AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027445

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027445 MtrunA17_Chr5g0422771 96.840 443 13 1 13 454 22 464 0.0 889
MsaG027445 MtrunA17_Chr7g0256211 55.329 441 177 12 15 454 31 452 2.31e-153 443
MsaG027445 MtrunA17_Chr8g0353501 60.920 348 124 3 114 454 124 466 7.06e-142 414
MsaG027445 MtrunA17_Chr1g0210151 63.037 349 96 7 128 454 3 340 6.55e-139 402
MsaG027445 MtrunA17_Chr1g0174701 50.602 332 153 3 131 454 178 506 1.92e-113 343
MsaG027445 MtrunA17_Chr3g0124601 49.856 347 159 3 116 454 22 361 1.70e-110 330
MsaG027445 MtrunA17_Chr7g0258321 51.613 310 140 3 152 454 157 463 2.43e-106 323
MsaG027445 MtrunA17_Chr2g0321431 53.472 288 124 2 167 454 192 469 1.06e-101 312
MsaG027445 MtrunA17_Chr4g0026401 49.235 327 144 4 133 454 152 461 1.42e-101 311
MsaG027445 MtrunA17_Chr8g0382861 44.509 346 166 6 116 454 30 356 1.13e-84 264
MsaG027445 MtrunA17_Chr5g0424861 46.181 288 143 3 169 451 67 347 9.84e-78 246
MsaG027445 MtrunA17_Chr3g0115371 44.521 292 149 2 167 452 63 347 1.52e-77 245
MsaG027445 MtrunA17_Chr3g0093451 67.816 174 44 4 160 321 36 209 6.57e-76 236
MsaG027445 MtrunA17_Chr5g0424851 39.732 224 127 2 229 451 6 222 1.51e-46 166
MsaG027445 MtrunA17_Chr5g0424851 38.835 206 119 1 237 442 228 426 3.65e-43 157
MsaG027445 MtrunA17_Chr8g0384821 26.446 242 150 4 228 441 6 247 7.21e-13 68.9
MsaG027445 MtrunA17_Chr1g0196951 27.830 212 123 6 241 447 54 240 6.77e-12 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027445 AT1G68640.1 52.584 445 178 8 25 454 26 452 2.49e-138 405
MsaG027445 AT3G12250.6 63.636 330 108 5 135 454 3 330 5.27e-137 397
MsaG027445 AT3G12250.2 63.636 330 108 5 135 454 3 330 5.27e-137 397
MsaG027445 AT3G12250.7 63.636 330 108 5 135 454 3 330 5.27e-137 397
MsaG027445 AT3G12250.1 63.636 330 108 5 135 454 3 330 5.27e-137 397
MsaG027445 AT3G12250.3 64.013 314 106 3 146 454 13 324 4.63e-135 392
MsaG027445 AT3G12250.5 67.014 288 94 1 167 454 17 303 3.40e-134 389
MsaG027445 AT5G06950.2 68.403 288 90 1 167 454 44 330 4.19e-134 389
MsaG027445 AT5G06950.4 68.403 288 90 1 167 454 44 330 4.19e-134 389
MsaG027445 AT5G06950.1 68.403 288 90 1 167 454 44 330 4.19e-134 389
MsaG027445 AT5G06950.5 68.403 288 90 1 167 454 44 330 4.19e-134 389
MsaG027445 AT5G06950.3 68.403 288 90 1 167 454 44 330 4.19e-134 389
MsaG027445 AT3G12250.4 65.161 310 101 3 150 454 48 355 2.56e-133 389
