AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010948

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010948 MtrunA17_Chr8g0378061 75.536 466 100 2 21 473 23 487 0.0 706
MsaG010948 MtrunA17_Chr2g0330841 85.379 383 35 3 62 430 29 404 0.0 650
MsaG010948 MtrunA17_Chr2g0330821 66.443 298 68 3 1 284 60 339 3.43e-130 381
MsaG010948 MtrunA17_Chr6g0467041 62.069 290 94 3 1 275 1 289 2.96e-121 357
MsaG010948 MtrunA17_Chr5g0410881 45.909 220 83 4 14 202 26 240 1.22e-56 196
MsaG010948 MtrunA17_Chr8g0379701 46.154 208 90 3 12 202 4 206 1.21e-53 185
MsaG010948 MtrunA17_Chr1g0204741 40.909 220 109 3 3 203 25 242 8.74e-48 167
MsaG010948 MtrunA17_Chr4g0071051 42.786 201 99 3 18 203 99 298 6.01e-45 162
MsaG010948 MtrunA17_Chr1g0185131 41.089 202 109 3 12 203 24 225 2.13e-44 159
MsaG010948 MtrunA17_Chr7g0260331 36.975 238 116 4 17 228 46 275 1.16e-43 157
MsaG010948 MtrunA17_Chr3g0135831 38.614 202 106 3 18 202 44 244 2.19e-42 154
MsaG010948 MtrunA17_Chr8g0392001 45.263 190 80 3 19 184 21 210 1.60e-41 152
MsaG010948 MtrunA17_Chr3g0134031 70.213 94 28 0 18 111 22 115 5.66e-41 150
MsaG010948 MtrunA17_Chr5g0402291 64.078 103 37 0 18 120 7 109 1.26e-40 147
MsaG010948 MtrunA17_Chr2g0284481 58.491 106 44 0 12 117 7 112 1.47e-39 147
MsaG010948 MtrunA17_Chr5g0441531 67.021 94 31 0 18 111 23 116 2.63e-39 142
MsaG010948 MtrunA17_Chr6g0485571 39.899 198 105 2 19 203 10 206 3.60e-39 145
MsaG010948 MtrunA17_Chr5g0397881 64.894 94 33 0 18 111 22 115 7.31e-39 144
MsaG010948 MtrunA17_Chr1g0203601 57.273 110 47 0 4 113 2 111 3.90e-38 140
MsaG010948 MtrunA17_Chr7g0257331 53.982 113 50 1 1 111 1 113 3.79e-37 136
MsaG010948 MtrunA17_Chr6g0472421 61.702 94 36 0 18 111 31 124 6.98e-35 133
MsaG010948 MtrunA17_Chr6g0470901 62.857 105 35 1 206 310 49 149 1.38e-34 126
MsaG010948 MtrunA17_Chr8g0375041 55.140 107 43 1 19 125 8 109 1.92e-33 127
MsaG010948 MtrunA17_Chr4g0047421 55.102 98 40 1 18 111 31 128 2.49e-32 122
MsaG010948 MtrunA17_Chr1g0179321 66.667 60 20 0 20 79 49 108 4.77e-23 93.6
MsaG010948 MtrunA17_Chr4g0023771 59.155 71 28 1 20 89 15 85 6.10e-20 85.1
MsaG010948 MtrunA17_Chr1g0179311 31.875 160 86 4 59 203 1 152 1.49e-13 72.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010948 AT4G13980.1 49.049 473 191 10 21 473 24 466 3.27e-133 393
