AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006853

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006853 MtrunA17_Chr2g0286221 85.549 173 25 0 31 203 11 183 1.22e-105 301
MsaG006853 MtrunA17_Chr2g0286191 74.611 193 49 0 2 194 172 364 1.64e-101 297
MsaG006853 MtrunA17_Chr2g0295731 49.474 190 92 3 2 189 190 377 6.26e-55 179
MsaG006853 MtrunA17_Chr4g0067121 44.279 201 108 3 1 199 192 390 5.82e-53 174
MsaG006853 MtrunA17_Chr2g0296741 46.154 195 101 3 2 194 216 408 1.61e-49 166
MsaG006853 MtrunA17_Chr2g0296721 45.641 195 102 3 2 194 195 387 2.34e-48 162
MsaG006853 MtrunA17_Chr2g0295741 43.590 195 106 3 2 194 189 381 5.07e-48 161
MsaG006853 MtrunA17_Chr2g0296121 45.361 194 102 3 2 193 269 460 6.71e-48 162
MsaG006853 MtrunA17_Chr2g0296711 46.939 196 98 4 2 194 199 391 1.17e-47 161
MsaG006853 MtrunA17_Chr2g0315731 45.178 197 104 3 2 196 216 410 1.35e-46 158
MsaG006853 MtrunA17_Chr2g0296291 44.615 195 104 3 2 194 211 403 6.81e-46 156
MsaG006853 MtrunA17_Chr2g0296151 45.641 195 102 3 2 194 183 375 8.03e-46 155
MsaG006853 MtrunA17_Chr2g0296701 50.000 160 78 2 37 194 2 161 3.38e-44 145
MsaG006853 MtrunA17_Chr2g0296551 44.505 182 97 3 10 189 5 184 7.39e-44 145
MsaG006853 MtrunA17_Chr2g0296171 45.833 192 100 3 2 191 208 397 1.33e-43 150
MsaG006853 MtrunA17_Chr2g0296251 46.316 190 98 3 2 189 211 398 1.87e-43 149
MsaG006853 MtrunA17_Chr2g0296111 43.719 199 109 3 2 198 182 379 2.68e-43 149
MsaG006853 MtrunA17_Chr2g0295761 45.641 195 99 5 2 192 201 392 1.37e-42 147
MsaG006853 MtrunA17_Chr2g0296221 44.737 190 101 3 2 189 227 414 2.46e-42 147
MsaG006853 MtrunA17_Chr2g0296161 49.045 157 76 3 36 189 3 158 1.24e-41 138
MsaG006853 MtrunA17_Chr2g0296131 47.020 151 78 2 40 188 11 161 4.91e-41 137
MsaG006853 MtrunA17_Chr2g0296211 39.901 203 106 3 3 189 156 358 8.42e-41 142
MsaG006853 MtrunA17_Chr2g0296301 36.816 201 125 2 2 200 177 377 5.53e-40 140
MsaG006853 MtrunA17_Chr2g0296231 44.211 190 100 4 2 189 195 380 1.26e-38 137
MsaG006853 MtrunA17_Chr2g0296191 43.316 187 102 3 2 186 810 994 5.39e-38 139
MsaG006853 MtrunA17_Chr2g0296191 40.838 191 109 3 1 189 322 510 2.89e-37 137
MsaG006853 MtrunA17_Chr4g0067141 42.857 189 102 4 2 187 185 370 4.47e-36 129
MsaG006853 MtrunA17_Chr2g0296751 49.231 130 65 1 66 194 5 134 4.05e-35 122
MsaG006853 MtrunA17_Chr4g0001831 36.649 191 119 2 2 190 181 371 1.65e-33 122
MsaG006853 MtrunA17_Chr2g0295721 50.877 114 55 1 36 148 3 116 6.58e-33 114
MsaG006853 MtrunA17_Chr2g0296181 40.816 196 87 3 2 196 197 364 4.83e-32 119
MsaG006853 MtrunA17_Chr4g0067671 40.782 179 90 5 2 172 185 355 1.03e-31 117
MsaG006853 MtrunA17_Chr4g0067131 48.148 81 41 1 106 185 1 81 9.01e-18 74.7
MsaG006853 MtrunA17_Chr8g0377781 30.270 185 125 3 2 183 185 368 1.67e-17 79.7
MsaG006853 MtrunA17_Chr8g0377801 26.596 188 136 2 2 187 198 385 1.62e-15 73.9
MsaG006853 MtrunA17_Chr4g0067681 50.000 60 30 0 95 154 1 60 1.51e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006853 AT5G07900.1 40.212 189 108 3 2 186 212 399 4.23e-40 141
MsaG006853 AT1G21150.3 30.052 193 132 2 1 190 162 354 9.46e-25 99.8
MsaG006853 AT1G21150.1 30.052 193 132 2 1 190 198 390 1.32e-24 99.8
MsaG006853 AT1G21150.2 30.052 193 132 2 1 190 262 454 2.47e-24 99.8
MsaG006853 AT1G62010.1 31.217 189 89 5 2 152 176 361 8.47e-16 75.1
MsaG006853 AT1G61990.2 27.111 225 123 6 2 186 185 408 1.52e-14 71.6
MsaG006853 AT1G61990.1 27.111 225 123 6 2 186 185 408 1.52e-14 71.6
MsaG006853 AT1G61970.2 25.778 225 126 7 2 186 192 415 2.21e-14 71.2
MsaG006853 AT1G61970.7 25.778 225 126 7 2 186 192 415 2.21e-14 71.2
MsaG006853 AT1G61970.6 25.778 225 126 7 2 186 192 415 2.21e-14 71.2
MsaG006853 AT1G61970.3 25.778 225 126 7 2 186 192 415 2.21e-14 71.2
MsaG006853 AT1G61970.5 25.778 225 126 7 2 186 192 415 2.21e-14 71.2
MsaG006853 AT1G61970.4 25.778 225 126 7 2 186 192 415 2.21e-14 71.2
MsaG006853 AT1G61970.1 25.778 225 126 7 2 186 192 415 2.21e-14 71.2
MsaG006853 AT1G61980.3 27.193 228 119 7 2 186 192 415 1.02e-13 69.3
MsaG006853 AT1G61980.2 27.193 228 119 7 2 186 192 415 1.02e-13 69.3
MsaG006853 AT1G61980.1 27.193 228 119 7 2 186 192 415 1.02e-13 69.3
MsaG006853 AT5G64950.1 29.897 194 127 4 2 187 184 376 2.49e-13 68.2
MsaG006853 AT1G61960.1 31.667 120 78 1 71 186 332 451 4.82e-13 67.4
MsaG006853 AT3G46950.1 23.574 263 125 6 2 190 188 448 9.01e-12 63.5
MsaG006853 AT1G62110.1 29.907 107 70 1 71 172 333 439 2.98e-11 62.0
MsaG006853 AT1G79220.1 31.847 157 102 3 41 192 226 382 3.65e-11 62.0

