AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG032452

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG032452 MtrunA17_Chr6g0467041 70.336 327 67 2 1 297 1 327 7.81e-165 461
MsaG032452 MtrunA17_Chr8g0378061 75.273 275 24 1 23 253 23 297 1.68e-145 417
MsaG032452 MtrunA17_Chr8g0378061 80.952 42 8 0 258 299 416 457 3.05e-15 75.9
MsaG032452 MtrunA17_Chr2g0330821 55.477 283 94 6 1 254 60 339 2.52e-95 285
MsaG032452 MtrunA17_Chr2g0330841 55.046 218 53 2 82 254 41 258 1.78e-70 223
MsaG032452 MtrunA17_Chr5g0410881 50.711 211 90 4 22 218 32 242 1.05e-64 211
MsaG032452 MtrunA17_Chr8g0379701 41.781 292 147 7 15 293 5 286 4.37e-60 196
MsaG032452 MtrunA17_Chr4g0039891 44.976 209 103 3 20 216 10 218 1.34e-55 187
MsaG032452 MtrunA17_Chr1g0204741 43.049 223 110 6 7 215 20 239 6.80e-51 171
MsaG032452 MtrunA17_Chr7g0260331 45.411 207 103 4 19 215 46 252 1.25e-50 171
MsaG032452 MtrunA17_Chr3g0135831 43.627 204 109 3 19 217 43 245 1.34e-50 171
MsaG032452 MtrunA17_Chr1g0185131 42.574 202 104 3 22 218 32 226 7.35e-47 160
MsaG032452 MtrunA17_Chr4g0071051 44.624 186 99 2 19 203 98 280 5.74e-46 160
MsaG032452 MtrunA17_Chr8g0392001 39.249 293 147 11 20 293 20 300 6.38e-46 159
MsaG032452 MtrunA17_Chr3g0134031 66.667 102 34 0 12 113 14 115 7.57e-45 156
MsaG032452 MtrunA17_Chr5g0402291 61.321 106 41 0 17 122 4 109 1.46e-42 147
MsaG032452 MtrunA17_Chr6g0485571 40.187 214 101 2 20 219 9 209 1.66e-42 149
MsaG032452 MtrunA17_Chr5g0441531 68.817 93 29 0 21 113 24 116 5.64e-42 145
MsaG032452 MtrunA17_Chr5g0397881 59.259 108 44 0 6 113 8 115 2.12e-41 146
MsaG032452 MtrunA17_Chr2g0284481 58.333 108 45 0 12 119 5 112 1.39e-40 145
MsaG032452 MtrunA17_Chr6g0472421 62.366 93 35 0 21 113 32 124 4.69e-38 137
MsaG032452 MtrunA17_Chr1g0203601 60.000 95 38 0 21 115 17 111 2.34e-37 134
MsaG032452 MtrunA17_Chr7g0257331 58.065 93 39 0 21 113 21 113 2.87e-37 132
MsaG032452 MtrunA17_Chr4g0047421 57.732 97 37 1 21 113 32 128 3.44e-34 124
MsaG032452 MtrunA17_Chr8g0375041 55.914 93 41 0 21 113 8 100 1.00e-32 121
MsaG032452 MtrunA17_Chr1g0179321 62.903 62 23 0 20 81 47 108 9.32e-25 95.9
MsaG032452 MtrunA17_Chr4g0023771 60.870 69 26 1 12 79 4 72 1.21e-20 85.1
MsaG032452 MtrunA17_Chr1g0179311 30.189 159 100 4 61 216 1 151 1.46e-13 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG032452 AT4G13980.1 55.556 234 102 2 1 232 1 234 4.40e-85 263
MsaG032452 AT4G17750.1 48.148 216 91 4 22 216 52 267 1.83e-59 197
MsaG032452 AT1G32330.2 46.809 235 106 5 1 216 16 250 5.78e-59 196
MsaG032452 AT1G32330.1 46.809 235 106 5 1 216 16 250 6.71e-59 196
MsaG032452 AT5G16820.1 48.815 211 93 5 20 216 25 234 1.56e-58 195
MsaG032452 AT5G16820.2 48.815 211 93 5 20 216 25 234 1.56e-58 195
