AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG007089

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007089 MtrunA17_Chr2g0289121 82.136 515 41 5 1 475 324 827 0.0 824
MsaG007089 MtrunA17_Chr2g0289031 76.826 397 61 2 105 471 2 397 0.0 587
MsaG007089 MtrunA17_Chr4g0075261 55.941 547 156 7 1 473 335 870 0.0 578
MsaG007089 MtrunA17_Chr1g0183311 46.329 572 194 13 1 467 316 879 1.04e-147 444
MsaG007089 MtrunA17_Chr1g0211711 47.145 543 202 10 1 467 515 1048 5.26e-147 446
MsaG007089 MtrunA17_Chr5g0426961 47.801 523 210 10 3 467 315 832 2.53e-145 436
MsaG007089 MtrunA17_Chr5g0420361 45.102 541 198 16 1 451 248 779 8.48e-132 400
MsaG007089 MtrunA17_Chr6g0472441 40.602 532 214 14 1 451 191 701 2.11e-112 348
MsaG007089 MtrunA17_Chr1g0211661 41.875 480 198 11 1 410 397 865 3.06e-107 338
MsaG007089 MtrunA17_Chr8g0361381 71.495 214 25 3 82 265 1 208 3.14e-93 281
MsaG007089 MtrunA17_Chr1g0211691 40.826 436 173 11 1 358 517 945 1.76e-85 282
MsaG007089 MtrunA17_Chr5g0448301 38.902 437 197 10 8 380 201 631 2.57e-84 272
MsaG007089 MtrunA17_Chr1g0192011 34.034 523 251 12 35 470 448 963 2.52e-82 274
MsaG007089 MtrunA17_Chr2g0289091 85.034 147 11 2 296 432 275 420 1.90e-79 253
MsaG007089 MtrunA17_Chr2g0289091 91.262 103 9 0 186 288 52 154 1.13e-60 204
MsaG007089 MtrunA17_Chr8g0361391 65.957 188 12 4 299 476 18 163 8.49e-73 227
MsaG007089 MtrunA17_Chr2g0281051 30.074 542 262 10 36 466 418 953 9.68e-67 231
MsaG007089 MtrunA17_Chr7g0275771 37.540 309 145 3 35 295 358 666 5.67e-64 223
MsaG007089 MtrunA17_Chr7g0275771 51.131 221 95 4 249 469 719 926 2.74e-60 212
MsaG007089 MtrunA17_Chr1g0147021 61.783 157 60 0 318 474 1546 1702 3.09e-57 205
MsaG007089 MtrunA17_Chr1g0147021 39.298 285 123 6 38 275 1059 1340 5.74e-53 192
MsaG007089 MtrunA17_Chr2g0289101 91.753 97 7 1 1 96 47 143 3.66e-57 186
MsaG007089 MtrunA17_Chr1g0211701 71.429 112 32 0 356 467 4 115 2.87e-49 166
MsaG007089 MtrunA17_Chr4g0048531 43.523 193 92 3 293 469 1087 1278 5.00e-43 163
MsaG007089 MtrunA17_Chr4g0048531 30.719 306 158 6 37 293 718 1018 3.09e-33 134
MsaG007089 MtrunA17_Chr7g0231061 53.097 113 53 0 186 298 54 166 3.83e-36 132
MsaG007089 MtrunA17_Chr2g0289041 96.429 56 2 0 1 56 149 204 5.07e-32 121
MsaG007089 MtrunA17_Chr8g0340381 61.538 78 27 1 187 264 44 118 1.52e-24 100