MsaG010948 AT4G17750.1 40.625 256 94 4 1 202 16 267 2.37e-52 184
MsaG010948 AT1G32330.2 43.172 227 86 3 1 184 1 227 1.19e-51 182
MsaG010948 AT1G32330.1 43.172 227 86 3 1 184 1 227 1.37e-51 182
MsaG010948 AT3G02990.1 44.175 206 92 3 20 202 23 228 4.09e-50 177
MsaG010948 AT5G16820.1 44.231 208 91 3 20 202 27 234 8.84e-50 177
MsaG010948 AT5G16820.2 44.231 208 91 3 20 202 27 234 8.84e-50 177
MsaG010948 AT3G51910.1 41.837 196 108 2 12 201 21 216 2.51e-48 167
MsaG010948 AT5G03720.2 43.458 214 101 5 16 210 50 262 3.36e-47 168
MsaG010948 AT5G03720.1 43.458 214 101 5 16 210 50 262 3.36e-47 168
MsaG010948 AT2G26150.1 43.602 211 99 4 12 202 36 246 4.33e-47 166
MsaG010948 AT2G26150.4 43.602 211 99 4 12 202 36 246 4.33e-47 166
MsaG010948 AT3G22830.1 40.284 211 99 3 18 201 59 269 4.14e-46 165
MsaG010948 AT5G43840.1 45.087 173 92 1 18 187 17 189 1.00e-45 161
MsaG010948 AT5G54070.1 41.629 221 112 5 16 223 67 283 9.61e-45 160
MsaG010948 AT4G18880.1 48.649 185 77 2 12 178 7 191 2.06e-42 155
MsaG010948 AT3G63350.1 36.937 222 117 6 12 212 20 239 3.87e-42 151
MsaG010948 AT1G46264.1 58.824 119 39 1 12 120 26 144 3.40e-41 150
MsaG010948 AT1G67970.1 40.761 184 91 3 19 184 18 201 5.67e-40 148
MsaG010948 AT3G24520.1 39.791 191 98 3 19 202 16 196 3.90e-39 144
MsaG010948 AT5G45710.3 64.151 106 36 1 14 117 5 110 9.16e-37 139
MsaG010948 AT5G45710.1 64.151 106 36 1 14 117 5 110 9.16e-37 139
MsaG010948 AT2G41690.1 60.825 97 38 0 18 114 38 134 9.80e-36 133
MsaG010948 AT5G62020.1 57.576 99 42 0 18 116 21 119 1.69e-35 134
MsaG010948 AT4G36990.1 59.375 96 39 0 18 113 12 107 1.96e-35 133
MsaG010948 AT4G11660.1 60.638 94 37 0 18 111 57 150 3.29e-34 132
MsaG010948 AT4G18870.1 46.465 99 52 1 9 107 2 99 2.59e-20 91.7
MsaG010948 AT4G18870.1 44.318 88 49 0 20 107 146 233 1.18e-18 86.7
MsaG010948 AT1G77570.1 44.444 90 47 2 21 107 27 116 2.17e-18 82.4
MsaG010948 AT2G26150.3 34.965 143 73 4 80 202 49 191 2.07e-14 73.9
MsaG010948 AT2G26150.2 34.965 143 73 4 80 202 49 191 2.07e-14 73.9
MsaG010948 AT4G19630.1 34.783 92 57 1 19 107 10 101 2.32e-11 61.6

Find 107 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATTTCTTGACAGTCTATC+TGG 0.188741 2:+79599522 None:intergenic
ATCCATATTCTTGATGTTAC+TGG 0.230382 2:+79599217 None:intergenic
AAAGAGTGAATGACTTGTTT+TGG 0.236753 2:-79599352 MsaT010948.1:CDS
