AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003869


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003869 MtrunA17_Chr1g0190761 95.411 414 17 1 1 414 1 412 0.0 761
MsaG003869 MtrunA17_Chr7g0274141 54.839 403 161 9 1 401 1 384 1.43e-121 358
MsaG003869 MtrunA17_Chr3g0139301 52.593 135 57 4 177 307 96 227 2.11e-30 118
MsaG003869 MtrunA17_Chr1g0147491 59.504 121 45 2 180 300 143 259 4.76e-27 110
MsaG003869 MtrunA17_Chr3g0139571 59.459 74 30 0 209 282 1 74 1.61e-17 77.0
MsaG003869 MtrunA17_Chr4g0035414 41.304 92 54 0 208 299 28 119 3.60e-14 69.7
MsaG003869 MtrunA17_Chr7g0225661 41.346 104 55 1 179 282 59 156 7.66e-14 69.7
MsaG003869 MtrunA17_Chr8g0341311 45.055 91 45 1 192 282 61 146 8.02e-14 69.7
MsaG003869 MtrunA17_Chr3g0144941 38.043 92 57 0 208 299 28 119 1.53e-13 68.2
MsaG003869 MtrunA17_Chr6g0456061 47.297 74 39 0 210 283 90 163 2.11e-13 68.9
MsaG003869 MtrunA17_Chr8g0378901 31.092 119 79 1 181 299 9 124 1.73e-12 65.1
MsaG003869 MtrunA17_Chr1g0155551 30.573 157 89 4 180 323 7 156 1.93e-11 62.0
MsaG003869 MtrunA17_Chr8g0373571 43.529 85 46 1 194 278 248 330 2.21e-11 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003869 AT5G28770.2 45.185 405 126 15 1 402 1 312 1.35e-75 238
MsaG003869 AT5G28770.1 44.444 405 122 16 1 402 1 305 7.15e-71 226
MsaG003869 AT5G28770.3 48.944 284 86 10 1 283 1 226 7.93e-56 185
MsaG003869 AT4G02640.3 40.549 328 150 7 1 299 1 312 1.20e-49 173
MsaG003869 AT4G02640.2 40.549 328 150 7 1 299 1 312 1.33e-49 173
MsaG003869 AT4G02640.1 40.549 328 144 7 1 299 1 306 3.80e-49 172
MsaG003869 AT4G02640.4 40.549 328 144 7 1 299 1 306 4.79e-49 172
MsaG003869 AT3G54620.1 38.965 367 151 14 1 322 1 339 1.17e-43 157
MsaG003869 AT5G24800.1 44.444 189 92 5 139 318 51 235 5.52e-37 136
MsaG003869 AT5G28770.4 44.898 245 76 10 1 244 1 187 2.98e-33 124
MsaG003869 AT3G54620.3 37.057 367 141 16 1 322 1 322 7.08e-29 117
MsaG003869 AT2G18160.1 41.758 91 53 0 202 292 23 113 3.53e-14 70.9
MsaG003869 AT2G04038.1 43.617 94 48 1 189 282 58 146 6.61e-13 67.0
MsaG003869 AT1G75390.1 36.522 115 68 1 205 319 36 145 1.11e-12 66.6
MsaG003869 AT3G30530.1 37.864 103 60 1 180 282 55 153 2.72e-12 65.5
MsaG003869 AT1G13600.1 45.333 75 41 0 208 282 84 158 9.47e-12 64.3
