AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024601

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024601 MtrunA17_Chr8g0392001 98.171 328 4 1 1 328 1 326 0.0 665
MsaG024601 MtrunA17_Chr5g0410881 45.588 272 128 7 24 278 32 300 1.77e-66 218
MsaG024601 MtrunA17_Chr4g0039891 41.877 277 153 3 15 284 3 278 6.50e-66 216
MsaG024601 MtrunA17_Chr1g0204741 49.505 202 84 6 24 221 40 227 5.18e-54 180
MsaG024601 MtrunA17_Chr7g0260331 46.535 202 104 2 24 225 49 246 2.11e-52 177
MsaG024601 MtrunA17_Chr6g0467041 46.569 204 96 6 13 216 11 201 2.38e-50 171
MsaG024601 MtrunA17_Chr8g0379701 45.500 200 98 3 16 213 4 194 1.40e-49 171
MsaG024601 MtrunA17_Chr3g0135831 45.361 194 99 2 24 217 46 232 9.22e-49 168
MsaG024601 MtrunA17_Chr2g0284481 45.455 198 96 3 14 207 5 194 1.34e-46 162
MsaG024601 MtrunA17_Chr6g0485571 46.193 197 95 4 22 218 9 194 1.17e-45 159
MsaG024601 MtrunA17_Chr8g0378061 47.917 192 87 6 25 216 23 201 3.55e-45 161
MsaG024601 MtrunA17_Chr1g0185131 44.624 186 85 3 24 209 32 199 6.64e-45 157
MsaG024601 MtrunA17_Chr2g0330821 42.857 203 105 4 7 209 62 253 3.95e-44 155
MsaG024601 MtrunA17_Chr4g0071051 45.312 192 89 3 24 214 101 277 6.10e-44 156
MsaG024601 MtrunA17_Chr5g0441531 61.458 96 36 1 23 118 24 118 2.07e-34 127
MsaG024601 MtrunA17_Chr3g0134031 63.830 94 33 1 23 116 23 115 5.14e-34 129
MsaG024601 MtrunA17_Chr5g0402291 42.373 177 74 2 23 172 8 183 2.45e-33 125
MsaG024601 MtrunA17_Chr5g0397881 54.128 109 48 2 9 116 8 115 2.78e-33 126
MsaG024601 MtrunA17_Chr6g0472421 61.702 94 35 1 23 116 32 124 2.06e-32 124
MsaG024601 MtrunA17_Chr8g0375041 43.750 160 81 4 21 172 6 164 6.24e-32 120
MsaG024601 MtrunA17_Chr1g0203601 57.447 94 39 1 23 116 17 109 2.10e-30 117
MsaG024601 MtrunA17_Chr7g0257331 47.826 115 58 2 2 116 1 113 6.62e-30 114
MsaG024601 MtrunA17_Chr4g0047421 40.000 155 83 5 23 168 32 185 8.46e-26 102
MsaG024601 MtrunA17_Chr1g0179311 35.928 167 98 3 85 250 14 172 4.39e-21 93.2
MsaG024601 MtrunA17_Chr2g0330841 37.500 128 70 3 85 212 41 158 7.72e-17 81.3
MsaG024601 MtrunA17_Chr1g0179321 55.556 63 27 1 22 84 47 108 1.21e-16 75.1
MsaG024601 MtrunA17_Chr4g0023771 53.623 69 31 1 14 82 5 72 4.36e-14 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024601 AT1G67970.1 46.302 311 141 4 22 331 17 302 1.42e-88 271