MsaG027445 AT5G06960.3 62.500 288 107 1 167 454 24 310 2.33e-122 359
MsaG027445 AT5G06960.2 63.542 288 104 1 167 454 44 330 2.56e-122 359
MsaG027445 AT5G06960.1 63.542 288 104 1 167 454 44 330 2.56e-122 359
MsaG027445 AT1G08320.2 55.903 288 117 2 167 454 52 329 1.18e-110 331
MsaG027445 AT1G08320.5 55.903 288 117 2 167 454 52 329 1.18e-110 331
MsaG027445 AT1G08320.1 55.903 288 117 2 167 454 176 453 4.90e-109 331
MsaG027445 AT1G08320.4 55.903 288 117 2 167 454 176 453 4.90e-109 331
MsaG027445 AT1G08320.3 55.903 288 117 2 167 454 176 453 4.90e-109 331
MsaG027445 AT5G06839.3 52.812 320 139 3 147 454 139 458 1.28e-108 329
MsaG027445 AT5G06839.1 52.830 318 138 3 149 454 98 415 4.24e-108 326
MsaG027445 AT5G06839.2 53.292 319 136 4 149 454 98 416 5.38e-108 326
MsaG027445 AT5G10030.5 51.385 325 144 5 136 454 46 362 9.66e-102 308
MsaG027445 AT5G10030.3 51.385 325 144 5 136 454 46 362 9.66e-102 308
MsaG027445 AT5G10030.1 51.385 325 144 5 136 454 46 362 9.66e-102 308
MsaG027445 AT5G10030.4 51.385 325 144 5 136 454 46 362 9.66e-102 308
MsaG027445 AT5G10030.2 51.385 325 144 5 136 454 46 362 9.66e-102 308
MsaG027445 AT1G77920.1 47.965 344 162 6 114 454 37 366 1.32e-98 300
MsaG027445 AT1G22070.1 52.159 301 134 4 158 454 88 382 6.45e-97 296
MsaG027445 AT5G65210.6 53.103 290 125 4 169 454 14 296 7.85e-96 291
MsaG027445 AT5G65210.5 53.103 290 125 4 169 454 84 366 2.06e-95 292
MsaG027445 AT5G65210.7 53.103 290 125 4 169 454 84 366 2.06e-95 292
MsaG027445 AT5G65210.3 53.103 290 125 4 169 454 84 366 2.06e-95 292
MsaG027445 AT5G65210.1 53.103 290 125 4 169 454 84 366 2.06e-95 292
MsaG027445 AT5G65210.2 53.103 290 125 4 169 454 84 366 2.06e-95 292
MsaG027445 AT5G65210.4 53.103 290 125 4 169 454 84 366 2.06e-95 292

Find 101 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAGTGACCGTTTCCTCTAT+TGG 0.301083 5:-45051619 None:intergenic
GATGTATTTCACATGCTCTA+TGG 0.304561 5:+45052459 MsaT027445.1:CDS
GTTGAGAATTGGGCTGATTC+TGG 0.310388 5:+45051216 MsaT027445.1:CDS
GGGAATAGCTTCCTTGCCTT+TGG 0.324769 5:+45051182 MsaT027445.1:CDS
CATTTACCTTCTTCCGTAAC+CGG 0.349444 5:-45051806 None:intergenic
CATGTAATCAGATACATTTC+CGG 0.361147 5:-45052990 None:intergenic
TCAGTATCCGGTACAGGTTC+CGG 0.367258 5:+45052971 MsaT027445.1:CDS
AAGTCGAACAATGTTGTTAT+TGG 0.370112 5:+45050362 MsaT027445.1:CDS
GAAATTGTCATGTTGAGAAT+TGG 0.381065 5:+45051205 MsaT027445.1:CDS