MsaG007089 MtrunA17_Chr1g0211671 61.404 57 22 0 411 467 17 73 6.09e-16 74.3
MsaG007089 MtrunA17_Chr8g0364421 30.534 131 89 2 36 165 95 224 8.07e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007089 AT1G11950.1 53.010 515 190 8 2 470 363 871 4.46e-180 527
MsaG007089 AT1G11950.3 53.010 515 190 8 2 470 363 871 4.46e-180 527
MsaG007089 AT1G62310.1 51.793 502 190 5 1 451 378 878 3.79e-167 494
MsaG007089 AT1G11950.2 49.438 445 173 8 2 400 363 801 1.42e-135 410
MsaG007089 AT3G07610.1 44.689 499 199 10 31 468 410 892 2.47e-123 384
MsaG007089 AT3G07610.3 42.085 518 207 11 31 468 410 914 5.14e-114 360
MsaG007089 AT1G09060.2 31.311 511 266 10 35 470 393 893 2.79e-65 227
MsaG007089 AT1G09060.1 31.311 511 266 10 35 470 393 893 2.79e-65 227
MsaG007089 AT1G09060.4 31.311 511 266 10 35 470 407 907 3.24e-65 226
MsaG007089 AT1G09060.3 31.311 511 266 10 35 470 407 907 3.24e-65 226
MsaG007089 AT4G00990.3 39.799 299 128 5 35 285 279 573 1.21e-61 215
MsaG007089 AT4G00990.3 59.375 96 39 0 321 416 683 778 2.82e-31 128
MsaG007089 AT4G00990.2 39.799 299 128 5 35 285 279 573 1.75e-61 214
MsaG007089 AT4G00990.2 63.636 88 32 0 321 408 683 770 1.91e-30 125
MsaG007089 AT4G00990.1 39.799 299 128 5 35 285 279 573 2.19e-61 215
MsaG007089 AT4G00990.1 57.516 153 65 0 321 473 683 835 2.35e-54 195
MsaG007089 AT4G21430.1 30.822 438 225 8 107 474 490 919 3.02e-58 207
MsaG007089 AT3G07610.2 36.426 291 125 7 31 271 410 690 1.28e-42 161

Find 87 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCACAACCACCTAGTTCTTT+TGG 0.232816 2:+13649109 None:intergenic
ATAAGTATGCCTAAATTCTT+TGG 0.242870 2:+13647908 None:intergenic
TCTCTTGCCCTGTGATTCTT+AGG 0.277632 2:+13647341 None:intergenic
GAAGGTCTTGTTCAAGATAA+TGG 0.311719 2:-13648047 MsaT007089.1:CDS
TTACTTGTATCACAAGTTAT+TGG 0.332796 2:+13649199 None:intergenic
GAAAACACTCCAAAGAATTT+AGG 0.338721 2:-13647917 MsaT007089.1:CDS
AGATGGGAGGATATCTAAAT+TGG 0.352006 2:-13649053 MsaT007089.1:CDS
AAGAAGCTAGAGGAAGAGTT+TGG 0.361005 2:-13647732 MsaT007089.1:intron
TGACCAAGTTGTTAAAGAAT+TGG 0.364202 2:-13647168 MsaT007089.1:CDS
ATCACTATTCACATTCCATT+TGG 0.366620 2:+13649150 None:intergenic
AGAAACAGCTGGTGCACTTT+GGG 0.368153 2:-13647985 MsaT007089.1:CDS
CTTCCAATTCTTTAACAACT+TGG 0.368676 2:+13647165 None:intergenic
CAGATGTCAAGTGACCTTAT+AGG 0.384738 2:-13648923 MsaT007089.1:CDS
