AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002801

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002801 MtrunA17_Chr1g0178071 97.705 305 6 1 1 305 20 323 0.0 623
MsaG002801 MtrunA17_Chr7g0266821 60.465 258 66 10 60 305 64 297 7.03e-87 262
MsaG002801 MtrunA17_Chr8g0345771 70.796 113 29 2 52 162 167 277 1.77e-48 169
MsaG002801 MtrunA17_Chr7g0276471 69.725 109 29 2 56 162 117 223 2.36e-45 159
MsaG002801 MtrunA17_Chr5g0422501 66.087 115 33 1 53 161 232 346 7.11e-45 157
MsaG002801 MtrunA17_Chr1g0198661 61.157 121 36 2 53 162 188 308 6.86e-41 146
MsaG002801 MtrunA17_Chr1g0213701 50.467 107 43 2 45 146 145 246 8.11e-29 112
MsaG002801 MtrunA17_Chr5g0432721 36.296 135 65 6 35 162 302 422 2.71e-15 76.3
MsaG002801 MtrunA17_Chr4g0012861 35.338 133 66 6 35 160 295 414 3.07e-15 76.3
MsaG002801 MtrunA17_Chr3g0107701 35.758 165 81 9 35 188 319 469 1.93e-14 73.9
MsaG002801 MtrunA17_Chr2g0281191 36.667 120 62 5 43 160 345 452 1.97e-14 73.9
MsaG002801 MtrunA17_Chr7g0244871 41.758 91 46 3 56 144 12 97 1.13e-13 66.2
MsaG002801 MtrunA17_Chr8g0389081 38.053 113 64 3 48 160 130 236 9.26e-13 68.9
MsaG002801 MtrunA17_Chr3g0115271 35.897 117 69 4 46 160 105 217 7.68e-12 65.9
MsaG002801 MtrunA17_Chr1g0199681 31.293 147 81 4 52 197 188 315 8.93e-12 65.9
MsaG002801 MtrunA17_Chr2g0326761 36.697 109 66 2 52 160 103 208 1.25e-11 65.1
MsaG002801 MtrunA17_Chr4g0029671 30.178 169 112 3 49 217 158 320 1.99e-11 64.7
MsaG002801 MtrunA17_Chr4g0028971 32.432 148 83 4 52 194 104 239 2.39e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002801 AT5G06250.2 52.727 220 77 4 50 261 39 239 1.57e-64 205
MsaG002801 AT5G06250.5 51.786 224 81 4 50 265 39 243 1.59e-64 204
MsaG002801 AT5G06250.4 52.727 220 77 4 50 261 39 239 2.07e-64 204
MsaG002801 AT3G11580.1 52.968 219 73 7 52 260 24 222 3.04e-62 198
MsaG002801 AT3G11580.3 52.968 219 73 7 52 260 24 222 3.95e-61 199
MsaG002801 AT5G06250.1 51.802 222 65 5 50 263 39 226 9.05e-61 194
MsaG002801 AT5G06250.3 51.802 222 65 5 50 263 39 226 1.46e-60 194
MsaG002801 AT2G36080.1 49.780 227 63 3 51 276 32 208 6.74e-59 189
MsaG002801 AT2G36080.3 47.561 246 78 3 51 295 32 227 7.84e-59 188
MsaG002801 AT3G11580.4 76.471 119 19 2 52 161 24 142 3.36e-58 187
MsaG002801 AT3G11580.2 76.471 119 19 2 52 161 24 142 3.36e-58 187
MsaG002801 AT3G11580.5 76.471 119 19 2 52 161 24 142 3.36e-58 187
MsaG002801 AT2G36080.4 78.571 112 23 1 51 161 32 143 6.81e-56 179
MsaG002801 AT2G36080.2 78.571 112 23 1 51 161 32 143 6.81e-56 179
MsaG002801 AT3G61970.1 43.805 226 91 6 52 260 18 224 1.27e-50 169
MsaG002801 AT1G01030.2 43.882 237 100 11 46 260 45 270 9.72e-48 163
MsaG002801 AT2G46870.1 69.912 113 29 2 52 161 30 140 9.85e-48 162
MsaG002801 AT1G68840.2 63.934 122 44 0 42 163 173 294 2.08e-46 160