CAAGTCCGCCCCTACTCCCT+TGG 0.382396 5:-45053458 None:intergenic
GCAGCAACTGATGTACAATA+AGG 0.388869 5:+45051161 MsaT027445.1:CDS
TACGAGCACTTAGTTCGTTA+TGG 0.393700 5:+45053426 MsaT027445.1:CDS
GGTGGTAGTAACATGCAGTT+TGG 0.394921 5:+45050383 MsaT027445.1:CDS
GGTCATTCTTCTGTTGGAAA+TGG 0.397460 5:+45052149 MsaT027445.1:CDS
TTCAAATGGTGCAGGGTGTT+CGG 0.402263 5:+45051113 MsaT027445.1:CDS
GGAATAGCTTCCTTGCCTTT+GGG 0.406539 5:+45051183 MsaT027445.1:CDS
TGTTCATTGCAAATGCCATC+TGG 0.411477 5:-45053015 None:intergenic
GGTGCAGGGTGTTCGGATGC+AGG 0.422787 5:+45051120 MsaT027445.1:CDS
GTGATCTTCAGCTCTGAACT+TGG 0.429104 5:-45051652 None:intergenic
ATCGGCGTTAAATTCTCAAA+TGG 0.431815 5:+45052350 MsaT027445.1:CDS
GTTGGCACGCCCAAGGGAGT+AGG 0.432197 5:+45053448 MsaT027445.1:CDS
AATGAACAAGCTTGCACTCC+TGG 0.437038 5:+45053030 MsaT027445.1:CDS
TCTGCTTGTCGATGGTGTTA+TGG 0.438171 5:+45052389 MsaT027445.1:CDS
CGGAAATGTATCTGATTACA+TGG 0.440246 5:+45052991 MsaT027445.1:CDS
ACTTTATGTTAGTCCAATAG+AGG 0.440624 5:+45051606 MsaT027445.1:intron
TTCACATGCTCTATGGGTTG+TGG 0.444720 5:+45052466 MsaT027445.1:CDS
GGCATGTTTATTGCAAATCC+TGG 0.449620 5:+45052119 MsaT027445.1:CDS
ATTGCAAATCCTGGAGATCA+AGG 0.455546 5:+45052128 MsaT027445.1:CDS
TTGGCACGCCCAAGGGAGTA+GGG 0.457145 5:+45053449 MsaT027445.1:CDS
TCCTCCACACCCTCAGTATC+CGG 0.457605 5:+45052959 MsaT027445.1:CDS
GTTAACTGAAAATCAGTTGA+TGG 0.459301 5:+45052844 MsaT027445.1:CDS
AAATTGTCATGTTGAGAATT+GGG 0.469910 5:+45051206 MsaT027445.1:CDS
TATTTAGATTAAAGAGCATA+GGG 0.475914 5:+45052427 MsaT027445.1:CDS
GTGGTAGTAACATGCAGTTT+GGG 0.476820 5:+45050384 MsaT027445.1:CDS
TGACATGGAATACGCCCATT+GGG 0.481705 5:+45052293 MsaT027445.1:CDS
GCTTCAACGAGTACGTCAAC+AGG 0.481742 5:+45052009 MsaT027445.1:CDS
GATCAAGGTCATTCTTCTGT+TGG 0.485204 5:+45052143 MsaT027445.1:CDS
ATGTATTTCACATGCTCTAT+GGG 0.490472 5:+45052460 MsaT027445.1:CDS
TCGAACAATGTTGTTATTGG+TGG 0.490749 5:+45050365 MsaT027445.1:CDS
GAAGAATGACCTTGATCTCC+AGG 0.492393 5:-45052137 None:intergenic
TGTTAGTCCAATAGAGGAAA+CGG 0.492474 5:+45051612 MsaT027445.1:intron
GAGATAACTTCAAATGGTGC+AGG 0.493511 5:+45051105 MsaT027445.1:CDS
TTGACATGGAATACGCCCAT+TGG 0.507084 5:+45052292 MsaT027445.1:CDS
CAGCAACTGATGTACAATAA+GGG 0.510126 5:+45051162 MsaT027445.1:CDS
ATAGGCATATGTACAACAGC+TGG 0.511396 5:+45051949 MsaT027445.1:intron
GAAAAGCCGGTTACGGAAGA+AGG 0.511768 5:+45051800 MsaT027445.1:CDS