TCTGCAAGCTCTAATGTTTC+AGG 0.265220 2:+79599737 None:intergenic
GAAATTGTTGTGTTTGAAAT+AGG 0.280393 2:+79601015 None:intergenic
ATCCAGTAACATCAAGAATA+TGG 0.289607 2:-79599219 MsaT010948.1:CDS
CAGATAGACTGTCAAGAAAT+TGG 0.312283 2:-79599521 MsaT010948.1:CDS
ATTACATGCCGCCGCATCTA+TGG 0.325448 2:+79600033 None:intergenic
GCTTCACCGCAGGAGGATTC+AGG 0.338221 2:-79599404 MsaT010948.1:CDS
CCTTCTTCCTGCTCATTACA+TGG 0.349891 2:+79599260 None:intergenic
TGAACAACAGTTTCATCGTT+TGG 0.357470 2:-79601072 MsaT010948.1:CDS
ACATTAGAGCTTGCAGATCC+TGG 0.359819 2:-79599731 MsaT010948.1:CDS
AGTGGTAAAGAATCTGAAAT+TGG 0.365403 2:-79599470 MsaT010948.1:CDS
CTGTCAAGAAATTGGCAATA+TGG 0.370308 2:-79599513 MsaT010948.1:CDS
AGGAGAACCCTAGCGAATTC+AGG 0.370464 2:+79601043 None:intergenic
CTATCACCTTCTTCACTACT+TGG 0.372824 2:+79599626 None:intergenic
GGATAATTTCCAGCAGCTCT+TGG 0.375306 2:-79600152 MsaT010948.1:CDS
ACATGGATTTGCTTGATAGT+TGG 0.401286 2:+79599277 None:intergenic
GAACCTCGTTAGCCACATTT+CGG 0.406697 2:+79599435 None:intergenic
CGGCGGAAACGGAGGAAATC+CGG 0.407098 2:-79601167 MsaT010948.1:CDS
GTTTATTCGAGAAATCTTGA+TGG 0.407108 2:+79599909 None:intergenic
GGCTCTAAAGATTGAAGAGT+TGG 0.410456 2:+79599647 None:intergenic
TCAGATATGAACTTGGTATC+AGG 0.411562 2:-79599860 MsaT010948.1:CDS
CAATCATAGCAATTTCAGTC+TGG 0.411579 2:-79599948 MsaT010948.1:CDS
CACTGAAAGACCAGGCTGTT+CGG 0.412233 2:-79599318 MsaT010948.1:CDS
ATCAAGTTGCCTGCAGCAAC+AGG 0.412552 2:+79599974 None:intergenic
CCTGCACATTAGAATTCAAC+AGG 0.423972 2:-79599568 MsaT010948.1:CDS
GAAGAAGGGCAGTTAGTTCA+TGG 0.424294 2:-79599245 MsaT010948.1:CDS
TTGGAGCAGCTGGTTTGACT+TGG 0.432676 2:+79599375 None:intergenic
CTATCCTCATCTGGCGGCGG+CGG 0.433298 2:-79601184 MsaT010948.1:CDS
AATTTCTTGACAGTCTATCT+GGG 0.444164 2:+79599523 None:intergenic
GGTGCGCCGCTATCCTCATC+TGG 0.445386 2:-79601193 MsaT010948.1:CDS
TCATCTGGCGGCGGCGGAAA+CGG 0.448814 2:-79601178 MsaT010948.1:CDS
TCTTGGATGGCATGGAGATT+AGG 0.452267 2:-79600135 MsaT010948.1:CDS
CCTGTTGAATTCTAATGTGC+AGG 0.454601 2:+79599568 None:intergenic
GGAACCCTCCTGAATTCGCT+AGG 0.457900 2:-79601051 MsaT010948.1:CDS
CAGAGTCAAATTTAGTTGGC+AGG 0.464532 2:+79599595 None:intergenic
AAGCCAGAGTCAAATTTAGT+TGG 0.466392 2:+79599591 None:intergenic
CCACAGTCATAGTCATCCTC+CGG 0.469987 2:-79600299 MsaT010948.1:CDS
