AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005043

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005043 MtrunA17_Chr1g0203601 91.776 304 23 2 1 303 1 303 0.0 538
MsaG005043 MtrunA17_Chr6g0472421 56.386 321 105 9 10 301 25 339 1.25e-102 303
MsaG005043 MtrunA17_Chr5g0397881 48.829 299 101 9 5 252 6 303 1.93e-76 237
MsaG005043 MtrunA17_Chr5g0441531 42.105 247 118 5 10 249 17 245 3.74e-57 184
MsaG005043 MtrunA17_Chr3g0134031 44.907 216 89 4 10 196 16 230 1.33e-56 187
MsaG005043 MtrunA17_Chr5g0402291 48.634 183 70 3 11 178 2 175 9.33e-52 172
MsaG005043 MtrunA17_Chr7g0257331 38.610 259 111 4 12 270 16 226 3.49e-49 163
MsaG005043 MtrunA17_Chr8g0375041 49.405 168 72 4 11 178 2 156 1.17e-45 155
MsaG005043 MtrunA17_Chr5g0410881 65.957 94 32 0 16 109 30 123 2.15e-41 149
MsaG005043 MtrunA17_Chr7g0260331 60.638 94 37 0 16 109 47 140 2.95e-40 144
MsaG005043 MtrunA17_Chr4g0047421 39.024 205 97 6 4 199 17 202 3.54e-39 137
MsaG005043 MtrunA17_Chr1g0185131 61.702 94 36 0 16 109 30 123 1.50e-38 139
MsaG005043 MtrunA17_Chr6g0467041 57.143 105 42 1 17 118 21 125 4.25e-38 137
MsaG005043 MtrunA17_Chr1g0204741 61.702 94 36 0 16 109 38 131 2.64e-37 135
MsaG005043 MtrunA17_Chr4g0039891 40.782 179 85 2 18 196 12 169 7.11e-37 137
MsaG005043 MtrunA17_Chr8g0379701 55.000 100 45 0 14 113 8 107 1.77e-36 134
MsaG005043 MtrunA17_Chr6g0485571 56.311 103 45 0 9 111 2 104 3.38e-35 130
MsaG005043 MtrunA17_Chr3g0135831 51.402 107 52 0 16 122 44 150 9.75e-35 129
MsaG005043 MtrunA17_Chr8g0378061 55.340 103 43 1 19 118 23 125 2.46e-34 130
MsaG005043 MtrunA17_Chr4g0071051 55.914 93 41 0 16 108 99 191 5.05e-34 128
MsaG005043 MtrunA17_Chr2g0284481 48.062 129 61 3 6 133 4 127 6.63e-33 124
MsaG005043 MtrunA17_Chr2g0330821 51.887 106 48 1 16 118 77 182 1.11e-32 123
MsaG005043 MtrunA17_Chr8g0392001 55.914 93 40 1 18 109 22 114 1.69e-29 115
MsaG005043 MtrunA17_Chr1g0179321 60.606 66 26 0 12 77 43 108 2.56e-23 92.4
MsaG005043 MtrunA17_Chr4g0023771 63.793 58 21 0 18 75 15 72 6.56e-19 80.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005043 AT5G62020.1 44.013 309 132 7 11 303 16 299 1.18e-75 234
MsaG005043 AT4G11660.1 47.887 284 99 5 10 252 51 326 8.19e-71 224
MsaG005043 AT1G46264.1 48.039 204 86 3 13 196 29 232 3.26e-58 191
MsaG005043 AT4G36990.1 48.500 200 85 2 11 201 7 197 5.56e-54 177
MsaG005043 AT2G41690.1 46.111 180 97 0 16 195 38 217 9.49e-45 152
MsaG005043 AT4G17750.1 65.000 100 35 0 14 113 48 147 2.19e-41 150
MsaG005043 AT3G22830.1 64.583 96 34 0 14 109 57 152 6.82e-40 144
MsaG005043 AT1G32330.2 60.748 107 37 1 16 122 35 136 2.09e-39 144
MsaG005043 AT1G32330.1 60.748 107 37 1 16 122 35 136 2.16e-39 144
MsaG005043 AT3G02990.1 62.500 96 36 0 14 109 19 114 6.51e-38 140