AGTTGCCACCAAATGTTATA+AGG 0.385343 2:-13648379 MsaT007089.1:CDS
TCCTCTGCCAAGCTCTTCTC+TGG 0.390375 2:+13648319 None:intergenic
AAAGAATTGGAAGCTTTCAT+TGG 0.399008 2:-13647155 MsaT007089.1:CDS
TTGTGATACAAGTAATTTAG+AGG 0.403494 2:-13649191 MsaT007089.1:CDS
GTTGGGAGCCAATGGTTACT+TGG 0.413326 2:-13648814 MsaT007089.1:CDS
TGTACAGGCTATTGATTGCT+TGG 0.428553 2:-13648738 MsaT007089.1:CDS
GAGCACATAAGGCTCAAGAT+AGG 0.434348 2:-13648073 MsaT007089.1:CDS
AAGTCAGGCCTTATAACATT+TGG 0.438608 2:+13648371 None:intergenic
CACCGTTCCTCCAATACTCT+TGG 0.440918 2:+13648882 None:intergenic
AGAACGTCAAATATTAGAAC+AGG 0.441025 2:+13648857 None:intergenic
GTGATAGATGATGGCACAAA+AGG 0.451379 2:+13648020 None:intergenic
ACTTTGCAGTATCTTCTCTT+CGG 0.452091 2:+13647955 None:intergenic
CAGAAACAGCTGGTGCACTT+TGG 0.453707 2:-13647986 MsaT007089.1:CDS
ATGTTGAGATATTTACCAAA+TGG 0.459203 2:-13649165 MsaT007089.1:CDS
TATTTAAATTCCAAGAGTAT+TGG 0.460840 2:-13648892 MsaT007089.1:CDS
AATTTAGATATCCTCCCATC+TGG 0.461007 2:+13649055 None:intergenic
GGATCGCAATACTCTTGAAA+TGG 0.475406 2:+13648431 None:intergenic
TTAAATTCCAAGAGTATTGG+AGG 0.475955 2:-13648889 MsaT007089.1:CDS
AAATGATAATTCAAATGTAC+AGG 0.476218 2:-13648753 MsaT007089.1:CDS
TTATTGTTCTCCAGTAAAAG+AGG 0.483787 2:-13647889 MsaT007089.1:intron
GACGTTCTCAAACAAGGGAC+AGG 0.489842 2:-13648842 MsaT007089.1:CDS
GTCGACTTCCTAAGAATCAC+AGG 0.505039 2:-13647349 MsaT007089.1:CDS
ACACCTTCAGATTTCTCACT+TGG 0.506166 2:+13647560 None:intergenic
AACAAGGGACAGGATTGAGT+TGG 0.510060 2:-13648832 MsaT007089.1:CDS
TGGTTGTGGTGGCTGTGTGA+TGG 0.522574 2:-13649095 MsaT007089.1:CDS
AGGATTGAGTTGGGAGCCAA+TGG 0.523462 2:-13648822 MsaT007089.1:CDS
TTCAGATTTCTCACTTGGTG+AGG 0.524957 2:+13647565 None:intergenic
AGCACATAAGGCTCAAGATA+GGG 0.524973 2:-13648072 MsaT007089.1:CDS
GAGTATTGCGATCCTCGAGC+TGG 0.528942 2:-13648422 MsaT007089.1:CDS
TCAGGCCTTATAACATTTGG+TGG 0.529368 2:+13648374 None:intergenic
GTATCACAAGTTATTGGTAG+AGG 0.529567 2:+13649205 None:intergenic
ACAAGGGACAGGATTGAGTT+GGG 0.531143 2:-13648831 MsaT007089.1:CDS
TCAGATTTCTCACTTGGTGA+GGG 0.534163 2:+13647566 None:intergenic
AAGGCTCAAGATAGGGAAGA+AGG 0.536972 2:-13648065 MsaT007089.1:CDS
ACCAGAGAAGAGCTTGGCAG+AGG 0.538284 2:-13648320 MsaT007089.1:CDS
CTGAAGCGCATTCTTCCAGA+TGG 0.539199 2:-13649070 MsaT007089.1:CDS