CATTAGAGCTTGCAGATCCT+GGG 0.473234 2:-79599730 MsaT010948.1:CDS
CCATGCCATCCAAGAGCTGC+TGG 0.474173 2:+79600143 None:intergenic
AATTTCAGATTCTTTACCAC+TGG 0.474478 2:+79599472 None:intergenic
CGCGCGCAGCCTGTTGCTGC+AGG 0.475671 2:-79599983 MsaT010948.1:CDS
TTGGCAATATGGCAGAATCA+AGG 0.486958 2:-79599502 MsaT010948.1:CDS
CTGCCAACTAAATTTGACTC+TGG 0.487322 2:-79599594 MsaT010948.1:CDS
GCGTTGGGAGTTTGCTAATG+AGG 0.493552 2:-79600377 MsaT010948.1:CDS
AATCATAGCAATTTCAGTCT+GGG 0.499603 2:-79599947 MsaT010948.1:CDS
GCTCTAAAGATTGAAGAGTT+GGG 0.500901 2:+79599648 None:intergenic
TTAAGACGATCAACAAAAGT+AGG 0.500909 2:+79600070 None:intergenic
TGCAAGACAGCATGCTCAAA+GGG 0.501504 2:+79599187 None:intergenic
CCATGTAATGAGCAGGAAGA+AGG 0.501977 2:-79599260 MsaT010948.1:CDS
ATTGAGCTGACGAATGAAGC+TGG 0.503392 2:+79600991 None:intergenic
CGGCGGCATGTAATAAGAAA+AGG 0.504536 2:-79600024 MsaT010948.1:CDS
AGCAAATCCATGTAATGAGC+AGG 0.504549 2:-79599267 MsaT010948.1:CDS
GTCAACAGCAAAGTTTCAGC+TGG 0.509832 2:-79600173 MsaT010948.1:CDS
TGTTGTGTTTGAAATAGGTT+GGG 0.510228 2:+79601020 None:intergenic
ACAGTCTATCTGGGGTGACC+TGG 0.511498 2:+79599532 None:intergenic
TTGTTGTGTTTGAAATAGGT+TGG 0.516310 2:+79601019 None:intergenic
CCAGCAGCTCTTGGATGGCA+TGG 0.520496 2:-79600143 MsaT010948.1:CDS
AATTTCCAGCAGCTCTTGGA+TGG 0.520869 2:-79600148 MsaT010948.1:CDS
TTAGAGCCAAGTAGTGAAGA+AGG 0.523642 2:-79599632 MsaT010948.1:CDS
ACAGGAATTCATACTCGGCC+AGG 0.525868 2:-79599550 MsaT010948.1:CDS
TGTGTTAAACTTCTTTGAGA+AGG 0.529521 2:-79600104 MsaT010948.1:CDS
TCATACGTCTTCTGAACAAA+CGG 0.532896 2:+79601142 None:intergenic
ATCTGTCTCAGATATGAACT+TGG 0.540571 2:-79599867 MsaT010948.1:CDS
CCGCTATCCTCATCTGGCGG+CGG 0.544244 2:-79601187 MsaT010948.1:CDS
TTTCTCGAATAAACTCAGAC+TGG 0.544248 2:-79599900 MsaT010948.1:CDS
CAATTTAGCTTCACCGCAGG+AGG 0.546099 2:-79599411 MsaT010948.1:CDS
GAACCCTCCTGAATTCGCTA+GGG 0.548390 2:-79601050 MsaT010948.1:CDS
GACTGTGGATAGGTTTCCTA+CGG 0.549412 2:+79600314 None:intergenic
CCGGAGGATGACTATGACTG+TGG 0.551542 2:+79600299 None:intergenic
TGGCAATATGGCAGAATCAA+GGG 0.555859 2:-79599501 MsaT010948.1:CDS
CACAGTCATAGTCATCCTCC+GGG 0.559092 2:-79600298 MsaT010948.1:CDS
GTTTCCGCCGCCGCCAGATG+AGG 0.565384 2:+79601180 None:intergenic
CATGTAATGAGCAGGAAGAA+GGG 0.577131 2:-79599259 MsaT010948.1:CDS
GTCTTCTGAACAAACGGCGC+CGG 0.577616 2:+79601148 None:intergenic
