AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0257680

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0257680 MtrunA17_Chr2g0319791 83.607 122 20 0 2 123 337 458 1.32e-72 223
Msa0257680 MtrunA17_Chr2g0319751 86.066 122 17 0 2 123 814 935 6.65e-71 228
Msa0257680 MtrunA17_Chr2g0319751 81.148 122 23 0 2 123 313 434 5.24e-67 217
Msa0257680 MtrunA17_Chr2g0319761 82.787 122 21 0 2 123 337 458 1.69e-70 218
Msa0257680 MtrunA17_Chr2g0319801 70.492 122 36 0 2 123 337 458 2.55e-62 196
Msa0257680 MtrunA17_Chr2g0319731 69.672 122 37 0 2 123 354 475 2.60e-61 194
Msa0257680 MtrunA17_Chr2g0319711 88.298 94 11 0 30 123 2 95 3.01e-57 172
Msa0257680 MtrunA17_Chr4g0040691 64.754 122 41 2 2 123 339 458 6.58e-52 169
Msa0257680 MtrunA17_Chr4g0040711 63.115 122 43 2 2 123 339 458 6.72e-51 167
Msa0257680 MtrunA17_Chr2g0283041 60.656 122 47 1 2 123 336 456 9.42e-45 150
Msa0257680 MtrunA17_Chr2g0321331 60.331 121 30 1 2 122 164 266 2.78e-43 142
Msa0257680 MtrunA17_Chr2g0319771 76.667 90 21 0 22 111 11 100 5.27e-43 137
Msa0257680 MtrunA17_Chr4g0029131 40.164 122 71 2 2 122 338 458 3.99e-27 104
Msa0257680 MtrunA17_Chr1g0196851 40.164 122 71 2 2 122 378 498 3.41e-26 101
Msa0257680 MtrunA17_Chr4g0029151 39.024 123 73 2 2 123 346 467 3.70e-26 101
Msa0257680 MtrunA17_Chr4g0029161 37.255 102 62 2 22 122 330 430 4.68e-17 75.5
Msa0257680 MtrunA17_Chr1g0196881 36.735 98 60 2 26 122 1 97 8.43e-17 70.1
Msa0257680 MtrunA17_Chr2g0278721 36.207 116 70 3 4 119 862 973 2.19e-15 71.2
Msa0257680 MtrunA17_Chr2g0278721 29.915 117 78 3 4 120 351 463 1.54e-11 60.1
Msa0257680 MtrunA17_Chr4g0069611 32.759 116 74 3 4 119 346 457 1.18e-13 65.9
Msa0257680 MtrunA17_Chr7g0241801 34.821 112 67 4 4 115 316 421 5.80e-13 63.9
Msa0257680 MtrunA17_Chr8g0377921 35.354 99 61 3 4 101 345 441 2.62e-12 62.0
Msa0257680 MtrunA17_Chr7g0241781 35.398 113 65 5 4 115 316 421 3.14e-12 62.0
Msa0257680 MtrunA17_Chr8g0377941 33.613 119 76 3 4 121 343 459 5.09e-12 61.2
Msa0257680 MtrunA17_Chr7g0218791 43.210 81 44 2 4 84 335 413 1.51e-11 60.1
Msa0257680 MtrunA17_Chr3g0079711 36.082 97 59 2 4 100 72 165 2.61e-11 58.2
Msa0257680 MtrunA17_Chr8g0380531 33.333 111 70 3 4 114 342 448 3.45e-11 58.9