MsaG024601 AT1G32330.2 46.000 250 123 4 19 257 32 280 3.03e-62 206
MsaG024601 AT1G32330.1 46.000 250 123 4 19 257 32 280 3.72e-62 206
MsaG024601 AT5G16820.1 45.306 245 124 4 21 257 24 266 8.22e-59 197
MsaG024601 AT5G16820.2 45.306 245 124 4 21 257 24 266 8.22e-59 197
MsaG024601 AT4G17750.1 46.341 246 112 5 24 250 52 296 2.00e-58 197
MsaG024601 AT2G26150.1 49.206 189 89 2 24 212 44 225 1.24e-54 183
MsaG024601 AT2G26150.4 49.206 189 89 2 24 212 44 225 1.24e-54 183
MsaG024601 AT3G02990.1 46.575 219 87 4 21 225 20 222 3.07e-54 185
MsaG024601 AT3G22830.1 47.783 203 104 2 24 225 61 262 7.53e-54 182
MsaG024601 AT3G51910.1 43.814 194 87 4 24 217 29 200 8.22e-49 166
MsaG024601 AT5G03720.2 43.455 191 99 3 22 212 53 234 2.05e-47 166
MsaG024601 AT5G03720.1 43.455 191 99 3 22 212 53 234 2.05e-47 166
MsaG024601 AT3G24520.1 44.388 196 79 3 22 217 15 180 1.41e-46 161
MsaG024601 AT5G43840.1 44.737 190 84 2 23 212 18 186 2.25e-46 159
MsaG024601 AT4G13980.1 45.946 185 89 4 25 209 24 197 4.18e-45 160
MsaG024601 AT5G45710.3 42.654 211 106 4 18 224 7 206 6.31e-44 155
MsaG024601 AT5G45710.1 42.654 211 106 4 18 224 7 206 6.31e-44 155
MsaG024601 AT3G63350.1 40.476 210 110 4 23 232 27 221 7.39e-42 147
MsaG024601 AT5G54070.1 40.609 197 101 2 20 216 67 247 1.39e-41 148
MsaG024601 AT4G18880.1 46.231 199 97 4 16 212 7 197 4.61e-41 149
MsaG024601 AT1G46264.1 56.637 113 48 1 16 128 26 137 1.74e-37 138
MsaG024601 AT4G11660.1 59.574 94 37 1 23 116 58 150 9.23e-32 123
MsaG024601 AT5G62020.1 56.190 105 44 2 13 116 11 114 1.17e-31 121
MsaG024601 AT4G36990.1 56.383 94 40 1 23 116 13 105 2.38e-30 117
MsaG024601 AT2G41690.1 55.208 96 42 1 24 119 40 134 1.39e-29 114
MsaG024601 AT2G26150.3 42.308 130 69 1 83 212 47 170 1.19e-22 96.7
MsaG024601 AT2G26150.2 42.308 130 69 1 83 212 47 170 1.19e-22 96.7
MsaG024601 AT4G18870.1 42.276 123 61 3 21 141 143 257 1.25e-19 88.2
MsaG024601 AT4G18870.1 51.087 92 43 2 21 112 10 99 2.31e-19 87.4
MsaG024601 AT4G19630.1 36.842 95 56 2 21 112 8 101 1.17e-12 65.1

Find 81 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTATTGTGTTTGAAATAAT+TGG 0.094053 4:-101319549 None:intergenic
GTTGAATTTATCAGGGTTTC+AGG 0.157083 4:+101320393 MsaT024601.1:intron
GGTGGTTCTGGTTCTGGTTC+TGG 0.187158 4:+101319383 MsaT024601.1:CDS
TCTGGTTCTGGTTCTGGTTC+TGG 0.213548 4:+101319389 MsaT024601.1:CDS