MsaG003869 AT3G62420.1 32.692 104 60 1 207 310 22 115 1.48e-11 62.4
MsaG003869 AT5G15830.1 41.758 91 47 1 192 282 62 146 5.47e-11 62.0

Find 128 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGATGATCCACTTGTTGA+TGG 0.223100 1:+63033202 None:intergenic
GCATCTTTATCTTGTAATAT+AGG 0.256635 1:+63033289 None:intergenic
CCGCAGAATCAGTGTACTTT+TGG 0.261444 1:+63031920 None:intergenic
CCTACAACTGCTGCATTGTT+TGG 0.276575 1:+63030990 None:intergenic
TCCAACTTTAGTAGCATTAG+AGG 0.290868 1:+63033643 None:intergenic
GGCAAAACGGCACCGTCTTT+TGG 0.308675 1:+63035462 None:intergenic
TTGATTCAAACCTTCAGAAA+TGG 0.321181 1:+63033613 None:intergenic
TCTTGTGGACCTTCTCCTAA+TGG 0.363682 1:-63030876 MsaT003869.1:CDS
TATGCAGGATCTGTTCCTTC+TGG 0.364918 1:-63033322 MsaT003869.1:intron
GCAATTTACTGCTCTCCATT+AGG 0.372962 1:+63030861 None:intergenic
CTTTCTTCTTCTTGAGCGCC+TGG 0.376215 1:+63032144 None:intergenic
GTTGCACCGGGTGGCTAGCT+TGG 0.383977 1:-63030937 MsaT003869.1:CDS
TGCGGTGACCATAGGTTGTC+GGG 0.393062 1:+63035636 None:intergenic
CCAAACAATGCAGCAGTTGT+AGG 0.408840 1:-63030990 MsaT003869.1:CDS
TGATTCAAACCTTCAGAAAT+GGG 0.409793 1:+63033614 None:intergenic
CCGTTGATTCCGAAGAATAT+CGG 0.415030 1:-63035419 MsaT003869.1:CDS
TCCTCTAATGCTACTAAAGT+TGG 0.420756 1:-63033644 MsaT003869.1:CDS
ATGGGGATGCCAGCATTTGA+TGG 0.424587 1:-63031167 MsaT003869.1:CDS
GCAGGCTCATTTAACTGAGT+TGG 0.425028 1:-63032122 MsaT003869.1:CDS
GCGCCTGGCTGACTCTCTAT+TGG 0.428094 1:+63032159 None:intergenic
TGGTGCAGCATCGGCAAAAC+CGG 0.428231 1:+63035482 None:intergenic
ATTCATGTCACCGGCGGCGC+CGG 0.438697 1:-63035612 MsaT003869.1:CDS
CTTTAGGTTTCACAATTAAG+AGG 0.441246 1:-63031982 MsaT003869.1:intron
GAGACTGTGAAAAGAGTTAC+CGG 0.441519 1:-63031230 MsaT003869.1:CDS
CAGAACAGCCCGATATTCTT+CGG 0.443037 1:+63035410 None:intergenic
TCCACTTGTTGATGGCCTAA+TGG 0.446126 1:+63033210 None:intergenic
GGAAGCGCTGCGACTCATCT+TGG 0.448544 1:+63035578 None:intergenic
GAGGACTGTGGTCCATTCTC+AGG 0.449150 1:+63033662 None:intergenic
GCCACCGGAGGTGGTCCATT+GGG 0.449839 1:+63035441 None:intergenic
CGTTGATTCCGAAGAATATC+GGG 0.456409 1:-63035418 MsaT003869.1:CDS
AAACAGCTCCTCCGTTGCAC+CGG 0.457579 1:-63030950 MsaT003869.1:CDS
TTTGCCCAATGGACCACCTC+CGG 0.460821 1:-63035445 MsaT003869.1:CDS