GCATCTTGTTGTGGAAAGAA+AGG 0.513779 5:-45050133 None:intergenic
CTCAGAATCGCGAGGCGGCA+AGG 0.517608 5:+45051778 MsaT027445.1:CDS
CGTTATGGTTGGCACGCCCA+AGG 0.525689 5:+45053441 MsaT027445.1:CDS
TACATTTCCGGAACCTGTAC+CGG 0.526133 5:-45052978 None:intergenic
AGCACTTAGTTCGTTATGGT+TGG 0.528902 5:+45053430 MsaT027445.1:CDS
TCGGCGTTAAATTCTCAAAT+GGG 0.530762 5:+45052351 MsaT027445.1:CDS
TCTTCAGCAGTCTACTCAGC+AGG 0.536008 5:+45052877 MsaT027445.1:CDS
TCTGCAGAGATAACTTCAAA+TGG 0.538539 5:+45051099 MsaT027445.1:CDS
GTGCAGGGTGTTCGGATGCA+GGG 0.541110 5:+45051121 MsaT027445.1:CDS
CGGCAAGGAAAAGCCGGTTA+CGG 0.541404 5:+45051793 MsaT027445.1:CDS
ACTCACTTGGTGTTTATCAT+CGG 0.542557 5:-45051298 None:intergenic
TTGATGCTCGTCAACCCAAT+GGG 0.548501 5:-45052307 None:intergenic
GCAGAGTTTCTTGCTTCAAG+AGG 0.550378 5:-45053328 None:intergenic
TGACGACACGTCAGACTGCA+AGG 0.551582 5:+45053369 MsaT027445.1:CDS
CCTTGTGAAGGAAATCCTCC+AGG 0.552077 5:-45053048 None:intergenic
TTAACTGAAAATCAGTTGAT+GGG 0.554063 5:+45052845 MsaT027445.1:CDS
GTTATGGTTGGCACGCCCAA+GGG 0.555357 5:+45053442 MsaT027445.1:CDS
ATCTGATTACATGGGCCAGA+TGG 0.556171 5:+45053000 MsaT027445.1:CDS
TGGAAGTATCATCAGTCTGT+TGG 0.557670 5:-45051257 None:intergenic
CCTTGAGAATTTCAGATGAA+CGG 0.560398 5:-45052530 None:intergenic
GCAGTCTACTCAGCAGGCTG+AGG 0.561351 5:+45052883 MsaT027445.1:CDS
GTTGATGCTCGTCAACCCAA+TGG 0.564292 5:-45052308 None:intergenic
TTATTTAGATTAAAGAGCAT+AGG 0.568168 5:+45052426 MsaT027445.1:CDS
ACACCCTCAGTATCCGGTAC+AGG 0.569132 5:+45052965 MsaT027445.1:CDS
GATTCTGAGCAAGTCTGCGA+AGG 0.570330 5:-45051764 None:intergenic
GCGAGGCGGCAAGGAAAAGC+CGG 0.570609 5:+45051787 MsaT027445.1:CDS
CCGTTCATCTGAAATTCTCA+AGG 0.573160 5:+45052530 MsaT027445.1:CDS
TGGCACGCCCAAGGGAGTAG+GGG 0.576284 5:+45053450 MsaT027445.1:CDS
AAATCAACAGCATCTTGTTG+TGG 0.584033 5:-45050142 None:intergenic
CCTGGAGGATTTCCTTCACA+AGG 0.589186 5:+45053048 MsaT027445.1:CDS
GCTGAGGATGCTTTATCTCA+CGG 0.592632 5:+45052899 MsaT027445.1:CDS
TGTACCGGATACTGAGGGTG+TGG 0.601254 5:-45052963 None:intergenic
GAATTGGGCTGATTCTGGTG+TGG 0.601339 5:+45051221 MsaT027445.1:CDS
AAATGTAATCATTTCTGACA+AGG 0.602307 5:-45053397 None:intergenic
GTTTGGGACAACAATTAACA+TGG 0.615087 5:+45050400 MsaT027445.1:CDS
ATGACAATTTCCCAAAGGCA+AGG 0.624956 5:-45051193 None:intergenic
GGTATCGATATCAATATCAG+TGG 0.627662 5:-45051277 None:intergenic