MsaG002801 AT1G68840.1 63.934 122 44 0 42 163 173 294 2.08e-46 160
MsaG002801 AT1G13260.1 66.087 115 38 1 54 168 185 298 2.47e-46 159
MsaG002801 AT3G25730.1 62.097 124 45 2 54 175 180 303 2.75e-45 156
MsaG002801 AT1G01030.1 62.185 119 40 2 46 161 45 161 2.03e-44 155
MsaG002801 AT1G25560.1 59.375 128 46 1 53 174 191 318 8.20e-44 153
MsaG002801 AT4G01500.1 56.198 121 40 2 51 162 30 146 1.19e-37 136
MsaG002801 AT1G50680.1 50.000 98 40 1 56 144 156 253 8.10e-26 105
MsaG002801 AT1G51120.1 49.474 95 42 1 56 144 177 271 2.91e-25 103
MsaG002801 AT2G30470.1 35.766 137 76 5 56 187 294 423 2.23e-15 77.0
MsaG002801 AT4G32010.1 31.250 144 90 4 56 197 285 421 2.60e-14 73.9
MsaG002801 AT4G32010.2 31.944 144 89 5 56 197 281 417 3.10e-14 73.6
MsaG002801 AT1G77850.2 36.283 113 65 3 50 160 112 219 2.80e-12 67.4
MsaG002801 AT1G77850.1 36.283 113 65 3 50 160 112 219 3.07e-12 67.4
MsaG002801 AT1G35240.1 33.793 145 87 4 41 178 105 247 1.05e-11 65.9
MsaG002801 AT1G35520.1 33.103 145 88 4 41 178 105 247 1.85e-11 65.1
MsaG002801 AT1G34310.1 32.414 145 89 4 41 178 105 247 2.59e-11 64.7
MsaG002801 AT5G60450.2 31.288 163 103 4 56 217 152 306 6.16e-11 63.5
MsaG002801 AT5G60450.1 31.288 163 103 4 56 217 176 330 6.34e-11 63.5
MsaG002801 AT2G33860.1 30.000 160 106 3 56 215 158 311 9.29e-11 62.8
MsaG002801 AT2G33860.2 30.000 160 106 3 56 215 1 154 9.92e-11 62.8

Find 76 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAGGGTACTTAGGTTGTTT+GGG 0.235789 1:+47738110 MsaT002801.1:CDS
TCAAGGGTACTTAGGTTGTT+TGG 0.238957 1:+47738109 MsaT002801.1:CDS
TTCCCACCGGTTTCGTCCTT+TGG 0.253544 1:-47738063 None:intergenic
CGTCCTTTGGTTCTGACTTT+GGG 0.260868 1:-47738050 None:intergenic
TCTAGAGTACCTTGTGTTAA+TGG 0.288145 1:-47738208 None:intergenic
TATTAGTCGAACCAACTTCT+TGG 0.317183 1:+47736156 MsaT002801.1:CDS
GGCGTTTCCGTTACTCATAT+TGG 0.359426 1:+47736474 MsaT002801.1:CDS
TCGTCCTTTGGTTCTGACTT+TGG 0.367217 1:-47738051 None:intergenic
CCTACGTCAGAAGGTGTTAA+GGG 0.377142 1:-47736329 None:intergenic
GGTAAGAATGAGGTTGTTAA+TGG 0.377492 1:+47736704 MsaT002801.1:CDS
CTTCTAGTTCAAGGGTACTT+AGG 0.380189 1:+47738101 MsaT002801.1:CDS
CAAGTTCAACTTCTAGTTCA+AGG 0.381802 1:+47738092 MsaT002801.1:CDS
GGGTGAGAATTAGAATTAGA+AGG 0.383626 1:-47738250 None:intergenic
TCCTACGTCAGAAGGTGTTA+AGG 0.388480 1:-47736330 None:intergenic
AGAAGGTTGATGATATTGAT+AGG 0.411150 1:-47738233 None:intergenic
CAAAGCTATGTTCTAACAAA+AGG 0.431965 1:+47736506 MsaT002801.1:CDS
TGATGATGATGCGCAGGATA+AGG 0.435593 1:-47736764 None:intergenic
GGTGTTGAAGAATCATGTTC+AGG 0.437272 1:-47738151 None:intergenic
AATAAAACCCGAAGACGAAA+AGG 0.463997 1:+47736289 MsaT002801.1:CDS
TCAACTGGAGGAGGAGGAGT+GGG 0.485693 1:+47736618 MsaT002801.1:CDS