GGCGGTATGGAAGGGATCGC+AGG 0.461844 1:+63033256 None:intergenic
GCGCTGCGGTTGCCATGACT+AGG 0.462989 1:-63035365 MsaT003869.1:CDS
TCTGAAGAGTAAGCTGAATC+AGG 0.465092 1:-63035391 MsaT003869.1:CDS
GAATCAACGGCCACCGGAGG+TGG 0.465283 1:+63035432 None:intergenic
GGCCACCGGAGGTGGTCCAT+TGG 0.477571 1:+63035440 None:intergenic
ATGAGAGTCAACAATGGGTT+GGG 0.479222 1:-63031041 MsaT003869.1:CDS
TTCTGCACAGGCGGTATGGA+AGG 0.484341 1:+63033247 None:intergenic
GGATTCATCGCCGGCGCCGC+CGG 0.486207 1:+63035602 None:intergenic
ATGCCTGACATGTCATCAAT+GGG 0.494648 1:-63031185 MsaT003869.1:CDS
CAGCTTCTTGCAGAAAGCGT+TGG 0.498650 1:+63035544 None:intergenic
GAGTCGCAGCGCTTCCGAAT+GGG 0.498693 1:-63035571 MsaT003869.1:CDS
AAAGCGTTGGAACGCCCATT+CGG 0.499920 1:+63035557 None:intergenic
ACGAAATCCCCGACAACCTA+TGG 0.501904 1:-63035644 MsaT003869.1:CDS
TCTTCGGAATCAACGGCCAC+CGG 0.506977 1:+63035426 None:intergenic
ATCCCCATTGATGACATGTC+AGG 0.511654 1:+63031182 None:intergenic
CTGCGGTGACCATAGGTTGT+CGG 0.521113 1:+63035635 None:intergenic
CATCTTCAGAAGCGGATTCG+TGG 0.522135 1:-63030912 MsaT003869.1:CDS
TGCATCTGCTGAATTGTCTG+AGG 0.523554 1:+63031139 None:intergenic
GCATCTGCTGAATTGTCTGA+GGG 0.526766 1:+63031140 None:intergenic
GAGGGGCTTCCATCAAATGC+TGG 0.527926 1:+63031158 None:intergenic
TTCCAACAAACAACATGGAT+AGG 0.529412 1:-63035680 None:intergenic
AACAGCTCCTCCGTTGCACC+GGG 0.530036 1:-63030949 MsaT003869.1:CDS
CATGCCTGACATGTCATCAA+TGG 0.535358 1:-63031186 MsaT003869.1:CDS
AGGTGGTCCATTGGGCAAAA+CGG 0.537410 1:+63035449 None:intergenic
ATGAAACAATGGGTTCAATC+CGG 0.537486 1:+63031211 None:intergenic
AAGCTAGCCACCCGGTGCAA+CGG 0.537945 1:+63030939 None:intergenic
CAGGCATGACATGAAACAAT+GGG 0.540921 1:+63031201 None:intergenic
TATGAGAGTCAACAATGGGT+TGG 0.540959 1:-63031042 MsaT003869.1:CDS
TACTGCTCTCCATTAGGAGA+AGG 0.543224 1:+63030867 None:intergenic
AAGAGGTGAAAATTCTACCT+TGG 0.544049 1:-63031965 MsaT003869.1:CDS
AGTTGTAGGTGGGAACAAGA+TGG 0.544585 1:-63030976 MsaT003869.1:CDS
CGCTGCGGTTGCCATGACTA+GGG 0.544605 1:-63035364 MsaT003869.1:intron
CTACTGACGTAAAACGAGTA+AGG 0.544656 1:-63033120 MsaT003869.1:CDS
GGATCTCAGCCCATTTCTGA+AGG 0.545730 1:-63033623 MsaT003869.1:intron
GGCATAGGATTAATAGATGT+GGG 0.545925 1:+63031074 None:intergenic