ATATTTGACGTTCTCAAACA+AGG 0.544534 2:-13648848 MsaT007089.1:CDS
CTTTGTGTCACCAGAAAATG+TGG 0.546636 2:-13647402 MsaT007089.1:CDS
ACTTGGTGAGGGCATCCAGC+AGG 0.549347 2:+13647577 None:intergenic
AATGTTATAAGGCCTGACTT+AGG 0.554124 2:-13648368 MsaT007089.1:CDS
TTCCAAGAGTATTGGAGGAA+CGG 0.556361 2:-13648884 MsaT007089.1:CDS
TATTTGACGTTCTCAAACAA+GGG 0.560423 2:-13648847 MsaT007089.1:CDS
CCAAAAGAACTAGGTGGTTG+TGG 0.561255 2:-13649109 MsaT007089.1:CDS
AATGCTCTCCAAGTAACCAT+TGG 0.575828 2:+13648806 None:intergenic
TGATTGCTTGGCTAGTTGTG+AGG 0.579197 2:-13648726 MsaT007089.1:intron
TAACAACTTGGTCAACAGCA+TGG 0.580070 2:+13647177 None:intergenic
AAATGGAATGTGAATAGTGA+TGG 0.595578 2:-13649148 MsaT007089.1:CDS
TTGGTGGCAACTTTGCAGCA+AGG 0.598809 2:+13648390 None:intergenic
AACGGATAAACTCGTCACAA+TGG 0.599920 2:+13648459 None:intergenic
AAAGATACATCAGAAACAGC+TGG 0.604136 2:-13647996 MsaT007089.1:CDS
GAAGCAGTATTTATACCTGC+TGG 0.606997 2:-13647592 MsaT007089.1:CDS
TAAGGTCACTTGACATCTGA+CGG 0.610508 2:+13648927 None:intergenic
TATGGAACCAGAGAAGAGCT+TGG 0.615802 2:-13648326 MsaT007089.1:CDS
TGTGATACAAGTAATTTAGA+GGG 0.619079 2:-13649190 MsaT007089.1:CDS
AAAACAAAAGAATGTTGAGA+CGG 0.619556 2:-13648987 MsaT007089.1:CDS
AGTTTCTGCTCAAAAGTCAA+AGG 0.620576 2:+13647619 None:intergenic
TGAGCATAAGAAGAAGCTAG+AGG 0.629510 2:-13647742 MsaT007089.1:CDS
GAATGTGCTCCAAAAGAACT+AGG 0.632610 2:-13649118 MsaT007089.1:CDS
TCACCAAGTGAGAAATCTGA+AGG 0.633939 2:-13647563 MsaT007089.1:intron
CCATTGTGATATTGCAGACG+CGG 0.646331 2:-13648279 MsaT007089.1:intron
AGCGCATTCTTCCAGATGGG+AGG 0.648445 2:-13649066 MsaT007089.1:CDS
ACTCTTGAAATGGCAAACAA+CGG 0.653289 2:+13648441 None:intergenic
TGAAGCGCATTCTTCCAGAT+GGG 0.654134 2:-13649069 MsaT007089.1:CDS
AGGTTGAGAATTCCAGCTCG+AGG 0.678355 2:+13648410 None:intergenic
CCGCGTCTGCAATATCACAA+TGG 0.685598 2:+13648279 None:intergenic
GGTCTTGTTCAAGATAATGG+AGG 0.690295 2:-13648044 MsaT007089.1:CDS
AAAGAACTAGGTGGTTGTGG+TGG 0.707130 2:-13649106 MsaT007089.1:CDS
AGAGGTGATGAATACATGCA+TGG 0.707440 2:-13649235 MsaT007089.1:CDS
ATAAACTCGTCACAATGGCG+CGG 0.715284 2:+13648464 None:intergenic
TCGACTTCCTAAGAATCACA+GGG 0.715729 2:-13647348 MsaT007089.1:CDS
GGCAAGAGAAGACAAACTTG+AGG 0.737690 2:-13647327 MsaT007089.1:intron
AAATTGGTAACAAAAGCTCG+CGG 0.750601 2:-13649037 MsaT007089.1:CDS