Find 34 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAACAAACACTCAGAAATT+TGG 0.172074 2:-10749093 None:intergenic
ATTCAAATCCTGCTTCAAAA+TGG 0.214854 2:+10748620 MsaT006853.1:CDS
TTTGATTAAGGATGCTAAAT+TGG 0.241299 2:+10749060 MsaT006853.1:CDS
AACAATGAAAACAGTTGTTT+TGG 0.284531 2:-10748756 None:intergenic
ACCAATTTCGAAACAAAATA+AGG 0.302219 2:-10748661 None:intergenic
TTGGTGGAAGTAAATGAATT+AGG 0.343678 2:+10748725 MsaT006853.1:CDS
TTCAAATCCTGCTTCAAAAT+GGG 0.347056 2:+10748621 MsaT006853.1:CDS
TTGAAATTTCTTGAGTCTAA+AGG 0.377057 2:+10749037 MsaT006853.1:CDS
GATTGATGTGTATAAGAAAT+GGG 0.377187 2:+10748823 MsaT006853.1:CDS
TGAGTCTAAAGGTTTGATTA+AGG 0.378829 2:+10749048 MsaT006853.1:CDS
AGATTGATGTGTATAAGAAA+TGG 0.401224 2:+10748822 MsaT006853.1:CDS
TTTGCTGAGTCTTGAGAAAA+GGG 0.428056 2:+10748994 MsaT006853.1:CDS
GACTCAGCAAAAGAAGTATT+GGG 0.431337 2:-10748982 None:intergenic
AGACTCAGCAAAAGAAGTAT+TGG 0.433507 2:-10748983 None:intergenic
AATGCCTTCTCAAATCTTGA+AGG 0.433670 2:-10748704 None:intergenic
TTGAGAAAAGGGTTATTCCT+AGG 0.436904 2:+10749005 MsaT006853.1:CDS
CTCAGAAATTTGGAAAGGTC+CGG 0.494768 2:-10749083 None:intergenic
TGAGAAAAGGGTTATTCCTA+GGG 0.509820 2:+10749006 MsaT006853.1:CDS
TTCAAGATTTGAGAAGGCAT+TGG 0.516289 2:+10748706 MsaT006853.1:CDS
ATTAAGGATGCTAAATTGGC+CGG 0.517604 2:+10749064 MsaT006853.1:CDS
GGCATCTGTTCGTAAAATTG+AGG 0.523840 2:+10748901 MsaT006853.1:CDS
AAGATTTGAGAAGGCATTGG+TGG 0.528058 2:+10748709 MsaT006853.1:CDS
GAAGTATGTGTATTGCTTCG+AGG 0.536794 2:+10749120 MsaT006853.1:CDS
TCAAATCCTGCTTCAAAATG+GGG 0.541281 2:+10748622 MsaT006853.1:CDS
TCGTAAAATTGAGGCAGCAA+TGG 0.551674 2:+10748910 MsaT006853.1:CDS
GAAGTATCCATGGTGTATGT+TGG 0.562557 2:+10748880 MsaT006853.1:CDS
GAAGCCTTCAAGATTTGAGA+AGG 0.601085 2:+10748700 MsaT006853.1:CDS
CATCAATCTTCCTTTCCCAA+AGG 0.609296 2:-10748808 None:intergenic
AATTTCAAGACAAAAGCCCT+AGG 0.622782 2:-10749022 None:intergenic
AAACACTCAGAAATTTGGAA+AGG 0.625518 2:-10749088 None:intergenic
AAAATAAGGACTTTAGACTC+AGG 0.629406 2:-10748647 None:intergenic
ATTGATGTGTATAAGAAATG+GGG 0.652614 2:+10748824 MsaT006853.1:CDS
ACAGATGCCAACATACACCA+TGG 0.670800 2:-10748887 None:intergenic
ATGTGTATAAGAAATGGGGT+TGG 0.700509 2:+10748828 MsaT006853.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 10748006 10749225 10748006 ID=MsaG006853
Chr2 mRNA 10748006 10749225 10748006 ID=MsaT006853.1;Parent=MsaG006853
Chr2 exon 10748006 10748008 10748006 ID=MsaT006853.1.exon1;Parent=MsaT006853.1
Chr2 CDS 10748006 10748008 10748006 ID=cds.MsaT006853.1;Parent=MsaT006853.1
Chr2 exon 10748617 10749225 10748617 ID=MsaT006853.1.exon2;Parent=MsaT006853.1
Chr2 CDS 10748617 10749225 10748617 ID=cds.MsaT006853.1;Parent=MsaT006853.1
Gene Sequence