AAAGACAAACGACTCGATGC+TGG 0.489099 1:+47736545 MsaT002801.1:CDS
AATGAGGTTGTTAATGGTGT+AGG 0.496825 1:+47736710 MsaT002801.1:CDS
ACCATGGAGGTTGGTGGTGA+TGG 0.501172 1:-47736184 None:intergenic
TCAGAACCAAAGGACGAAAC+CGG 0.504470 1:+47738057 MsaT002801.1:CDS
ATCAACTGGAGGAGGAGGAG+TGG 0.505623 1:+47736617 MsaT002801.1:CDS
AGCAGAGGGGTGGGACATCA+TGG 0.518191 1:+47736662 MsaT002801.1:CDS
GAGGAGTGGGGATGATCAGT+CGG 0.525500 1:+47736631 MsaT002801.1:CDS
CATCATGGTAAGGGTAGTGA+TGG 0.527962 1:+47736677 MsaT002801.1:CDS
GCTATGTTCTAACAAAAGGT+TGG 0.532394 1:+47736510 MsaT002801.1:CDS
AAGTTCAACTTCTAGTTCAA+GGG 0.539417 1:+47738093 MsaT002801.1:CDS
AAGGGTACTTAGGTTGTTTG+GGG 0.543731 1:+47738111 MsaT002801.1:CDS
TAGTAAAAGTCCTTTGCACT+CGG 0.550197 1:-47736423 None:intergenic
ATGGTGTAGGGTGGTCCAGA+GGG 0.553370 1:+47736723 MsaT002801.1:CDS
GAACTTGAACTCTTTCCCAC+CGG 0.558795 1:-47738076 None:intergenic
AGGGGTGGGACATCATGGTA+AGG 0.561645 1:+47736667 MsaT002801.1:CDS
AGGATGAGTCAGGGAAGTGT+TGG 0.565031 1:+47736453 MsaT002801.1:CDS
TCCATCACCACCAACCTCCA+TGG 0.565376 1:+47736183 MsaT002801.1:CDS
AATGGTGTAGGGTGGTCCAG+AGG 0.566906 1:+47736722 MsaT002801.1:CDS
GCGGAGTCTGCTCCGCCGAG+TGG 0.567487 1:-47736401 None:intergenic
CATGATCAATGTCTTCATGC+AGG 0.570998 1:+47736803 MsaT002801.1:CDS
GCAGACTCCGCCGAGTGCAA+AGG 0.576404 1:+47736413 MsaT002801.1:CDS
TACTGTTCCAATATGAGTAA+CGG 0.578342 1:-47736481 None:intergenic
TTGAAGAATCATGTTCAGGT+TGG 0.578477 1:-47738147 None:intergenic
TAGGTTGTTTGGGGTCAACA+TGG 0.578736 1:+47738120 MsaT002801.1:CDS
ATGCGCAGAATAGAACCCTC+TGG 0.580439 1:-47736738 None:intergenic
GGCGTATGTTAGCAGAGGGG+TGG 0.580643 1:+47736652 MsaT002801.1:CDS
TGATGGAGAGACCAAGAAGT+TGG 0.584201 1:-47736167 None:intergenic
GCGTATGTTAGCAGAGGGGT+GGG 0.587165 1:+47736653 MsaT002801.1:CDS
AGACATTGATCATGTTGGTA+TGG 0.589887 1:-47736794 None:intergenic
ATGAGGTTGTTAATGGTGTA+GGG 0.597680 1:+47736711 MsaT002801.1:CDS
GAGAATTGAACCATGGAGGT+TGG 0.598304 1:-47736193 None:intergenic
AAGACTTGATGATGATGCGC+AGG 0.600336 1:-47736770 None:intergenic
GTTATAATGTTACAGGTAGA+GGG 0.600635 1:+47738026 MsaT002801.1:intron
TTACTATCATAAGAACATTG+AGG 0.605601 1:-47738172 None:intergenic
TGGATTTGAGAATTGAACCA+TGG 0.606350 1:-47736200 None:intergenic
TGATGGGAATGGTAAGAATG+AGG 0.609090 1:+47736694 MsaT002801.1:CDS
CATGAAGACATTGATCATGT+TGG 0.609605 1:-47736799 None:intergenic
GGTCCCAAAGTCAGAACCAA+AGG 0.613585 1:+47738047 MsaT002801.1:CDS
AGTCGGCGTATGTTAGCAGA+GGG 0.627715 1:+47736648 MsaT002801.1:CDS
GAACCAAAGGACGAAACCGG+TGG 0.630994 1:+47738060 MsaT002801.1:CDS
CAGTCGGCGTATGTTAGCAG+AGG 0.631740 1:+47736647 MsaT002801.1:CDS
GGGGTGGGACATCATGGTAA+GGG 0.638844 1:+47736668 MsaT002801.1:CDS
ATCATGGTAAGGGTAGTGAT+GGG 0.642987 1:+47736678 MsaT002801.1:CDS
