 57 3 102 213 73 180 4.91e-19 84.0
MsaG043570 MtrunA17_Chr3g0135671 50.000 84 41 1 96 178 81 164 1.21e-17 80.1
MsaG043570 MtrunA17_Chr5g0404101 52.941 68 32 0 5 72 14 81 2.30e-17 75.9
MsaG043570 MtrunA17_Chr7g0255841 52.174 69 33 0 14 82 16 84 8.27e-17 73.9
MsaG043570 MtrunA17_Chr3g0092621 54.412 68 29 1 106 173 84 149 4.12e-16 74.3
MsaG043570 MtrunA17_Chr6g0449111 50.000 72 36 0 1 72 1 72 5.09e-16 71.6
MsaG043570 MtrunA17_Chr3g0081631 49.315 73 36 1 1 72 1 73 3.74e-15 69.7
MsaG043570 MtrunA17_Chr6g0452791 51.282 78 33 2 78 151 49 125 1.19e-14 70.5
MsaG043570 MtrunA17_Chr3g0113121 35.000 160 90 6 22 173 14 167 1.61e-13 68.2
MsaG043570 MtrunA17_Chr8g0373131 40.000 70 41 1 10 79 5 73 1.84e-12 61.6
MsaG043570 MtrunA17_Chr8g0373111 40.580 69 40 1 10 78 5 72 2.15e-12 61.6
MsaG043570 MtrunA17_Chr8g0373121 40.580 69 40 1 10 78 5 72 2.15e-12 61.6
MsaG043570 MtrunA17_Chr3g0141641 41.270 63 37 0 10 72 3 65 4.77e-12 61.2
MsaG043570 MtrunA17_Chr8g0373101 43.284 67 35 2 4 70 1 64 1.19e-11 59.3
MsaG043570 MtrunA17_Chr5g0404301 47.541 61 31 1 10 70 4 63 2.14e-11 58.5
MsaG043570 MtrunA17_Chr1g0192061 44.444 81 43 2 108 187 63 142 5.30e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043570 AT5G08520.1 50.662 302 118 7 1 282 3 293 2.74e-86 260
MsaG043570 AT5G23650.1 38.485 330 141 7 3 272 6 333 6.27e-57 186
MsaG043570 AT1G49010.1 41.971 274 121 6 10 250 8 276 3.44e-50 168
MsaG043570 AT5G04760.1 52.941 170 75 3 6 175 2 166 7.71e-50 164
MsaG043570 AT2G38090.1 47.283 184 79 3 8 175 27 208 5.33e-49 164
MsaG043570 AT5G58900.1 46.703 182 84 2 5 175 29 208 1.54e-48 163
MsaG043570 AT5G05790.2 47.568 185 85 5 7 183 28 208 4.89e-47 159
MsaG043570 AT5G05790.1 47.568 185 85 5 7 183 28 208 4.89e-47 159
MsaG043570 AT3G11280.2 50.610 164 77 2 10 173 33 192 1.33e-46 157
MsaG043570 AT3G11280.1 50.610 164 77 2 10 173 33 192 1.33e-46 157
MsaG043570 AT5G01200.1 44.086 186 82 5 10 175 30 213 9.61e-41 142
MsaG043570 AT3G10580.2 38.136 236 110 8 10 233 8 219 1.70e-36 131
MsaG043570 AT3G10580.1 38.494 239 105 9 10 233 8 219 3.05e-36 131
MsaG043570 AT4G09450.1 42.775 173 81 5 4 174 1 157 1.19e-32 119
MsaG043570 AT5G47390.1 56.701 97 40 1 84 180 74 168 8.52e-26 105
MsaG043570 AT5G56840.1 59.740 77 30 1 101 177 86 161 1.08e-21 91.3
MsaG043570 AT3G10590.1 35.829 187 93 8 4 174 1 176 1.54e-21 90.5
MsaG043570 AT1G70000.1 70.175 57 17 0 95 151 87 143 6.08e-20 87.4
MsaG043570 AT1G70000.2 70.175 57 17 0 95 151 87 143 6.08e-20 87.4
MsaG043570 AT3G16350.1 61.765 68 18 1 84 151 123 182 1.67e-19 87.8
MsaG043570 AT4G39250.1 55.556 63 28 0 10 72 14 76 2.14e-19 81.6