>MsaT006853.1

ATGAATATTCAAATCCTGCTTCAAAATGGGGTTCCTGAGTCTAAAGTCCTTATTTTGTTTCGAAATTGGTATTCTATATTCGCTGAGAAGCCTTCAAGATTTGAGAAGGCATTGGTGGAAGTAAATGAATTAGGATTTAACCCCAAAACAACTGTTTTCATTGTTGCACTGCGTGCTAAAATTAATAAAAATATCCTTTGGGAAAGGAAGATTGATGTGTATAAGAAATGGGGTTGGTCTGAAGAAAGTTTTGTCTCAGCATTTTTGAAGTATCCATGGTGTATGTTGGCATCTGTTCGTAAAATTGAGGCAGCAATGGAATTTTTTGTCGGTCACATGGGTTGGAAGCCTATTGTGCTTGCAAAACACCCAATACTTCTTTTGCTGAGTCTTGAGAAAAGGGTTATTCCTAGGGCTTTTGTCTTGAAATTTCTTGAGTCTAAAGGTTTGATTAAGGATGCTAAATTGGCCGGACCTTTCCAAATTTCTGAGTGTTTGTTTTTGAAGAAGTATGTGTATTGCTTCGAGGAAGAAGCTTCTCAACTGTTGAAGTTGTATGAAGAGAAAAAAGATGTTTCCAATAGGATGTTGAAAAAAGATTTTGAGCCGTGA
Protein sequence

>MsaT006853.1

MNIQILLQNGVPESKVLILFRNWYSIFAEKPSRFEKALVEVNELGFNPKTTVFIVALRAKINKNILWERKIDVYKKWGWSEESFVSAFLKYPWCMLASVRKIEAAMEFFVGHMGWKPIVLAKHPILLLLSLEKRVIPRAFVLKFLESKGLIKDAKLAGPFQISECLFLKKYVYCFEEEASQLLKLYEEKKDVSNRMLKKDFEP*