AGGTTCTGGTTGCTTATTAA+AGG 0.234573 4:-101320948 None:intergenic
TTGCAAATGAAAACTTCATT+AGG 0.259058 4:+101320441 MsaT024601.1:CDS
GGTTCATCGCGATTGTCTTT+TGG 0.270022 4:-101320542 None:intergenic
TGCAAATGAAAACTTCATTA+GGG 0.270385 4:+101320442 MsaT024601.1:CDS
GAGAAGGGTGGTTCTGGTTC+TGG 0.286157 4:+101319377 MsaT024601.1:CDS
CTTGAATAAATGTTACAATA+TGG 0.288405 4:+101319427 MsaT024601.1:CDS
CGTGCAATGCCCTGGATTCT+TGG 0.305963 4:+101320760 MsaT024601.1:CDS
TTATTGTGTTTGAAATAATT+GGG 0.306935 4:-101319548 None:intergenic
GCAGCAGATGCTCTCATTCT+TGG 0.308364 4:+101320730 MsaT024601.1:CDS
TTCACCCTAAGGAAAATAAT+TGG 0.343688 4:+101320792 MsaT024601.1:CDS
GTTTCTTGTACCTGATTTAC+CGG 0.350562 4:+101321069 MsaT024601.1:CDS
AACGGAGAATGATTATCTAA+TGG 0.359885 4:-101321049 None:intergenic
GCGAGCGAGAAGGGTGGTTC+TGG 0.371236 4:+101319371 MsaT024601.1:CDS
CAACCGATTCCATCATCTCT+TGG 0.401097 4:+101319462 MsaT024601.1:CDS
CTACTGAGTGATCGCCTTGA+AGG 0.403981 4:+101320692 MsaT024601.1:CDS
TTCTGGTTCTGGTTCTGGTT+CGG 0.405143 4:+101319394 MsaT024601.1:CDS
GATGCTTCTCCATTCCTTCA+AGG 0.410224 4:-101320706 None:intergenic
TGATTTACTGCTTCTTGTGA+TGG 0.416635 4:-101320563 None:intergenic
GGAAAATTGATGCAGATCAC+TGG 0.420160 4:+101320414 MsaT024601.1:CDS
GTCTGTCATCTTGGTTACCT+TGG 0.422781 4:-101320844 None:intergenic
GAACCGTCATCCGGTAAATC+AGG 0.426775 4:-101321079 None:intergenic
TGCTGAAGAATATACATAGA+AGG 0.428125 4:+101320477 MsaT024601.1:CDS
ACGGAGAATGATTATCTAAT+GGG 0.429612 4:-101321048 None:intergenic
GCAGGAGATCGTGGAACAAC+AGG 0.434299 4:-101320926 None:intergenic
TCTGTAGAAACCTCAGGTTC+TGG 0.439677 4:-101320962 None:intergenic
AAGCAGTAAATCATGGCCTT+TGG 0.439818 4:+101320573 MsaT024601.1:CDS
ATCATCCCATCAGAAGAAAC+TGG 0.445617 4:-101320866 None:intergenic
AAGAAACTGGTCTGTCATCT+TGG 0.448044 4:-101320853 None:intergenic
TTGTAACATTTATTCAAGAA+AGG 0.448776 4:-101319422 None:intergenic
AGAAGTTGAGAATCTAAAAT+CGG 0.450572 4:+101320598 MsaT024601.1:CDS
GAACCTGAGGTTTCTACAGA+TGG 0.463364 4:+101320965 MsaT024601.1:CDS
AATTGGCGTTTCTCTGAAGC+AGG 0.464691 4:+101320809 MsaT024601.1:CDS
GCAGCAACAGCGAGCGAGAA+GGG 0.473861 4:+101319362 MsaT024601.1:CDS
AACCCATCTGTAGAAACCTC+AGG 0.474952 4:-101320968 None:intergenic
TGTTCCCACGAACCGTCATC+CGG 0.475845 4:-101321088 None:intergenic
GGTTCAGCTGCTTCACCCTA+AGG 0.476383 4:+101320781 MsaT024601.1:CDS