TCCTCTGTTGCTGACAACAC+CGG 0.546501 1:-63035501 MsaT003869.1:CDS
TGAGTCGCAGCGCTTCCGAA+TGG 0.548231 1:-63035572 MsaT003869.1:CDS
CATGAATCTGCGGTGACCAT+AGG 0.554146 1:+63035628 None:intergenic
AACAATGCAGCAGTTGTAGG+TGG 0.555285 1:-63030987 MsaT003869.1:CDS
TCTTTATCTTGTAATATAGG+TGG 0.555696 1:+63033292 None:intergenic
CAGAAGCGGATTCGTGGTGG+CGG 0.557372 1:-63030906 MsaT003869.1:CDS
GGAAGAAGAAGGAGAAGGTG+TGG 0.558163 1:+63035521 None:intergenic
TGGTCCATTCTCAGGAAAAG+TGG 0.558279 1:+63033670 None:intergenic
GCCGATGCTGCACCAAAAGA+CGG 0.560794 1:-63035474 MsaT003869.1:CDS
GTTGTAGGTGGGAACAAGAT+GGG 0.562961 1:-63030975 MsaT003869.1:CDS
TTTCCAATAGAGAGTCAGCC+AGG 0.566133 1:-63032162 MsaT003869.1:CDS
CCGATATTCTTCGGAATCAA+CGG 0.569768 1:+63035419 None:intergenic
CTAGCCACCCGGTGCAACGG+AGG 0.575800 1:+63030942 None:intergenic
AGGGATCGCAGGTGGTACCT+TGG 0.576379 1:+63033267 None:intergenic
TCAGCAACAGAGGAAGAAGA+AGG 0.578164 1:+63035510 None:intergenic
GCGCTCAAGAAGAAGAAAGC+AGG 0.578810 1:-63032140 MsaT003869.1:CDS
ACCGGTGTTGTCAGCAACAG+AGG 0.579200 1:+63035500 None:intergenic
TCTGCACAGGCGGTATGGAA+GGG 0.579471 1:+63033248 None:intergenic
TTTAACTGAGTTGGAAACAC+AGG 0.582001 1:-63032113 MsaT003869.1:intron
TGGCATAGGATTAATAGATG+TGG 0.582245 1:+63031073 None:intergenic
GCCCAATGGACCACCTCCGG+TGG 0.585880 1:-63035442 MsaT003869.1:CDS
TCCAACAAACAACATGGATA+GGG 0.587093 1:-63035679 None:intergenic
CATTCTCAGGAAAAGTGGCT+AGG 0.587934 1:+63033675 None:intergenic
GACATATATGATTGACAGCA+CGG 0.588439 1:-63033146 MsaT003869.1:CDS
TCAGGCATGACATGAAACAA+TGG 0.593558 1:+63031200 None:intergenic
ATTACAAGATAAAGATGCCA+AGG 0.595359 1:-63033284 MsaT003869.1:CDS
GTCTGATGATGACGAAGCTG+AGG 0.596500 1:-63033173 MsaT003869.1:CDS
AGCTCCTCCGTTGCACCGGG+TGG 0.597935 1:-63030946 MsaT003869.1:CDS
ATGATATGAGAGTCAACAAT+GGG 0.599172 1:-63031046 MsaT003869.1:CDS
TGTTGAAACGTTAAGAGCAA+AGG 0.608038 1:-63031872 MsaT003869.1:intron
GCCATTAGGCCATCAACAAG+TGG 0.609169 1:-63033211 MsaT003869.1:CDS
AGCGCTGCGACTCATCTTGG+AGG 0.610597 1:+63035581 None:intergenic
TCGGAATCAACGGCCACCGG+AGG 0.611990 1:+63035429 None:intergenic
GCTTGGAACATCTTCAGAAG+CGG 0.612188 1:-63030920 MsaT003869.1:CDS
CTCATATCATGACATGGCAT+AGG 0.623120 1:+63031059 None:intergenic