MsaG005043 AT5G16820.1 64.130 92 33 0 18 109 27 118 6.94e-37 137
MsaG005043 AT5G16820.2 64.130 92 33 0 18 109 27 118 6.94e-37 137
MsaG005043 AT3G63350.1 56.701 97 42 0 12 108 22 118 3.39e-36 131
MsaG005043 AT5G43840.1 56.311 103 45 0 16 118 17 119 5.11e-36 131
MsaG005043 AT2G26150.1 57.447 94 40 0 16 109 42 135 1.12e-35 131
MsaG005043 AT2G26150.4 57.447 94 40 0 16 109 42 135 1.12e-35 131
MsaG005043 AT5G03720.2 43.030 165 65 2 18 182 55 190 1.39e-35 132
MsaG005043 AT5G03720.1 43.030 165 65 2 18 182 55 190 1.39e-35 132
MsaG005043 AT3G51910.1 50.943 106 52 0 16 121 27 132 2.30e-35 129
MsaG005043 AT5G54070.1 58.696 92 38 0 17 108 70 161 2.91e-34 127
MsaG005043 AT4G13980.1 50.000 112 53 1 19 127 24 135 1.74e-33 128
MsaG005043 AT3G24520.1 58.696 92 38 0 18 109 17 108 9.02e-33 123
MsaG005043 AT1G67970.1 43.182 132 74 1 18 148 19 150 1.49e-31 121
MsaG005043 AT5G45710.3 49.593 123 60 1 6 128 3 123 2.45e-31 120
MsaG005043 AT5G45710.1 49.593 123 60 1 6 128 3 123 2.45e-31 120
MsaG005043 AT4G18880.1 55.660 106 46 1 8 113 6 110 4.08e-31 120
MsaG005043 AT4G18870.1 37.143 105 63 1 1 102 126 230 2.50e-19 86.7
MsaG005043 AT4G18870.1 37.755 98 56 3 10 105 5 99 1.51e-16 78.6
MsaG005043 AT1G77570.1 37.500 88 50 3 19 102 27 113 6.14e-11 60.1

Find 80 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCGCGTCGCCGTCAATTTC+AGG 0.165701 1:+77023434 MsaT005043.1:CDS
CGTCATGAACAGAATGATTT+AGG 0.247682 1:-77023826 None:intergenic
TTGTTGTGCTTAAAATATTT+AGG 0.304096 1:-77023138 None:intergenic
TCGCTATCCCAAACAGCTTC+GGG 0.346813 1:-77023745 None:intergenic
ATAGAAACCCGAAGCTGTTT+GGG 0.374692 1:+77023738 MsaT005043.1:CDS
CTGGAACAACGTTCATCGTT+TGG 0.377410 1:+77023085 MsaT005043.1:CDS
ATCGCTATCCCAAACAGCTT+CGG 0.386863 1:-77023746 None:intergenic
GATAGAAACCCGAAGCTGTT+TGG 0.391219 1:+77023737 MsaT005043.1:CDS
TTCCTCGCCGTCAGTTTCTC+CGG 0.410639 1:+77023481 MsaT005043.1:CDS
GAAGACACTTCGTTTGTTAC+CGG 0.411007 1:+77023679 MsaT005043.1:CDS
AATCAGAGCCGTTTGATTCA+AGG 0.418470 1:+77023852 MsaT005043.1:CDS
GTGATTTCGTGGAATGATAC+TGG 0.437195 1:+77023066 MsaT005043.1:CDS
CGAGAATGAGAGGTTGAGAA+AGG 0.441779 1:+77023517 MsaT005043.1:CDS
TCGCCGTTGCATCGCTTCTC+CGG 0.453691 1:-77023698 None:intergenic
GTCAATTTCAGGGGAGGAGC+AGG 0.455410 1:+77023445 MsaT005043.1:CDS
CCGGCATTGGAAGCTGCCGC+CGG 0.458057 1:-77023374 None:intergenic
TGTTACAGTCGTGCCGGCAT+TGG 0.462484 1:-77023387 None:intergenic
TCACCCTTCCTTGAATCAAA+CGG 0.468104 1:-77023860 None:intergenic
TTAGAGAATTCCCACCGATC+AGG 0.468408 1:-77023281 None:intergenic
TCGCGTCGCCGTCAATTTCA+GGG 0.475190 1:+77023435 MsaT005043.1:CDS
ATCAACAAGGTGATATGTCT+TGG 0.476007 1:-77023025 None:intergenic
CCACCAACGATGTGATTTCG+TGG 0.481252 1:+77023055 MsaT005043.1:CDS