MsaG032452 AT3G02990.1 43.348 233 119 4 8 228 9 240 1.84e-58 194
MsaG032452 AT5G45710.3 37.500 312 156 8 14 295 5 307 2.64e-54 180
MsaG032452 AT5G45710.1 37.500 312 156 8 14 295 5 307 2.64e-54 180
MsaG032452 AT4G18880.1 47.867 211 100 3 16 220 9 215 4.56e-52 176
MsaG032452 AT2G26150.1 42.793 222 119 4 19 232 41 262 4.01e-51 172
MsaG032452 AT2G26150.4 42.793 222 119 4 19 232 41 262 4.01e-51 172
MsaG032452 AT3G22830.1 40.278 216 116 3 19 221 58 273 2.23e-47 164
MsaG032452 AT3G51910.1 41.706 211 106 5 22 226 29 228 3.40e-47 159
MsaG032452 AT5G03720.2 42.079 202 109 3 20 213 53 254 1.89e-46 161
MsaG032452 AT5G03720.1 42.079 202 109 3 20 213 53 254 1.89e-46 161
MsaG032452 AT3G24520.1 46.243 173 73 3 20 191 15 168 4.08e-45 156
MsaG032452 AT1G67970.1 45.312 192 92 5 20 201 17 205 8.74e-45 156
MsaG032452 AT1G46264.1 62.500 112 32 1 21 122 33 144 3.18e-44 154
MsaG032452 AT5G43840.1 42.246 187 96 3 21 205 18 194 1.81e-42 147
MsaG032452 AT5G54070.1 43.169 183 98 2 20 201 69 246 5.39e-41 145
MsaG032452 AT3G63350.1 31.655 278 163 7 19 295 25 276 1.39e-39 140
MsaG032452 AT4G11660.1 61.000 100 39 0 14 113 51 150 1.72e-38 139
MsaG032452 AT4G36990.1 57.407 108 44 1 8 115 2 107 3.20e-38 137
MsaG032452 AT5G62020.1 50.420 119 58 1 1 118 1 119 1.05e-37 135
MsaG032452 AT2G41690.1 51.304 115 56 0 22 136 40 154 1.71e-36 131
MsaG032452 AT4G18870.1 46.591 88 47 0 22 109 146 233 1.18e-22 95.5
MsaG032452 AT4G18870.1 45.833 96 51 1 14 109 5 99 2.32e-22 94.7
MsaG032452 AT1G77570.1 42.391 92 49 3 19 106 22 113 8.29e-17 76.3
MsaG032452 AT2G26150.3 32.704 159 99 4 82 232 49 207 2.23e-16 78.2
MsaG032452 AT2G26150.2 32.704 159 99 4 82 232 49 207 2.23e-16 78.2
MsaG032452 AT4G19630.1 34.021 97 61 1 19 112 8 104 2.63e-13 66.2
MsaG032452 AT5G45710.4 28.182 220 119 9 106 295 1 211 1.49e-12 66.6
MsaG032452 AT5G45710.2 28.182 220 119 9 106 295 1 211 1.49e-12 66.6

Find 71 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTCCAATGCTGCCCTTTC+TGG -0.010683 6:+52947885 None:intergenic
CTTCTTTGAGAAGGCTCTTC+AGG 0.211830 6:-52947718 MsaT032452.1:CDS
ATAATTATAGCTTAAGAGTT+TGG 0.284728 6:+52947821 None:intergenic
GAAATTGCTGTGTTTGAAAT+AGG 0.299469 6:+52949091 None:intergenic
CCACAGATGAGATCGTTTCT+TGG 0.319260 6:-52949178 MsaT032452.1:CDS
CAAAATCGAATCCATGGATT+TGG 0.330894 6:-52947667 MsaT032452.1:CDS
AAGGAGTGAATGATGTGTTT+TGG 0.360172 6:-52947449 MsaT032452.1:CDS
ATAACAAAAGCTTCATCGTT+TGG 0.362747 6:-52949148 MsaT032452.1:CDS
GTCTGAACAGCATGGACTTT+CGG 0.368229 6:+52947413 None:intergenic
AGAAGAACGCGAGAGAATTC+AGG 0.373908 6:+52949119 None:intergenic
ACGTTACCTGAAGCCTCCTT+TGG 0.398346 6:+52947495 None:intergenic
GAAGCCTCCTTTGGATCAAC+GGG 0.411360 6:+52947504 None:intergenic
TAAGAAAAGGCGATTGTCTC+AGG 0.414889 6:-52947634 MsaT032452.1:CDS