TCTGATGATGACGAAGCTGA+GGG 0.626334 1:-63033172 MsaT003869.1:CDS
CATCTTGGAGGATTCATCGC+CGG 0.632617 1:+63035593 None:intergenic
GATGTTCCAAGCTAGCCACC+CGG 0.633541 1:+63030931 None:intergenic
TCACCGCAGATTCATGTCAC+CGG 0.635057 1:-63035621 MsaT003869.1:CDS
ACAGAGGAAGAAGAAGGAGA+AGG 0.637590 1:+63035516 None:intergenic
GGTATGGAAGGGATCGCAGG+TGG 0.640990 1:+63033259 None:intergenic
CCAAAAGTACACTGATTCTG+CGG 0.642477 1:-63031920 MsaT003869.1:CDS
GCTGAATCAGGCATGCGCTG+CGG 0.643579 1:-63035379 MsaT003869.1:CDS
TGATGTGGATCGTCTTGCAC+AGG 0.644197 1:+63031110 None:intergenic
ACAATGCAGCAGTTGTAGGT+GGG 0.644613 1:-63030986 MsaT003869.1:CDS
ATAGGTGGATCGCTTCCAGA+AGG 0.645523 1:+63033307 None:intergenic
TGATGGCCTAATGGCAACAA+TGG 0.646272 1:+63033219 None:intergenic
GGTTGATAGAAATGATGATG+TGG 0.646871 1:+63031095 None:intergenic
GCGGTGACCATAGGTTGTCG+GGG 0.657758 1:+63035637 None:intergenic
ATCAGTAAGACGCTTTACCA+AGG 0.660921 1:+63031948 None:intergenic
TTGACTCTCATATCATGACA+TGG 0.663706 1:+63031053 None:intergenic
CTTCAGAAGCGGATTCGTGG+TGG 0.671591 1:-63030909 MsaT003869.1:CDS
CCGCCGGTGACATGAATCTG+CGG 0.671643 1:+63035618 None:intergenic
CCGCAGATTCATGTCACCGG+CGG 0.672407 1:-63035618 MsaT003869.1:CDS
TTAGTAGCATTAGAGGACTG+TGG 0.673158 1:+63033650 None:intergenic
CATCTGCTGAATTGTCTGAG+GGG 0.674812 1:+63031141 None:intergenic
CATGATATGAGAGTCAACAA+TGG 0.678198 1:-63031047 MsaT003869.1:CDS
GGTGGCGGTGTCGATTCTTG+TGG 0.683085 1:-63030891 MsaT003869.1:CDS
CATGGATAGGGTATTCTCAG+TGG 0.691390 1:-63035667 MsaT003869.1:CDS
CTGACGTAAAACGAGTAAGG+AGG 0.694894 1:-63033117 MsaT003869.1:intron
TGCCTGACATGTCATCAATG+GGG 0.791811 1:-63031184 MsaT003869.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 63030866 63035688 63030866 ID=MsaG003869
Chr1 mRNA 63030866 63035688 63030866 ID=MsaT003869.1;Parent=MsaG003869
Chr1 exon 63030866 63031267 63030866 ID=MsaT003869.1.exon6;Parent=MsaT003869.1
Chr1 CDS 63030866 63031267 63030866 ID=cds.MsaT003869.1;Parent=MsaT003869.1
Chr1 exon 63031873 63031998 63031873 ID=MsaT003869.1.exon5;Parent=MsaT003869.1
Chr1 CDS 63031873 63031998 63031873 ID=cds.MsaT003869.1;Parent=MsaT003869.1
Chr1 exon 63032114 63032189 63032114 ID=MsaT003869.1.exon4;Parent=MsaT003869.1
Chr1 CDS 63032114 63032189 63032114 ID=cds.MsaT003869.1;Parent=MsaT003869.1