TCTGGCGGCGGCGGAAACGG+AGG 0.583107 2:-79601175 MsaT010948.1:CDS
TCTCAATTTAGCTTCACCGC+AGG 0.587466 2:-79599414 MsaT010948.1:CDS
CCGCCGCCAGATGAGGATAG+CGG 0.588670 2:+79601187 None:intergenic
CAGTTCCTCACTGAAAGACC+AGG 0.597070 2:-79599326 MsaT010948.1:CDS
TCTGGATCAACAGCAGAACC+CGG 0.601278 2:+79600280 None:intergenic
ATGTTTCAGGTGCAAAAGCA+AGG 0.601422 2:+79599750 None:intergenic
ATGCTTGTAGATTAAGACAC+TGG 0.603831 2:+79600201 None:intergenic
TGTGTTTGAAATAGGTTGGG+AGG 0.611459 2:+79601023 None:intergenic
GAATCAAGGGTTAACGCCAG+TGG 0.612966 2:-79599488 MsaT010948.1:CDS
GGATGACTATGACTGTGGAT+AGG 0.617132 2:+79600304 None:intergenic
AGTTTACTCAAACCGAAATG+TGG 0.625776 2:-79599447 MsaT010948.1:CDS
AGAACCCTAGCGAATTCAGG+AGG 0.627695 2:+79601046 None:intergenic
CGACAGATGATATCATCTCG+TGG 0.629830 2:-79601102 MsaT010948.1:CDS
CTACCACACGACAAGATGGA+TGG 0.631108 2:-79601214 None:intergenic
AGGCTGTTCGGAAAATGAAG+AGG 0.634224 2:-79599306 MsaT010948.1:CDS
TTAAAAGCAAAAGATGCCCC+AGG 0.636368 2:+79599713 None:intergenic
ATTCAACAGGAATTCATACT+CGG 0.638970 2:-79599555 MsaT010948.1:CDS
AAACCGAAATGTGGCTAACG+AGG 0.639602 2:-79599438 MsaT010948.1:CDS
AAGTTCATATCTGAGACAGA+TGG 0.645901 2:+79599869 None:intergenic
ATTTCTTGACAGTCTATCTG+GGG 0.652526 2:+79599524 None:intergenic
CAAAATCGAATCCATAGATG+CGG 0.656833 2:-79600044 MsaT010948.1:CDS
AATCGAATCCATAGATGCGG+CGG 0.660174 2:-79600041 MsaT010948.1:CDS
TGTTCAGAAGACGTATGACA+TGG 0.663532 2:-79601137 MsaT010948.1:CDS
ATTAGAGCTTGCAGATCCTG+GGG 0.675889 2:-79599729 MsaT010948.1:CDS
ATGCTACCTGAATCCTCCTG+CGG 0.676136 2:+79599398 None:intergenic
GAACCCTAGCGAATTCAGGA+GGG 0.684309 2:+79601047 None:intergenic
AACAGCCTGGTCTTTCAGTG+AGG 0.695763 2:+79599321 None:intergenic
GCGCCGCTATCCTCATCTGG+CGG 0.706165 2:-79601190 MsaT010948.1:CDS
CGGCATGTAATAAGAAAAGG+CGG 0.725457 2:-79600021 MsaT010948.1:CDS
TCAGAAGACGTATGACATGG+TGG 0.731803 2:-79601134 MsaT010948.1:CDS
GGATCAACAGCAGAACCCGG+AGG 0.758298 2:+79600283 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 79599202 79601221 79599202 ID=MsaG010948
Chr2 mRNA 79599202 79601221 79599202 ID=MsaT010948.1;Parent=MsaG010948
Chr2 exon 79599202 79600254 79599202 ID=MsaT010948.1.exon3;Parent=MsaT010948.1
Chr2 CDS 79599202 79600254 79599202 ID=cds.MsaT010948.1;Parent=MsaT010948.1