MsaG043570 AT5G61620.1 51.220 82 38 1 93 174 95 174 2.95e-19 86.3
MsaG043570 AT1G75250.2 51.429 70 34 0 10 79 12 81 5.71e-19 80.5
MsaG043570 AT1G75250.1 51.429 70 34 0 10 79 12 81 2.76e-18 79.3
MsaG043570 AT1G74840.2 70.588 51 15 0 101 151 91 141 6.99e-18 81.3
MsaG043570 AT1G74840.1 70.588 51 15 0 101 151 91 141 1.00e-17 81.3
MsaG043570 AT1G19000.2 61.667 60 23 0 92 151 88 147 2.05e-17 80.9
MsaG043570 AT1G19000.1 61.667 60 23 0 92 151 88 147 2.05e-17 80.9
MsaG043570 AT2G21650.1 50.000 72 36 0 10 81 14 85 3.13e-16 73.2
MsaG043570 AT2G18328.1 55.932 59 26 0 14 72 15 73 1.66e-15 70.5
MsaG043570 AT1G19510.1 46.377 69 37 0 14 82 16 84 2.89e-14 67.8

Find 85 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGCTTGCTTGACCGGTAAT+TGG 0.261142 8:-48019959 None:intergenic
TCACAGAACAATGGATGAAA+TGG 0.332083 8:+48017216 None:intergenic
GATATCAACCACATTGAATC+TGG 0.342793 8:+48017397 MsaT043570.1:CDS
CCGGGAGCAGTAAAATTAAC+TGG 0.384224 8:-48020133 None:intergenic
GGCATAACTGTCTCAGAAAC+TGG 0.395799 8:-48020178 None:intergenic
CACCCCATCCATGGTTCTCC+AGG 0.402855 8:-48019760 None:intergenic
GGAGACATGGATTATGGTCT+TGG 0.404056 8:+48020154 MsaT043570.1:CDS
GCTCCCGGAGACATGGATTA+TGG 0.405160 8:+48020148 MsaT043570.1:CDS
TTGAATAGGCTATTTCTTCA+AGG 0.405967 8:+48019737 MsaT043570.1:intron
GATACAACTGGTTCTCCTAT+AGG 0.406805 8:-48020097 None:intergenic
CCATCGATCCACAGCGTCCT+CGG 0.411794 8:-48017302 None:intergenic
AGCAGAATTGCTTGCTTGAC+CGG 0.418729 8:-48019966 None:intergenic
TTGATTCCAGCAGGTGGGAC+TGG 0.426711 8:-48020013 None:intergenic
TGTATTCCAGCAGGTGGGGC+TGG 0.439045 8:-48020052 None:intergenic
CCTAGGATCGGGCAACCTAT+AGG 0.445645 8:+48020082 MsaT043570.1:CDS
GCACCTCAAGGACCAATTAC+CGG 0.448210 8:+48019947 MsaT043570.1:CDS
AATCCTCCAGCCCCACCTGC+TGG 0.449144 8:+48020046 MsaT043570.1:CDS
GTCGTAGGACCCAGGTTCAT+TGG 0.464354 8:-48020208 None:intergenic
GCTCCTCCAGTCCCACCTGC+TGG 0.465316 8:+48020007 MsaT043570.1:CDS
CCCAGGTTCATTGGTACCCC+TGG 0.466627 8:-48020199 None:intergenic
TACACGCTGCTCCTAGGATC+GGG 0.467978 8:+48020071 MsaT043570.1:CDS
CTGGAATACACGCTGCTCCT+AGG 0.469742 8:+48020065 MsaT043570.1:CDS
TAGGCTATTTCTTCAAGGCC+TGG 0.472954 8:+48019742 MsaT043570.1:intron
GTGAAGGAGGAGCTGTGAAA+AGG 0.473544 8:+48017476 MsaT043570.1:CDS
CCTATAGGTTGCCCGATCCT+AGG 0.480400 8:-48020082 None:intergenic
CACAGAACAATGGATGAAAT+GGG 0.481775 8:+48017217 None:intergenic
TGAAGGAGGAGCTGTGAAAA+GGG 0.482163 8:+48017477 MsaT043570.1:CDS
GTACCAACTGTAGATACAAC+TGG 0.482219 8:-48020109 None:intergenic
AGAACCATGGATGGGGTGAC+TGG 0.483144 8:+48019765 MsaT043570.1:CDS
TTCTTATCAAGAACGGCGAA+AGG 0.494765 8:+48017516 MsaT043570.1:CDS