GCTTACTCTCAGAAGATTCA+AGG 0.482301 4:-101320664 None:intergenic
AGCAGCTGAACCAAGAATCC+AGG 0.483387 4:-101320770 None:intergenic
ATTTACCGGATGACGGTTCG+TGG 0.488372 4:+101321083 MsaT024601.1:CDS
GAGTGATCGCCTTGAAGGAA+TGG 0.496645 4:+101320697 MsaT024601.1:CDS
TCTGGTTGCTTATTAAAGGC+AGG 0.497515 4:-101320944 None:intergenic
GTCATGGTCGTGCAATGCCC+TGG 0.501216 4:+101320752 MsaT024601.1:CDS
GACAGACCAGTTTCTTCTGA+TGG 0.504911 4:+101320860 MsaT024601.1:CDS
TCTCTGAAGCAGGGAATATG+TGG 0.508698 4:+101320819 MsaT024601.1:CDS
GATTCTCAACTTCTCTCCAA+AGG 0.510423 4:-101320589 None:intergenic
TATTGTGTTTGAAATAATTG+GGG 0.510469 4:-101319547 None:intergenic
GATGCTCTCATTCTTGGTCA+TGG 0.526629 4:+101320736 MsaT024601.1:CDS
GTTGAGTTGTCTGACGAAGC+TGG 0.529603 4:-101319576 None:intergenic
GAGATGATGGAATCGGTTGA+AGG 0.531686 4:-101319458 None:intergenic
ATCATCTCTTGGTCCGCTGA+TGG 0.533246 4:+101319473 MsaT024601.1:CDS
ATCAGCGGACCAAGAGATGA+TGG 0.535757 4:-101319471 None:intergenic
GGTAAATCAGGTACAAGAAA+CGG 0.535891 4:-101321067 None:intergenic
TGGTTCTGGTTCTGGTTCGG+TGG 0.539717 4:+101319397 MsaT024601.1:CDS
GAGTGAGAATTGATCAGCGT+TGG 0.547894 4:-101319516 None:intergenic
GTACCTGATTTACCGGATGA+CGG 0.554758 4:+101321076 MsaT024601.1:CDS
AACTGTTAGTGACATGGAGA+TGG 0.556871 4:+101321173 MsaT024601.1:CDS
ACAGACCAGTTTCTTCTGAT+GGG 0.557728 4:+101320861 MsaT024601.1:CDS
GTTTGACCAACTCCTGCGTG+AGG 0.558206 4:-101320631 None:intergenic
GGACCAAGAGATGATGGAAT+CGG 0.561010 4:-101319465 None:intergenic
TTTACCGGATGACGGTTCGT+GGG 0.565563 4:+101321084 MsaT024601.1:CDS
AGCAGCAACAGCGAGCGAGA+AGG 0.566061 4:+101319361 MsaT024601.1:CDS
TCACAAGAAGCAGTAAATCA+TGG 0.568437 4:+101320566 MsaT024601.1:CDS
TGCTGATCTGCAGCAACATG+TGG 0.573167 4:-101320506 None:intergenic
AACCTGAGGTTTCTACAGAT+GGG 0.578276 4:+101320966 MsaT024601.1:CDS
TTTGACCAACTCCTGCGTGA+GGG 0.583918 4:-101320630 None:intergenic
GAAAATTGATGCAGATCACT+GGG 0.584009 4:+101320415 MsaT024601.1:CDS
GCAAATGAAAACTTCATTAG+GGG 0.585563 4:+101320443 MsaT024601.1:CDS
TAATAAGCAACCAGAACCTG+AGG 0.601561 4:+101320952 MsaT024601.1:CDS
GCAGCTGAACCAAGAATCCA+GGG 0.614903 4:-101320769 None:intergenic
TTATTAAAGGCAGGAGATCG+TGG 0.635093 4:-101320935 None:intergenic
CTCTGAAGCAGGGAATATGT+GGG 0.641241 4:+101320820 MsaT024601.1:CDS
ATTGGCGTTTCTCTGAAGCA+GGG 0.648668 4:+101320810 MsaT024601.1:CDS