Msa0257680 MtrunA17_Chr4g0039881 29.310 116 78 3 4 119 323 434 5.51e-11 58.5
Msa0257680 MtrunA17_Chr5g0403641 35.417 96 60 2 4 98 385 479 6.29e-11 58.2
Msa0257680 MtrunA17_Chr3g0122001 29.661 118 81 2 4 121 356 471 6.72e-11 58.2
Msa0257680 MtrunA17_Chr7g0218821 34.000 100 62 3 4 102 338 434 8.64e-11 57.8
Msa0257680 MtrunA17_Chr6g0466831 32.759 116 74 3 4 119 349 460 9.49e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0257680 AT5G54010.1 46.281 121 63 2 3 123 329 447 5.93e-31 114
Msa0257680 AT5G53990.1 46.281 121 63 2 3 123 323 441 1.24e-30 113
Msa0257680 AT4G27570.1 43.802 121 66 2 3 123 329 447 5.14e-29 109
Msa0257680 AT1G64910.1 42.149 121 68 2 3 123 323 441 2.67e-28 107
Msa0257680 AT2G22930.1 42.975 121 67 2 3 123 323 441 3.41e-28 107
Msa0257680 AT4G09500.1 41.322 121 69 2 3 123 298 416 4.56e-28 106
Msa0257680 AT4G27560.1 42.149 121 68 2 3 123 329 447 5.46e-28 106
Msa0257680 AT4G09500.2 41.322 121 69 2 3 123 323 441 5.73e-28 106
Msa0257680 AT1G64920.1 40.496 121 70 2 3 123 327 445 1.86e-27 105
Msa0257680 AT3G29630.2 41.026 117 68 1 3 119 299 414 2.16e-26 102
Msa0257680 AT3G29630.1 41.026 117 68 1 3 119 325 440 2.63e-26 102
Msa0257680 AT1G50580.1 41.026 117 67 2 3 119 324 438 1.28e-24 97.1
Msa0257680 AT5G54060.1 40.496 121 70 2 3 123 348 466 1.96e-21 88.6
Msa0257680 AT2G31750.2 38.776 98 58 2 4 101 337 432 7.79e-15 69.7
Msa0257680 AT2G31750.1 38.776 98 58 2 4 101 337 432 1.08e-14 69.3
Msa0257680 AT1G05675.1 40.625 96 53 3 4 99 337 428 2.10e-14 68.6
Msa0257680 AT1G05680.1 39.583 96 54 3 4 99 337 428 1.00e-13 66.6
Msa0257680 AT2G22930.2 37.209 86 53 1 38 123 205 289 1.07e-13 65.9
Msa0257680 AT4G36770.1 39.796 98 54 3 2 99 347 439 1.62e-13 65.9
Msa0257680 AT2G43840.1 33.636 110 70 2 4 113 330 436 2.96e-12 62.4
Msa0257680 AT2G43840.2 33.636 110 70 2 4 113 330 436 2.96e-12 62.4
Msa0257680 AT4G15550.1 34.653 101 59 4 4 101 355 451 4.29e-12 62.0
Msa0257680 AT5G65550.1 34.737 95 59 3 4 97 347 439 1.09e-11 60.8
Msa0257680 AT2G30140.2 31.405 121 77 3 4 119 331 450 2.99e-11 59.7
Msa0257680 AT2G30140.1 31.405 121 77 3 4 119 332 451 2.99e-11 59.7
Msa0257680 AT5G49690.1 33.333 99 62 3 4 102 340 434 4.81e-11 58.9