Chr1 exon 63033118 63033337 63033118 ID=MsaT003869.1.exon3;Parent=MsaT003869.1
Chr1 CDS 63033118 63033337 63033118 ID=cds.MsaT003869.1;Parent=MsaT003869.1
Chr1 exon 63033624 63033720 63033624 ID=MsaT003869.1.exon2;Parent=MsaT003869.1
Chr1 CDS 63033624 63033720 63033624 ID=cds.MsaT003869.1;Parent=MsaT003869.1
Chr1 exon 63035365 63035688 63035365 ID=MsaT003869.1.exon1;Parent=MsaT003869.1
Chr1 CDS 63035365 63035688 63035365 ID=cds.MsaT003869.1;Parent=MsaT003869.1
Gene Sequence

>MsaT003869.1

ATGGATAGGGTATTCTCAGTGGACGAAATCCCCGACAACCTATGGTCACCGCAGATTCATGTCACCGGCGGCGCCGGCGATGAATCCTCCAAGATGAGTCGCAGCGCTTCCGAATGGGCGTTCCAACGCTTTCTGCAAGAAGCTGCCACACCTTCTCCTTCTTCTTCCTCTGTTGCTGACAACACCGGTTTTGCCGATGCTGCACCAAAAGACGGTGCCGTTTTGCCCAATGGACCACCTCCGGTGGCCGTTGATTCCGAAGAATATCGGGCTGTTCTGAAGAGTAAGCTGAATCAGGCATGCGCTGCGGTTGCCATGACTAGGGGATCTTTGACTAAATCTCAAGACCTAGCCACTTTTCCTGAGAATGGACCACAGTCCTCTAATGCTACTAAAGTTGGATCTCAGCCCATTTCTGAAGGATCTGTTCCTTCTGGAAGCGATCCACCTATATTACAAGATAAAGATGCCAAGGTACCACCTGCGATCCCTTCCATACCGCCTGTGCAGAAAAAAACCATTGTTGCCATTAGGCCATCAACAAGTGGATCATCAAGAGAACAGTCTGATGATGACGAAGCTGAGGGAGAGACATATATGATTGACAGCACGGACCCTACTGACGTAAAACGAGTAAGGAGGATGCTTTCCAATAGAGAGTCAGCCAGGCGCTCAAGAAGAAGAAAGCAGGCTCATTTAACTGAGTTGGAAACACAGGTTTCACAATTAAGAGGTGAAAATTCTACCTTGGTAAAGCGTCTTACTGATGTGAACCAAAAGTACACTGATTCTGCGGTTGACAACAGAGTACTGAAAGCTGATGTTGAAACGTTAAGAGCAAAGGTAAAGATGGCTGAAGAGACTGTGAAAAGAGTTACCGGATTGAACCCATTGTTTCATGTCATGCCTGACATGTCATCAATGGGGATGCCAGCATTTGATGGAAGCCCCTCAGACAATTCAGCAGATGCAGCTGTTCCTGTGCAAGACGATCCACATCATCATTTCTATCAACCCACATCTATTAATCCTATGCCATGTCATGATATGAGAGTCAACAATGGGTTGGGAGAAATTTCTTCAATTGAAAATGTGCAGCCAAACAATGCAGCAGTTGTAGGTGGGAACAAGATGGGTCAAACAGCTCCTCCGTTGCACCGGGTGGCTAGCTTGGAACATCTTCAGAAGCGGATTCGTGGTGGCGGTGTCGATTCTTGTGGACCTTCTCCTAATGGAGAGCAGTAA

Protein sequence

>MsaT003869.1

MDRVFSVDEIPDNLWSPQIHVTGGAGDESSKMSRSASEWAFQRFLQEAATPSPSSSSVADNTGFADAAPKDGAVLPNGPPPVAVDSEEYRAVLKSKLNQACAAVAMTRGSLTKSQDLATFPENGPQSSNATKVGSQPISEGSVPSGSDPPILQDKDAKVPPAIPSIPPVQKKTIVAIRPSTSGSSREQSDDDEAEGETYMIDSTDPTDVKRVRRMLSNRESARRSRRRKQAHLTELETQVSQLRGENSTLVKRLTDVNQKYTDSAVDNRVLKADVETLRAKVKMAEETVKRVTGLNPLFHVMPDMSSMGMPAFDGSPSDNSADAAVPVQDDPHHHFYQPTSINPMPCHDMRVNNGLGEISSIENVQPNNAAVVGGNKMGQTAPPLHRVASLEHLQKRIRGGGVDSCGPSPNGEQ*