AACGGCGAAAGGGTGTTCCT+TGG 0.495446 8:+48017527 MsaT043570.1:CDS
GCCAGGGGTACCAATGAACC+TGG 0.500745 8:+48020198 MsaT043570.1:CDS
CATCGATCCACAGCGTCCTC+GGG 0.504680 8:-48017301 None:intergenic
AGCTGTGAAAAGGGGAGCTA+AGG 0.515551 8:+48017486 MsaT043570.1:CDS
AAAGGTAACATCATGTATGC+TGG 0.520807 8:-48019903 None:intergenic
AAAATCGCGGCTGATGTACC+CGG 0.524444 8:+48017328 MsaT043570.1:CDS
CAAAGCATTTGAAAATGCAT+TGG 0.524922 8:+48017270 MsaT043570.1:CDS
TGAAAGAGAAGAAAGAAAGA+AGG 0.525485 8:+48019876 MsaT043570.1:CDS
ATTCCAGCAGGTGGGGCTGG+AGG 0.527139 8:-48020049 None:intergenic
CCGAGGACGCTGTGGATCGA+TGG 0.531444 8:+48017302 MsaT043570.1:CDS
AGCGTGTATTCCAGCAGGTG+GGG 0.532991 8:-48020056 None:intergenic
GCATGGCTTGCTACTTGTGT+AGG 0.536057 8:-48019824 None:intergenic
AAGACCATAATCCATGTCTC+CGG 0.538089 8:-48020152 None:intergenic
CAGCGTGTATTCCAGCAGGT+GGG 0.540781 8:-48020057 None:intergenic
CTATGTTCATCTTCCGTCCA+AGG 0.545058 8:-48017544 None:intergenic
GTTTCTGAGACAGTTATGCC+AGG 0.548613 8:+48020181 MsaT043570.1:CDS
GGTCAAGCAAGCAATTCTGC+TGG 0.550077 8:+48019968 MsaT043570.1:CDS
GCAGCGTGTATTCCAGCAGG+TGG 0.551793 8:-48020058 None:intergenic
AAGAGTTCAACAAAGCGTAC+TGG 0.557383 8:+48017454 MsaT043570.1:CDS
AAGGCCTGGAGAACCATGGA+TGG 0.559427 8:+48019756 MsaT043570.1:CDS
AGACCATAATCCATGTCTCC+GGG 0.563041 8:-48020151 None:intergenic
TCAACAAAGCGTACTGGTGA+AGG 0.564550 8:+48017460 MsaT043570.1:CDS
ATACACGCTGCTCCTAGGAT+CGG 0.568201 8:+48020070 MsaT043570.1:CDS
CGAGGACGCTGTGGATCGAT+GGG 0.568594 8:+48017303 MsaT043570.1:CDS
CTTGGACGGAAGATGAACAT+AGG 0.569094 8:+48017545 MsaT043570.1:CDS
GGAGCAGCGTGTATTCCAGC+AGG 0.573176 8:-48020061 None:intergenic
TTCGCCAGTCACCCCATCCA+TGG 0.577904 8:-48019769 None:intergenic
ATTCCAGCAGGTGGGACTGG+AGG 0.578008 8:-48020010 None:intergenic
GCGAAAGGGTGTTCCTTGGA+CGG 0.581376 8:+48017531 MsaT043570.1:CDS
AGGCCTGGAGAACCATGGAT+GGG 0.582995 8:+48019757 MsaT043570.1:CDS
TCTTATCAAGAACGGCGAAA+GGG 0.585934 8:+48017517 MsaT043570.1:CDS
AAAGAATCATAATCTGGCAG+AGG 0.587497 8:-48017427 None:intergenic
CTTCGAGTTCTTATCAAGAA+CGG 0.593298 8:+48017509 MsaT043570.1:CDS
TTTCTGAGACAGTTATGCCA+GGG 0.595865 8:+48020182 MsaT043570.1:CDS
AGAGATTAAGCGTCACTATG+TGG 0.598823 8:+48017363 MsaT043570.1:CDS
CTTCAAGGCCTGGAGAACCA+TGG 0.600275 8:+48019752 MsaT043570.1:CDS
GTGACTGGCGAAGTATATCA+AGG 0.602104 8:+48019780 MsaT043570.1:CDS
GAACCAGTTGTATCTACAGT+TGG 0.605321 8:+48020106 MsaT043570.1:CDS
GGCCTGGAGAACCATGGATG+GGG 0.620882 8:+48019758 MsaT043570.1:CDS
AAATCGCGGCTGATGTACCC+GGG 0.624584 8:+48017329 MsaT043570.1:CDS
TGGCATATGTCGTAGGACCC+AGG 0.624839 8:-48020216 None:intergenic