ATTCTGAGCAAGTCTGCGAA+GGG 0.627771 5:-45051763 None:intergenic
AGGTGCTCTAGCATTTGACA+TGG 0.632527 5:+45052278 MsaT027445.1:intron
TCAACATGACAATTTCCCAA+AGG 0.632745 5:-45051198 None:intergenic
TATGCTCAATGATCTAAGAT+CGG 0.636922 5:+45052332 MsaT027445.1:CDS
ACCGGATACTGAGGGTGTGG+AGG 0.638958 5:-45052960 None:intergenic
GGAACCTGTACCGGATACTG+AGG 0.640922 5:-45052969 None:intergenic
GACGACACGTCAGACTGCAA+GGG 0.641820 5:+45053370 MsaT027445.1:CDS
GTTCAGAGCTGAAGATCACA+AGG 0.647306 5:+45051656 MsaT027445.1:CDS
GGATGCTTTATCTCACGGCA+TGG 0.651448 5:+45052904 MsaT027445.1:CDS
GAACAAGCTTGCACTCCTGG+AGG 0.653361 5:+45053033 MsaT027445.1:CDS
GAATTGCATCTGCTTGTCGA+TGG 0.653447 5:+45052381 MsaT027445.1:CDS
AGATAACTTCAAATGGTGCA+GGG 0.655273 5:+45051106 MsaT027445.1:CDS
TTTCAGTTAACGGCTCGAGG+TGG 0.666369 5:-45052832 None:intergenic
CAGACTTGCTCAGAATCGCG+AGG 0.675205 5:+45051770 MsaT027445.1:CDS
GGAAATGTATCTGATTACAT+GGG 0.675444 5:+45052992 MsaT027445.1:CDS
ATTTAGATTAAAGAGCATAG+GGG 0.679279 5:+45052428 MsaT027445.1:CDS
GAACCTGTACCGGATACTGA+GGG 0.682981 5:-45052968 None:intergenic
ACTTGCTCAGAATCGCGAGG+CGG 0.696700 5:+45051773 MsaT027445.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 45050031 45053469 45050031 ID=MsaG027445
Chr5 mRNA 45050031 45053469 45050031 ID=MsaT027445.1;Parent=MsaG027445
Chr5 exon 45050031 45050172 45050031 ID=MsaT027445.1.exon1;Parent=MsaT027445.1
Chr5 CDS 45050031 45050172 45050031 ID=cds.MsaT027445.1;Parent=MsaT027445.1
Chr5 exon 45050342 45050421 45050342 ID=MsaT027445.1.exon2;Parent=MsaT027445.1
Chr5 CDS 45050342 45050421 45050342 ID=cds.MsaT027445.1;Parent=MsaT027445.1
Chr5 exon 45051090 45051314 45051090 ID=MsaT027445.1.exon3;Parent=MsaT027445.1
Chr5 CDS 45051090 45051314 45051090 ID=cds.MsaT027445.1;Parent=MsaT027445.1
Chr5 exon 45051618 45051677 45051618 ID=MsaT027445.1.exon4;Parent=MsaT027445.1
Chr5 CDS 45051618 45051677 45051618 ID=cds.MsaT027445.1;Parent=MsaT027445.1
Chr5 exon 45051762 45051821 45051762 ID=MsaT027445.1.exon5;Parent=MsaT027445.1
Chr5 CDS 45051762 45051821 45051762 ID=cds.MsaT027445.1;Parent=MsaT027445.1
Chr5 exon 45051953 45052030 45051953 ID=MsaT027445.1.exon6;Parent=MsaT027445.1
Chr5 CDS 45051953 45052030 45051953 ID=cds.MsaT027445.1;Parent=MsaT027445.1
Chr5 exon 45052119 45052170 45052119 ID=MsaT027445.1.exon7;Parent=MsaT027445.1
Chr5 CDS 45052119 45052170 45052119 ID=cds.MsaT027445.1;Parent=MsaT027445.1