AAGCAAATCCCTAGCGAAAA+CGG 0.486758 1:-77023115 None:intergenic
CCGGCGGCAGCTTCCAATGC+CGG 0.495670 1:+77023374 MsaT005043.1:CDS
GCAGTTAACAAAGGAAATAG+AGG 0.498390 1:+77023547 MsaT005043.1:CDS
CCACGAAATCACATCGTTGG+TGG 0.498992 1:-77023055 None:intergenic
GAATTACATAAGTATTGAGT+TGG 0.503981 1:-77023179 None:intergenic
CAACGGCGAAGATGCGGCGG+TGG 0.504131 1:+77023712 MsaT005043.1:CDS
GCGAAGGGAGCGAGAGGAGA+AGG 0.505444 1:+77023773 MsaT005043.1:CDS
TGCTCCTCCCCTGAAATTGA+CGG 0.505469 1:-77023443 None:intergenic
CAATCGGAAAGCGGTGCGGA+AGG 0.507695 1:+77023626 MsaT005043.1:CDS
AACAAACGAAGTGTCTTCAC+TGG 0.512152 1:-77023674 None:intergenic
TTCCTCCAGCATGGCTCAGT+CGG 0.523059 1:+77022954 None:intergenic
TGAATCTTTCCGACGAGGCG+AGG 0.528771 1:+77023304 MsaT005043.1:CDS
ATTCAAGGAAGGGTGAAAAG+AGG 0.529327 1:+77023867 MsaT005043.1:CDS
TGATATGTCTTGGTGAGAAA+CGG 0.529943 1:-77023015 None:intergenic
AGGAGAAGGACGGTGTATTG+AGG 0.542287 1:+77023787 MsaT005043.1:CDS
AAATTACGCGAATTCTCAAT+CGG 0.544595 1:+77023610 MsaT005043.1:CDS
TGGGATAGCGATTGATGCGA+AGG 0.546227 1:+77023757 MsaT005043.1:CDS
GAAAATCGTTTCAGCATCGC+CGG 0.555017 1:+77023355 MsaT005043.1:CDS
CGCTATTAGACGAGAATGAG+AGG 0.557066 1:+77023507 MsaT005043.1:CDS
TTCTCGTCTAATAGCGCCGC+CGG 0.558116 1:-77023500 None:intergenic
AAAAGTTGTACCTGATCGGT+GGG 0.563579 1:+77023271 MsaT005043.1:CDS
GAAATTGACGGCGACGCGAT+AGG 0.563683 1:-77023431 None:intergenic
GCGATGCAACGGCGAAGATG+CGG 0.565053 1:+77023706 MsaT005043.1:CDS
CTCCAGCATGGCTCAGTCGG+TGG 0.568174 1:+77022957 None:intergenic
AAATCCCTAGCGAAAACGGT+AGG 0.568543 1:-77023111 None:intergenic
GAGCCGTTTGATTCAAGGAA+GGG 0.572438 1:+77023857 MsaT005043.1:CDS
GCTCAGTCGGTGGAACATAA+CGG 0.580882 1:+77022967 MsaT005043.1:CDS
GGTGAGAAACGGCGTCGGAG+TGG 0.597255 1:-77023004 None:intergenic
CTTTCCGACGAGGCGAGGAA+CGG 0.598393 1:+77023309 MsaT005043.1:CDS
AGAGCCGTTTGATTCAAGGA+AGG 0.601442 1:+77023856 MsaT005043.1:CDS
ATGCAACGGCGAAGATGCGG+CGG 0.602868 1:+77023709 MsaT005043.1:CDS
ACAAACGAAGTGTCTTCACT+GGG 0.603590 1:-77023673 None:intergenic
ATTGATGCGAAGGGAGCGAG+AGG 0.606253 1:+77023767 MsaT005043.1:CDS
AATCCCTAGCGAAAACGGTA+GGG 0.608706 1:-77023110 None:intergenic
ATTCCACGAAATCACATCGT+TGG 0.610773 1:-77023058 None:intergenic
GTCGCCGTCAATTTCAGGGG+AGG 0.611650 1:+77023439 MsaT005043.1:CDS
TTCTCAATCGGAAAGCGGTG+CGG 0.614474 1:+77023622 MsaT005043.1:CDS
CGCCGGAGAAACTGACGGCG+AGG 0.620198 1:-77023483 None:intergenic
CTCGCCGTCAGTTTCTCCGG+CGG 0.622387 1:+77023484 MsaT005043.1:CDS
TTACCGGAGAAGCGATGCAA+CGG 0.623684 1:+77023695 MsaT005043.1:CDS
TTCTCTGTGATATTCAGCGA+CGG 0.625241 1:+77023333 MsaT005043.1:CDS
CGCGTCGCCGTCAATTTCAG+GGG 0.626408 1:+77023436 MsaT005043.1:CDS
GACGCGATAGGCTTTGCTGT+CGG 0.627107 1:-77023419 None:intergenic