ACCAAGCTACCTTCGGCAAC+AGG 0.417714 6:+52947597 None:intergenic
AGCTTAAGAGTTTGGATTGA+AGG 0.419735 6:+52947829 None:intergenic
TGGAAACTTATAATAAGAAA+AGG 0.461564 6:-52947647 MsaT032452.1:CDS
GCCGAGCAGCTGCTTCGACT+TGG 0.465666 6:+52947472 None:intergenic
TCTGCTTCCGTCGGCAGCAG+TGG 0.466428 6:+52949253 None:intergenic
CCACAGTCATAGTCATCCTC+CGG 0.469987 6:-52947922 MsaT032452.1:CDS
AAAATCAGATCCTGATCGTT+GGG 0.473476 6:-52948015 MsaT032452.1:CDS
TTCCCGCAAAATCGAATCCA+TGG 0.478636 6:-52947673 MsaT032452.1:CDS
TTGGCAAACTCCCAACGATC+AGG 0.478885 6:+52948005 None:intergenic
TTGCTGTGTTTGAAATAGGC+TGG 0.480359 6:+52949095 None:intergenic
GCTTAAGAGTTTGGATTGAA+GGG 0.480417 6:+52947830 None:intergenic
ATTATAAGTTTCCAAATCCA+TGG 0.481800 6:+52947656 None:intergenic
GTTGATCCAAAGGAGGCTTC+AGG 0.485386 6:-52947501 MsaT032452.1:CDS
AGATCCAGAAAGGGCAGCAT+TGG 0.494908 6:-52947889 MsaT032452.1:CDS
CGACGGAAGCAGAGAAGGTA+TGG 0.499479 6:-52949243 MsaT032452.1:CDS
TGAGACAGAAAAGCTTCAGC+TGG 0.500611 6:-52947796 MsaT032452.1:CDS
ATTGAGCTGACGGATGAAGC+TGG 0.506271 6:+52949067 None:intergenic
TTTGCAGAACTTCTTTGAGA+AGG 0.509914 6:-52947727 MsaT032452.1:CDS
GCCTGTTGCCGAAGGTAGCT+TGG 0.510527 6:-52947598 MsaT032452.1:CDS
TTCTCTCAGAATCTTTCTGA+AGG 0.511282 6:-52947558 MsaT032452.1:CDS
AACTGACCCCGTTGATCCAA+AGG 0.528185 6:-52947511 MsaT032452.1:CDS
CTTTCTGAAGGAGAACTGAC+AGG 0.534056 6:-52947546 MsaT032452.1:CDS
GTCGAAGCAGCTGCTCGGCA+AGG 0.540320 6:-52947468 MsaT032452.1:CDS
AAGGTCAACCAAGCTACCTT+CGG 0.541708 6:+52947590 None:intergenic
TCTGAGAGAAATTGCTAGGA+AGG 0.542451 6:+52947571 None:intergenic
GAAAATCAGATCCTGATCGT+TGG 0.543561 6:-52948016 MsaT032452.1:CDS
TCATACGTCTTCTGAAGAAA+CGG 0.543831 6:+52949218 None:intergenic
TTCTACTGTAGATCCAGAAA+GGG 0.545124 6:-52947898 MsaT032452.1:CDS
TCCAAGTCGAAGCAGCTGCT+CGG 0.548536 6:-52947473 MsaT032452.1:CDS
TGAAGCCTCCTTTGGATCAA+CGG 0.548927 6:+52947503 None:intergenic
TCAGCGGCGATTGGAAGGCA+TGG 0.549084 6:-52947766 MsaT032452.1:CDS
CCGGAGGATGACTATGACTG+TGG 0.551542 6:+52947922 None:intergenic
CACAGTCATAGTCATCCTCC+GGG 0.559092 6:-52947921 MsaT032452.1:CDS
GTTCTACTGTAGATCCAGAA+AGG 0.564434 6:-52947899 MsaT032452.1:CDS
AGATTCTGAGAGAAATTGCT+AGG 0.568077 6:+52947567 None:intergenic
GACTGTGGATAGGTTTCTTG+CGG 0.574041 6:+52947937 None:intergenic
TGCTGTGTTTGAAATAGGCT+GGG 0.577118 6:+52949096 None:intergenic
GCTGCCGACGGAAGCAGAGA+AGG 0.581055 6:-52949248 MsaT032452.1:CDS
AGAAACGATCTCATCTGTGG+TGG 0.582151 6:+52949181 None:intergenic
AACAGCATGGACTTTCGGTA+AGG 0.583587 6:+52947418 None:intergenic
GATTGGAAGGCATGGAGAAG+AGG 0.593047 6:-52947758 MsaT032452.1:CDS
CACATGCAGCCTGTTGCCGA+AGG 0.596050 6:-52947606 MsaT032452.1:CDS
TCTTCATTGTCTGAACAGCA+TGG 0.597736 6:+52947405 None:intergenic