Find 16 sgRNAs with CRISPR-Local

Find 16 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATTCTTGCATTCATGATA+TGG 0.236872 2_2:+53646088 None:intergenic
CTTGCATTCATGATATGGTT+AGG 0.375949 2_2:+53646093 None:intergenic
ATGGATGATGAGAATGAAGT+TGG 0.453273 2_2:-53645970 Msa0257680:CDS
ATTCTTGAACACCCTTCTGT+TGG 0.454707 2_2:-53646201 Msa0257680:CDS
GTTGAGAAAGGTGATGAAGA+TGG 0.473698 2_2:-53646036 Msa0257680:CDS
GTTGGTGTAGAAGTTGAGAA+AGG 0.554703 2_2:-53646048 Msa0257680:CDS
TGGAGCTGCTTCTATAACTG+AGG 0.565923 2_2:-53646160 Msa0257680:CDS
AATGATGAGTGAAAAGATGA+AGG 0.586314 2_2:-53646070 Msa0257680:CDS
GTTATGAAACATCCAACAGA+AGG 0.588945 2_2:+53646189 None:intergenic
ATGAGTGAAAAGATGAAGGT+TGG 0.593081 2_2:-53646066 Msa0257680:CDS
GGATGTTTCATAACACATTG+TGG 0.601065 2_2:-53646180 Msa0257680:CDS
ACTTGTTAACACGTGTCTGT+TGG 0.626198 2_2:-53646136 Msa0257680:CDS
GGAGCTGCTTCTATAACTGA+GGG 0.647559 2_2:-53646159 Msa0257680:CDS
CAAAGCTGTGAAGATTGTGA+TGG 0.655994 2_2:-53645989 Msa0257680:CDS
TTATGAAACATCCAACAGAA+GGG 0.698749 2_2:+53646190 None:intergenic
ATATGGTTAGGATCTACATG+TGG 0.728039 2_2:+53646105 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTATGAAACATCCAACAGAA+GGG + chr2_2:53645901-53645920 None:intergenic 30.0%
TCATTCTTGCATTCATGATA+TGG + chr2_2:53646003-53646022 None:intergenic 30.0%
AATGATGAGTGAAAAGATGA+AGG - chr2_2:53646018-53646037 Msa0257680:CDS 30.0%
GTTATGAAACATCCAACAGA+AGG + chr2_2:53645902-53645921 None:intergenic 35.0%
GGATGTTTCATAACACATTG+TGG - chr2_2:53645908-53645927 Msa0257680:CDS 35.0%
ATATGGTTAGGATCTACATG+TGG + chr2_2:53645986-53646005 None:intergenic 35.0%
CTTGCATTCATGATATGGTT+AGG + chr2_2:53645998-53646017 None:intergenic 35.0%
ATGAGTGAAAAGATGAAGGT+TGG - chr2_2:53646022-53646041 Msa0257680:CDS 35.0%
ATGGATGATGAGAATGAAGT+TGG - chr2_2:53646118-53646137 Msa0257680:CDS 35.0%
ATTCTTGAACACCCTTCTGT+TGG - chr2_2:53645887-53645906 Msa0257680:CDS 40.0%
! ACTTGTTAACACGTGTCTGT+TGG - chr2_2:53645952-53645971 Msa0257680:CDS 40.0%
GTTGGTGTAGAAGTTGAGAA+AGG - chr2_2:53646040-53646059 Msa0257680:CDS 40.0%
GTTGAGAAAGGTGATGAAGA+TGG - chr2_2:53646052-53646071 Msa0257680:CDS 40.0%
CAAAGCTGTGAAGATTGTGA+TGG - chr2_2:53646099-53646118 Msa0257680:CDS 40.0%
TGGAGCTGCTTCTATAACTG+AGG - chr2_2:53645928-53645947 Msa0257680:CDS 45.0%
GGAGCTGCTTCTATAACTGA+GGG - chr2_2:53645929-53645948 Msa0257680:CDS 45.0%
Chromosome Type Strat End Strand Name
chr2_2 gene 53645861 53646249 53645861 ID=Msa0257680;Name=Msa0257680
chr2_2 mRNA 53645861 53646249 53645861 ID=Msa0257680-mRNA-1;Parent=Msa0257680;Name=Msa0257680-mRNA-1;_AED=0.47;_eAED=0.48;_QI=0|0|0|1|0|0|2|0|123
chr2_2 exon 53646244 53646249 53646244 ID=Msa0257680-mRNA-1:exon:16138;Parent=Msa0257680-mRNA-1
chr2_2 exon 53645861 53646226 53645861 ID=Msa0257680-mRNA-1:exon:16137;Parent=Msa0257680-mRNA-1
chr2_2 CDS 53646244 53646249 53646244 ID=Msa0257680-mRNA-1:cds;Parent=Msa0257680-mRNA-1
chr2_2 CDS 53645861 53646226 53645861 ID=Msa0257680-mRNA-1:cds;Parent=Msa0257680-mRNA-1
Gene Sequence

>Msa0257680

ATGGAATTGATTCTTGAACACCCTTCTGTTGGATGTTTCATAACACATTGTGGAGCTGCTTCTATAACTGAGGGACTTGTTAACACGTGTCTGTTGGTGTTGTTGCCACATGTAGATCCTAACCATATCATGAATGCAAGAATGATGAGTGAAAAGATGAAGGTTGGTGTAGAAGTTGAGAAAGGTGATGAAGATGGATTGTTTACAAAAGAAAATGAGTGCAAAGCTGTGAAGATTGTGATGGATGATGAGAATGAAGTTGGAAGAGAAGTGAGAGCTAATCATGCTAAACTGAGAAACTTTTTATTGAGAAGCAATTTAGAATCTTCATGTGTTGATAATTTCTGTCAAAAACTCTATGATTTGCTCTAG
Protein sequence

>Msa0257680

MELILEHPSVGCFITHCGAASITEGLVNTCLLVLLPHVDPNHIMNARMMSEKMKVGVEVEKGDEDGLFTKENECKAVKIVMDDENEVGREVRANHAKLRNFLLRSNLESSCVDNFCQKLYDLL*