GAAGCCGTTCCTCGCCTCGT+CGG 0.628152 1:-77023313 None:intergenic
GGGATAGCGATTGATGCGAA+GGG 0.631957 1:+77023758 MsaT005043.1:CDS
GGAGAACATGCAGTTAACAA+AGG 0.636251 1:+77023538 MsaT005043.1:CDS
TGGTGGCGATTTCATCAACA+AGG 0.649485 1:-77023038 None:intergenic
AGGGAGCGAGAGGAGAAGGA+CGG 0.652383 1:+77023777 MsaT005043.1:CDS
AGCGCCGCCGGAGAAACTGA+CGG 0.654739 1:-77023488 None:intergenic
AGGAAAAGAATGTTGCTCAA+CGG 0.662127 1:+77023646 MsaT005043.1:CDS
AATCGTTTCAGCATCGCCGG+CGG 0.666535 1:+77023358 MsaT005043.1:CDS
GTCTTGGTGAGAAACGGCGT+CGG 0.667306 1:-77023009 None:intergenic
ACGGTGTATTGAGGATGATG+TGG 0.668550 1:+77023796 MsaT005043.1:CDS
GCGAATTCTCAATCGGAAAG+CGG 0.695773 1:+77023617 MsaT005043.1:CDS
GTGAAAAGAGGAAAATGATG+CGG 0.699862 1:+77023879 MsaT005043.1:CDS
TCTAATGAATCTTTCCGACG+AGG 0.711943 1:+77023299 MsaT005043.1:CDS
CGGCACGACTGTAACAAAAG+CGG 0.729434 1:+77023394 MsaT005043.1:CDS
CAAACGAAGTGTCTTCACTG+GGG 0.815726 1:-77023672 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 77022964 77023943 77022964 ID=MsaG005043
Chr1 mRNA 77022964 77023943 77022964 ID=MsaT005043.1;Parent=MsaG005043
Chr1 exon 77022964 77023194 77022964 ID=MsaT005043.1.exon1;Parent=MsaT005043.1
Chr1 CDS 77022964 77023194 77022964 ID=cds.MsaT005043.1;Parent=MsaT005043.1
Chr1 exon 77023263 77023943 77023263 ID=MsaT005043.1.exon2;Parent=MsaT005043.1
Chr1 CDS 77023263 77023943 77023263 ID=cds.MsaT005043.1;Parent=MsaT005043.1
Gene Sequence

>MsaT005043.1

ATGGCTCAGTCGGTGGAACATAACGGCGAGTCTCAAAGATCCACTCCGACGCCGTTTCTCACCAAGACATATCACCTTGTTGATGAAATCGCCACCAACGATGTGATTTCGTGGAATGATACTGGAACAACGTTCATCGTTTGGAACCCTACCGTTTTCGCTAGGGATTTGCTTCCTAAATATTTTAAGCACAACAATTTCTCTAGCTTCGTTCGCCAACTCAATACTTATGGATTTAAAAAAGTTGTACCTGATCGGTGGGAATTCTCTAATGAATCTTTCCGACGAGGCGAGGAACGGCTTCTCTGTGATATTCAGCGACGGAAAATCGTTTCAGCATCGCCGGCGGCAGCTTCCAATGCCGGCACGACTGTAACAAAAGCGGTTCCGACAGCAAAGCCTATCGCGTCGCCGTCAATTTCAGGGGAGGAGCAGGTGATTTCTTCGAATTCCTCGCCGTCAGTTTCTCCGGCGGCGCTATTAGACGAGAATGAGAGGTTGAGAAAGGAGAACATGCAGTTAACAAAGGAAATAGAGGACATGAAATCGCTCTACAACAATATATTCAATCTTCTGTCAAATTACGCGAATTCTCAATCGGAAAGCGGTGCGGAAGGAAAAGAATGTTGCTCAACGGCGTCCCCAGTGAAGACACTTCGTTTGTTACCGGAGAAGCGATGCAACGGCGAAGATGCGGCGGTGGAAGATAGAAACCCGAAGCTGTTTGGGATAGCGATTGATGCGAAGGGAGCGAGAGGAGAAGGACGGTGTATTGAGGATGATGTGGTGTTGAGCCTAAATCATTCTGTTCATGACGTGAAATCAGAGCCGTTTGATTCAAGGAAGGGTGAAAAGAGGAAAATGATGCGGTTAAATCAGTGCTATAGAGCGAATCAGAGTGTGTGCAATTGA
Protein sequence

>MsaT005043.1

MAQSVEHNGESQRSTPTPFLTKTYHLVDEIATNDVISWNDTGTTFIVWNPTVFARDLLPKYFKHNNFSSFVRQLNTYGFKKVVPDRWEFSNESFRRGEERLLCDIQRRKIVSASPAAASNAGTTVTKAVPTAKPIASPSISGEEQVISSNSSPSVSPAALLDENERLRKENMQLTKEIEDMKSLYNNIFNLLSNYANSQSESGAEGKECCSTASPVKTLRLLPEKRCNGEDAAVEDRNPKLFGIAIDAKGARGEGRCIEDDVVLSLNHSVHDVKSEPFDSRKGEKRKMMRLNQCYRANQSVCN*