GGAGCAAACTGTTAGTGACA+TGG 0.649582 4:+101321167 MsaT024601.1:CDS
GCAGGGAATATGTGGGACCA+AGG 0.652641 4:+101320827 MsaT024601.1:CDS
GCAACAGCGAGCGAGAAGGG+TGG 0.652707 4:+101319365 MsaT024601.1:CDS
GAAACTATTGTTACCATCAG+CGG 0.656676 4:-101319486 None:intergenic
AGATACTGATCGTGAAAACG+AGG 0.683103 4:+101321146 MsaT024601.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 101319353 101321219 101319353 ID=MsaG024601
Chr4 mRNA 101319353 101321219 101319353 ID=MsaT024601.1;Parent=MsaG024601
Chr4 exon 101319353 101319604 101319353 ID=MsaT024601.1.exon1;Parent=MsaT024601.1
Chr4 CDS 101319353 101319604 101319353 ID=cds.MsaT024601.1;Parent=MsaT024601.1
Chr4 exon 101320407 101321219 101320407 ID=MsaT024601.1.exon2;Parent=MsaT024601.1
Chr4 CDS 101320407 101321219 101320407 ID=cds.MsaT024601.1;Parent=MsaT024601.1
Gene Sequence

>MsaT024601.1

ATGGTGAAAGCAGCAACAGCGAGCGAGAAGGGTGGTTCTGGTTCTGGTTCTGGTTCTGGTTCGGTGGCACCTTTCTTGAATAAATGTTACAATATGGTTGAAGATCCTTCAACCGATTCCATCATCTCTTGGTCCGCTGATGGTAACAATAGTTTCATCATCTCCAACGCTGATCAATTCTCACTCACTCTTCTCCCCAATTATTTCAAACACAATAATTTCTCCAGCTTCGTCAGACAACTCAACATCTATGGTTTCAGGAAAATTGATGCAGATCACTGGGAATTTGCAAATGAAAACTTCATTAGGGGTCAAAAGCATTTGCTGAAGAATATACATAGAAGGAAACATCCACATGTTGCTGCAGATCAGCAAAAACCATTGCCGCCAAAAGACAATCGCGATGAACCATCACAAGAAGCAGTAAATCATGGCCTTTGGAGAGAAGTTGAGAATCTAAAATCGGATAGAAAAACCCTCACGCAGGAGTTGGTCAAACATAAGCAGCACCTTGAATCTTCTGAGAGTAAGCTGCTTCTACTGAGTGATCGCCTTGAAGGAATGGAGAAGCATCAGCAGCAGATGCTCTCATTCTTGGTCATGGTCGTGCAATGCCCTGGATTCTTGGTTCAGCTGCTTCACCCTAAGGAAAATAATTGGCGTTTCTCTGAAGCAGGGAATATGTGGGACCAAGGTAACCAAGATGACAGACCAGTTTCTTCTGATGGGATGATTATAAAGTATACACCACCTGTTGCTGAAAAACTAAAACCTGTTGTTCCACGATCTCCTGCCTTTAATAAGCAACCAGAACCTGAGGTTTCTACAGATGGGTTAAAAGACTTGTGCATCAGTTCTGAGTTCTTGAAATTGCTTCTAGATGAGAAATTGTGCCCATTAGATAATCATTCTCCGTTTCTTGTACCTGATTTACCGGATGACGGTTCGTGGGAACAACTATTTTTAGGCAGTCCTATCCTAAAAATGTTGAAGATACTGATCGTGAAAACGAGGAGCAAACTGTTAGTGACATGGAGATGGATCACATCATATCTGAAGCTCTAA
Protein sequence

>MsaT024601.1

MVKAATASEKGGSGSGSGSGSVAPFLNKCYNMVEDPSTDSIISWSADGNNSFIISNADQFSLTLLPNYFKHNNFSSFVRQLNIYGFRKIDADHWEFANENFIRGQKHLLKNIHRRKHPHVAADQQKPLPPKDNRDEPSQEAVNHGLWREVENLKSDRKTLTQELVKHKQHLESSESKLLLLSDRLEGMEKHQQQMLSFLVMVVQCPGFLVQLLHPKENNWRFSEAGNMWDQGNQDDRPVSSDGMIIKYTPPVAEKLKPVVPRSPAFNKQPEPEVSTDGLKDLCISSEFLKLLLDEKLCPLDNHSPFLVPDLPDDGSWEQLFLGSPILKMLKILIVKTRSKLLVTWRWITSYLKL*