AAATGGGTAGCAGCTGTGAG+TGG 0.631015 8:+48017233 MsaT043570.1:CDS
GGAGACATTTCAGCACCTCA+AGG 0.642144 8:+48019935 MsaT043570.1:CDS
ACAAAGCGTACTGGTGAAGG+AGG 0.643312 8:+48017463 MsaT043570.1:CDS
GAAGGAGGAGCTGTGAAAAG+GGG 0.644294 8:+48017478 MsaT043570.1:CDS
TTCTGAGACAGTTATGCCAG+GGG 0.654155 8:+48020183 MsaT043570.1:CDS
TGTTGCATGGCATATGTCGT+AGG 0.673191 8:-48020223 None:intergenic
GAATTATCCCGAGGACGCTG+TGG 0.679154 8:+48017294 MsaT043570.1:CDS
CCAGGGGTACCAATGAACCT+GGG 0.686028 8:+48020199 MsaT043570.1:CDS
TGCATTGGCGAATTATCCCG+AGG 0.693717 8:+48017285 MsaT043570.1:CDS
TTGAGCATATGTATGTTGCA+TGG 0.694059 8:-48020236 None:intergenic
TGACCGGTAATTGGTCCTTG+AGG 0.703451 8:-48019950 None:intergenic
GGATCGATGGGAGAAAATCG+CGG 0.708384 8:+48017315 MsaT043570.1:CDS
AAGTATATCAAGGTACAGTG+TGG 0.727880 8:+48019790 MsaT043570.1:CDS
GCACAAAACCAGATTCAATG+TGG 0.730016 8:-48017405 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 48017226 48020264 48017226 ID=MsaG043570
Chr8 mRNA 48017226 48020264 48017226 ID=MsaT043570.1;Parent=MsaG043570
Chr8 exon 48017226 48017566 48017226 ID=MsaT043570.1.exon1;Parent=MsaT043570.1
Chr8 CDS 48017226 48017566 48017226 ID=cds.MsaT043570.1;Parent=MsaT043570.1
Chr8 exon 48019745 48020264 48019745 ID=MsaT043570.1.exon2;Parent=MsaT043570.1
Chr8 CDS 48019745 48020264 48019745 ID=cds.MsaT043570.1;Parent=MsaT043570.1
Gene Sequence

>MsaT043570.1

ATGGATGAAATGGGTAGCAGCTGTGAGTGGAGCAGAGATCAAGACAAAGCATTTGAAAATGCATTGGCGAATTATCCCGAGGACGCTGTGGATCGATGGGAGAAAATCGCGGCTGATGTACCCGGGAAAACTTTAGAAGAGATTAAGCGTCACTATGTGGTTTTGTTTGATGATATCAACCACATTGAATCTGGTTTTGTGCCTCTGCCAGATTATGATTCTTTTTCAAAGAGTTCAACAAAGCGTACTGGTGAAGGAGGAGCTGTGAAAAGGGGAGCTAAGGCTTCGAGTTCTTATCAAGAACGGCGAAAGGGTGTTCCTTGGACGGAAGATGAACATAGGCTATTTCTTCAAGGCCTGGAGAACCATGGATGGGGTGACTGGCGAAGTATATCAAGGTACAGTGTGGTGACAAGAACACCTACACAAGTAGCAAGCCATGCTCAGAAATACAAAAATCGTCAGGATTCAATGAAAGAGAAGAAAGAAAGAAGGCGATCCAGCATACATGATGTTACCTTTGTAAAAAATGGAGACATTTCAGCACCTCAAGGACCAATTACCGGTCAAGCAAGCAATTCTGCTGGACAATCAGCTGAACAAGCTCCTCCAGTCCCACCTGCTGGAATCAAAACTCTTGATAATCCTCCAGCCCCACCTGCTGGAATACACGCTGCTCCTAGGATCGGGCAACCTATAGGAGAACCAGTTGTATCTACAGTTGGTACTCCAGTTAATTTTACTGCTCCCGGAGACATGGATTATGGTCTTGGACCAGTTTCTGAGACAGTTATGCCAGGGGTACCAATGAACCTGGGTCCTACGACATATGCCATGCAACATACATATGCTCAATCATGA
Protein sequence

>MsaT043570.1

MDEMGSSCEWSRDQDKAFENALANYPEDAVDRWEKIAADVPGKTLEEIKRHYVVLFDDINHIESGFVPLPDYDSFSKSSTKRTGEGGAVKRGAKASSSYQERRKGVPWTEDEHRLFLQGLENHGWGDWRSISRYSVVTRTPTQVASHAQKYKNRQDSMKEKKERRRSSIHDVTFVKNGDISAPQGPITGQASNSAGQSAEQAPPVPPAGIKTLDNPPAPPAGIHAAPRIGQPIGEPVVSTVGTPVNFTAPGDMDYGLGPVSETVMPGVPMNLGPTTYAMQHTYAQS*