CCCTTAACACCTTCTGACGT+AGG 0.645250 1:+47736329 MsaT002801.1:CDS
GGTAAGGGTAGTGATGGGAA+TGG 0.646143 1:+47736683 MsaT002801.1:CDS
AACCAAAGGACGAAACCGGT+GGG 0.646214 1:+47738061 MsaT002801.1:CDS
TAAAAGTCCTTTGCACTCGG+CGG 0.651002 1:-47736420 None:intergenic
CAACTGGAGGAGGAGGAGTG+GGG 0.652199 1:+47736619 MsaT002801.1:CDS
GGTTGGTGACGTACCACGTG+AGG 0.657771 1:-47738271 None:intergenic
AATTGAACCATGGAGGTTGG+TGG 0.658505 1:-47736190 None:intergenic
TTCTAATTCTCACCCTCACG+TGG 0.665652 1:+47738258 MsaT002801.1:CDS
GTTGGTGACGTACCACGTGA+GGG 0.676010 1:-47738270 None:intergenic
AATAATATGCCATTAACACA+AGG 0.689101 1:+47738199 MsaT002801.1:CDS
ATTTGAGAATTGAACCATGG+AGG 0.715955 1:-47736197 None:intergenic
AGGTTGTTAATGGTGTAGGG+TGG 0.756848 1:+47736714 MsaT002801.1:CDS
GTCGGCGTATGTTAGCAGAG+GGG 0.766314 1:+47736649 MsaT002801.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 47736152 47738380 47736152 ID=MsaG002801
Chr1 mRNA 47736152 47738380 47736152 ID=MsaT002801.1;Parent=MsaG002801
Chr1 exon 47736152 47736824 47736152 ID=MsaT002801.1.exon1;Parent=MsaT002801.1
Chr1 CDS 47736152 47736824 47736152 ID=cds.MsaT002801.1;Parent=MsaT002801.1
Chr1 exon 47738041 47738279 47738041 ID=MsaT002801.1.exon2;Parent=MsaT002801.1
Chr1 CDS 47738041 47738279 47738041 ID=cds.MsaT002801.1;Parent=MsaT002801.1
Chr1 exon 47738375 47738380 47738375 ID=MsaT002801.1.exon3;Parent=MsaT002801.1
Chr1 CDS 47738375 47738380 47738375 ID=cds.MsaT002801.1;Parent=MsaT002801.1
Gene Sequence

>MsaT002801.1

ATGTTATTAGTCGAACCAACTTCTTGGTCTCTCCATCACCACCAACCTCCATGGTTCAATTCTCAAATCCATGAAAACTCACCTCATTACAACCTCAAAAACATCGAAGATGAAGAATTAGACACAACCACCACCGTAATAAAACCCGAAGACGAAAAGGAATCAATGTTTGAGAAACCCTTAACACCTTCTGACGTAGGAAAACTCAACCGTCTTGTTATCCCAAAACAATACGCTGAAAAATACTTTCCACTCGGCGGAGCAGACTCCGCCGAGTGCAAAGGACTTTTACTAAGTTTTGAGGATGAGTCAGGGAAGTGTTGGCGTTTCCGTTACTCATATTGGAACAGTAGTCAAAGCTATGTTCTAACAAAAGGTTGGAGTCGTTATGTTAAAGACAAACGACTCGATGCTGGCGATGTCGTTCTGTTTGAACGACATCGTGTTGATAGTCAGAGACTTTTTATCAACTGGAGGAGGAGGAGTGGGGATGATCAGTCGGCGTATGTTAGCAGAGGGGTGGGACATCATGGTAAGGGTAGTGATGGGAATGGTAAGAATGAGGTTGTTAATGGTGTAGGGTGGTCCAGAGGGTTCTATTCTGCGCATGTTCCTTATCCTGCGCATCATCATCAAGTCTTGCCATACCAACATGATCAATGTCTTCATGCAGGTAGAGGGTCCCAAAGTCAGAACCAAAGGACGAAACCGGTGGGAAAGAGTTCAAGTTCAACTTCTAGTTCAAGGGTACTTAGGTTGTTTGGGGTCAACATGGAATGCCAACCTGAACATGATTCTTCAACACCTCAATGTTCTTATGATAGTAACAATAATAATATGCCATTAACACAAGGTACTCTAGATACCTATCAATATCATCAACCTTCTAATTCTAATTCTCACCCTCACGTGGTGTAA
Protein sequence

>MsaT002801.1

MLLVEPTSWSLHHHQPPWFNSQIHENSPHYNLKNIEDEELDTTTTVIKPEDEKESMFEKPLTPSDVGKLNRLVIPKQYAEKYFPLGGADSAECKGLLLSFEDESGKCWRFRYSYWNSSQSYVLTKGWSRYVKDKRLDAGDVVLFERHRVDSQRLFINWRRRSGDDQSAYVSRGVGHHGKGSDGNGKNEVVNGVGWSRGFYSAHVPYPAHHHQVLPYQHDQCLHAGRGSQSQNQRTKPVGKSSSSTSSSRVLRLFGVNMECQPEHDSSTPQCSYDSNNNNMPLTQGTLDTYQYHQPSNSNSHPHVV*