TTACATAGGTATTGAGCTGA+CGG 0.598207 6:+52949057 None:intergenic
TCATCAGCCACTGCTGCCGA+CGG 0.606067 6:-52949260 MsaT032452.1:CDS
GGATGACTATGACTGTGGAT+AGG 0.617132 6:+52947927 None:intergenic
CATACCTTCTCTGCTTCCGT+CGG 0.623107 6:+52949244 None:intergenic
GAAACGATCTCATCTGTGGT+GGG 0.626600 6:+52949182 None:intergenic
AGAACGCGAGAGAATTCAGG+AGG 0.628084 6:+52949122 None:intergenic
CCAAGAAACGATCTCATCTG+TGG 0.633047 6:+52949178 None:intergenic
ATGCTGTTCAGACAATGAAG+AGG 0.637659 6:-52947403 MsaT032452.1:CDS
GAACGCGAGAGAATTCAGGA+GGG 0.662504 6:+52949123 None:intergenic
TCTTCAGAAGACGTATGACA+TGG 0.665030 6:-52949213 MsaT032452.1:CDS
TCTGGATCTACAGTAGAACC+CGG 0.676402 6:+52947903 None:intergenic
TGACCCCGTTGATCCAAAGG+AGG 0.688995 6:-52947508 MsaT032452.1:CDS
GCAGTGGCTGATGATGATTG+TGG 0.706595 6:+52949269 None:intergenic
GGATCTACAGTAGAACCCGG+AGG 0.764137 6:+52947906 None:intergenic
AAGCCTCCTTTGGATCAACG+GGG 0.785647 6:+52947505 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 52947389 52949303 52947389 ID=MsaG032452
Chr6 mRNA 52947389 52949303 52947389 ID=MsaT032452.1;Parent=MsaG032452
Chr6 exon 52947389 52948045 52947389 ID=MsaT032452.1.exon2;Parent=MsaT032452.1
Chr6 CDS 52947389 52948045 52947389 ID=cds.MsaT032452.1;Parent=MsaT032452.1
Chr6 exon 52949061 52949303 52949061 ID=MsaT032452.1.exon1;Parent=MsaT032452.1
Chr6 CDS 52949061 52949303 52949061 ID=cds.MsaT032452.1;Parent=MsaT032452.1
Gene Sequence

>MsaT032452.1

ATGAATTCTGCACCACAATCATCATCAGCCACTGCTGCCGACGGAAGCAGAGAAGGTATGGCACCGTTTCTTCAGAAGACGTATGACATGGTAGATGATCCCACCACAGATGAGATCGTTTCTTGGAGCTCTGATAACAAAAGCTTCATCGTTTGGAACCCTCCTGAATTCTCTCGCGTTCTTCTCCCAGCCTATTTCAAACACAGCAATTTCTCCAGCTTCATCCGTCAGCTCAATACCTATGGATTTCGAAAATCAGATCCTGATCGTTGGGAGTTTGCCAATGAAAAATTTATAAAAGATCAAAAACATCTTCTGACGGATATACACCGCAAGAAACCTATCCACAGTCATAGTCATCCTCCGGGTTCTACTGTAGATCCAGAAAGGGCAGCATTGGAGAAAGAAATAGAGAAGCTGTCTCGCAAGAAAAATGCCCTTCAATCCAAACTCTTAAGCTATAATTATCTTGAGACAGAAAAGCTTCAGCTGGAAGATTTTCAGCGGCGATTGGAAGGCATGGAGAAGAGGCAGACAAATTTGCAGAACTTCTTTGAGAAGGCTCTTCAGGATTCTTTCATTGTTGAACTTCTTTCCCGCAAAATCGAATCCATGGATTTGGAAACTTATAATAAGAAAAGGCGATTGTCTCAGGTTGATCACATGCAGCCTGTTGCCGAAGGTAGCTTGGTTGACCTTCCTAGCAATTTCTCTCAGAATCTTTCTGAAGGAGAACTGACAGGAATACAGACAAGAACTGACCCCGTTGATCCAAAGGAGGCTTCAGGTAACGTCCAAGTCGAAGCAGCTGCTCGGCAAGGAGTGAATGATGTGTTTTGGGAACAATTCCTTACCGAAAGTCCATGCTGTTCAGACAATGAAGAGGAAATGTTCAACTAA
Protein sequence

>MsaT032452.1

MNSAPQSSSATAADGSREGMAPFLQKTYDMVDDPTTDEIVSWSSDNKSFIVWNPPEFSRVLLPAYFKHSNFSSFIRQLNTYGFRKSDPDRWEFANEKFIKDQKHLLTDIHRKKPIHSHSHPPGSTVDPERAALEKEIEKLSRKKNALQSKLLSYNYLETEKLQLEDFQRRLEGMEKRQTNLQNFFEKALQDSFIVELLSRKIESMDLETYNKKRRLSQVDHMQPVAEGSLVDLPSNFSQNLSEGELTGIQTRTDPVDPKEASGNVQVEAAARQGVNDVFWEQFLTESPCCSDNEEEMFN*