Chr2 exon 79600291 79600422 79600291 ID=MsaT010948.1.exon2;Parent=MsaT010948.1
Chr2 CDS 79600291 79600422 79600291 ID=cds.MsaT010948.1;Parent=MsaT010948.1
Chr2 exon 79600985 79601221 79600985 ID=MsaT010948.1.exon1;Parent=MsaT010948.1
Chr2 CDS 79600985 79601221 79600985 ID=cds.MsaT010948.1;Parent=MsaT010948.1
Gene Sequence

>MsaT010948.1

ATGGATGGTGCGCCGCTATCCTCATCTGGCGGCGGCGGAAACGGAGGAAATCCGGCGCCGTTTGTTCAGAAGACGTATGACATGGTGGACGATTCTGCGACAGATGATATCATCTCGTGGAGCTCTATGAACAACAGTTTCATCGTTTGGAACCCTCCTGAATTCGCTAGGGTTCTCCTCCCAACCTATTTCAAACACAACAATTTCTCCAGCTTCATTCGTCAGCTCAATACCTATGGATTTCGAAAAAAAGATTCGGAGCGTTGGGAGTTTGCTAATGAGGAATTTATAAAAGATCAAAAACATCTTTTGAAGAATATACACCGTAGGAAACCTATCCACAGTCATAGTCATCCTCCGGGTTCTGCTAGAAGCTTTCCCAAGAGAAAAATTTTCGAGTCCAGTGTCTTAATCTACAAGCATCATCAGTCAACAGCAAAGTTTCAGCTGGATAATTTCCAGCAGCTCTTGGATGGCATGGAGATTAGGCAGACACATGTGTTAAACTTCTTTGAGAAGGCTCTTCAGAATCCTACTTTTGTTGATCGTCTTAAGCGCAAAATCGAATCCATAGATGCGGCGGCATGTAATAAGAAAAGGCGGTTGCTTCATGTTGATCGCGCGCAGCCTGTTGCTGCAGGCAACTTGATTGACAATCATAGCAATTTCAGTCTGGGATTTGAAAATGTTTTCCATCAAGATTTCTCGAATAAACTCAGACTGGAATTGTCACCATCTGTCTCAGATATGAACTTGGTATCAGGTAGCACACATTTTTCAAATGAAAACGAGGAAAGCCTGCAGAAAAATTTGTCTGAAGGAGAACTGACAGAAATGCAGACAAGAACTGACCTTGCTTTTGCACCTGAAACATTAGAGCTTGCAGATCCTGGGGCATCTTTTGCTTTTAACATGGATTCATGTTTATCACGACGAGCAACAACTACTGAGAGCCCAACTCTTCAATCTTTAGAGCCAAGTAGTGAAGAAGGTGATAGTTATATATCCTGCCAACTAAATTTGACTCTGGCTTCCTGCACATTAGAATTCAACAGGAATTCATACTCGGCCAGGTCACCCCAGATAGACTGTCAAGAAATTGGCAATATGGCAGAATCAAGGGTTAACGCCAGTGGTAAAGAATCTGAAATTGGAGTTTACTCAAACCGAAATGTGGCTAACGAGGTTCTCAATTTAGCTTCACCGCAGGAGGATTCAGGTAGCATCCAAGTCAAACCAGCTGCTCCAAAAAGAGTGAATGACTTGTTTTGGGAACAGTTCCTCACTGAAAGACCAGGCTGTTCGGAAAATGAAGAGGCAATATCCAACTATCAAGCAAATCCATGTAATGAGCAGGAAGAAGGGCAGTTAGTTCATGGAATATCCAGTAACATCAAGAATATGGATAATCTCACCCTTTGA
Protein sequence

>MsaT010948.1

MDGAPLSSSGGGGNGGNPAPFVQKTYDMVDDSATDDIISWSSMNNSFIVWNPPEFARVLLPTYFKHNNFSSFIRQLNTYGFRKKDSERWEFANEEFIKDQKHLLKNIHRRKPIHSHSHPPGSARSFPKRKIFESSVLIYKHHQSTAKFQLDNFQQLLDGMEIRQTHVLNFFEKALQNPTFVDRLKRKIESIDAAACNKKRRLLHVDRAQPVAAGNLIDNHSNFSLGFENVFHQDFSNKLRLELSPSVSDMNLVSGSTHFSNENEESLQKNLSEGELTEMQTRTDLAFAPETLELADPGASFAFNMDSCLSRRATTTESPTLQSLEPSSEEGDSYISCQLNLTLASCTLEFNRNSYSARSPQIDCQEIGNMAESRVNASGKESEIGVYSNRNVANEVLNLASPQEDSGSIQVKPAAPKRVNDLFWEQFLTERPGCSENEEAISNYQANPCNEQEEGQLVHGISSNIKNMDNLTL*