Chr5 exon 45052280 45052551 45052280 ID=MsaT027445.1.exon8;Parent=MsaT027445.1
Chr5 CDS 45052280 45052551 45052280 ID=cds.MsaT027445.1;Parent=MsaT027445.1
Chr5 exon 45052821 45053069 45052821 ID=MsaT027445.1.exon9;Parent=MsaT027445.1
Chr5 CDS 45052821 45053069 45052821 ID=cds.MsaT027445.1;Parent=MsaT027445.1
Chr5 exon 45053323 45053469 45053323 ID=MsaT027445.1.exon10;Parent=MsaT027445.1
Chr5 CDS 45053323 45053469 45053323 ID=cds.MsaT027445.1;Parent=MsaT027445.1
Gene Sequence

>MsaT027445.1

ATGGTTCATGCTGTTTTGGTTTTTGATGAAACAAACAGAGGAGAAGACATAAACAGAAACACAATGCGTTTTTCTGATATTGGAGACTTTCATCATTCTTCTCCTTTCTTTCCACAACAAGATGCTGTTGATTTAACTTCAAGTTGTATGTTTAGTAGTGTAAAGTCGAACAATGTTGTTATTGGTGGTAGTAACATGCAGTTTGGGACAACAATTAACATGAATGTTGGGTCTGCAGAGATAACTTCAAATGGTGCAGGGTGTTCGGATGCAGGGCTGCAGCAGCAGCAGCAGCAGCAACTGATGTACAATAAGGGAATAGCTTCCTTGCCTTTGGGAAATTGTCATGTTGAGAATTGGGCTGATTCTGGTGTGGCTGATAATAATAGCCAACAGACTGATGATACTTCCACTGATATTGATATCGATACCGATGATAAACACCAATCCAATAGAGGAAACGGTCACTCTAATAATCAGACCAAGTTCAGAGCTGAAGATCACAAGACCCTTCGCAGACTTGCTCAGAATCGCGAGGCGGCAAGGAAAAGCCGGTTACGGAAGAAGGCATATGTACAACAGCTGGAGAGCAGTCGAGTCAAGCTTATGCAATTAGAGCAAGAGCTTCAACGAGTACGTCAACAGGGCATGTTTATTGCAAATCCTGGAGATCAAGGTCATTCTTCTGTTGGAAATGGTGCTCTAGCATTTGACATGGAATACGCCCATTGGGTTGACGAGCATCAACGTATGCTCAATGATCTAAGATCGGCGTTAAATTCTCAAATGGGCGATAATGAATTGCATCTGCTTGTCGATGGTGTTATGGCACATCATAATGAGTTATTTAGATTAAAGAGCATAGGGGCAAAGACTGATGTATTTCACATGCTCTATGGGTTGTGGAAGACACCAGTAGAAAGATTTTTTATTTGGCATGGTGCATTCCGTTCATCTGAAATTCTCAAGATAGTAAAGAACCACCTCGAGCCGTTAACTGAAAATCAGTTGATGGGAATTTGTAGTCTTCAGCAGTCTACTCAGCAGGCTGAGGATGCTTTATCTCACGGCATGGAAGTATTGAAACAATCTCTTTTAGAGATACTTTCCTCCACACCCTCAGTATCCGGTACAGGTTCCGGAAATGTATCTGATTACATGGGCCAGATGGCATTTGCAATGAACAAGCTTGCACTCCTGGAGGATTTCCTTCACAAGGCTGACCTCTTGAAGCAAGAAACTCTGCAACAGTTGCAAAGAATTTTGACGACACGTCAGACTGCAAGGGCTCTCCTTGTCAGAAATGATTACATTTCAAGACTACGAGCACTTAGTTCGTTATGGTTGGCACGCCCAAGGGAGTAG
Protein sequence

>MsaT027445.1

MVHAVLVFDETNRGEDINRNTMRFSDIGDFHHSSPFFPQQDAVDLTSSCMFSSVKSNNVVIGGSNMQFGTTINMNVGSAEITSNGAGCSDAGLQQQQQQQLMYNKGIASLPLGNCHVENWADSGVADNNSQQTDDTSTDIDIDTDDKHQSNRGNGHSNNQTKFRAEDHKTLRRLAQNREAARKSRLRKKAYVQQLESSRVKLMQLEQELQRVRQQGMFIANPGDQGHSSVGNGALAFDMEYAHWVDEHQRMLNDLRSALNSQMGDNELHLLVDGVMAHHNELFRLKSIGAKTDVFHMLYGLWKTPVERFFIWHGAFRSSEILKIVKNHLEPLTENQLMGICSLQQSTQQAEDALSHGMEVLKQSLLEILSSTPSVSGTGSGNVSDYMGQMAFAMNKLALLEDFLHKADLLKQETLQQLQRILTTRQTARALLVRNDYISRLRALSSLWLARPRE*