TGTGCTCCAAAAGAACTAGG+TGG 0.792037 2:-13649115 MsaT007089.1:CDS
GGTGATGAATACATGCATGG+TGG 0.798300 2:-13649232 MsaT007089.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 13647136 13649278 13647136 ID=MsaG007089
Chr2 mRNA 13647136 13649278 13647136 ID=MsaT007089.1;Parent=MsaG007089
Chr2 exon 13647136 13647216 13647136 ID=MsaT007089.1.exon7;Parent=MsaT007089.1
Chr2 CDS 13647136 13647216 13647136 ID=cds.MsaT007089.1;Parent=MsaT007089.1
Chr2 exon 13647328 13647447 13647328 ID=MsaT007089.1.exon6;Parent=MsaT007089.1
Chr2 CDS 13647328 13647447 13647328 ID=cds.MsaT007089.1;Parent=MsaT007089.1
Chr2 exon 13647564 13647649 13647564 ID=MsaT007089.1.exon5;Parent=MsaT007089.1
Chr2 CDS 13647564 13647649 13647564 ID=cds.MsaT007089.1;Parent=MsaT007089.1
Chr2 exon 13647733 13647805 13647733 ID=MsaT007089.1.exon4;Parent=MsaT007089.1
Chr2 CDS 13647733 13647805 13647733 ID=cds.MsaT007089.1;Parent=MsaT007089.1
Chr2 exon 13647890 13648168 13647890 ID=MsaT007089.1.exon3;Parent=MsaT007089.1
Chr2 CDS 13647890 13648168 13647890 ID=cds.MsaT007089.1;Parent=MsaT007089.1
Chr2 exon 13648280 13648519 13648280 ID=MsaT007089.1.exon2;Parent=MsaT007089.1
Chr2 CDS 13648280 13648519 13648280 ID=cds.MsaT007089.1;Parent=MsaT007089.1
Chr2 exon 13648727 13649278 13648727 ID=MsaT007089.1.exon1;Parent=MsaT007089.1
Chr2 CDS 13648727 13649278 13648727 ID=cds.MsaT007089.1;Parent=MsaT007089.1
Gene Sequence

>MsaT007089.1

ATGAAGTTTCAATACAAAAATAGAGGTGATGAATACATGCATGGTGGTGATCCTCTACCAATAACTTGTGATACAAGTAATTTAGAGGGTCATGTTGAGATATTTACCAAATGGAATGTGAATAGTGATGGAAGTGTTGAATGTGCTCCAAAAGAACTAGGTGGTTGTGGTGGCTGTGTGATGGAGCTGAAGCGCATTCTTCCAGATGGGAGGATATCTAAATTGGTAACAAAAGCTCGCGGTATGAAGAAACATTTTTGCATAATTGAAAAACAAAAGAATGTTGAGACGGAAAGAATCTCAAGTTGCAGCAATTACAATGACATATACCGTCAGATGTCAAGTGACCTTATAGGAAAAAAGCTATTTAAATTCCAAGAGTATTGGAGGAACGGTGTACCTGTTCTAATATTTGACGTTCTCAAACAAGGGACAGGATTGAGTTGGGAGCCAATGGTTACTTGGAGAGCATTGCGTGTAAATTCATCTTCAAGTGTCAGCTCAAATGATAATTCAAATGTACAGGCTATTGATTGCTTGGCTAGTTGTGAGGCGCCACCTTATGATGAGTTTGAAAATGTCTTGCCGCGCCATTGTGACGAGTTTATCCGTTGTTTGCCATTTCAAGAGTATTGCGATCCTCGAGCTGGAATTCTCAACCTTGCTGCAAAGTTGCCACCAAATGTTATAAGGCCTGACTTAGGTCCAAAAACTTACATTGCTTATGGAACCAGAGAAGAGCTTGGCAGAGGAGATTCTGTTACAAAACTCCATTGTGATATTGCAGACGCGGTCAATATTTTGACTCATATAACTGAGGTGAAATTAACAGATGAACAACTTTATGCTATTAAAAAAATAAAAAGAGCACATAAGGCTCAAGATAGGGAAGAAGGTCTTGTTCAAGATAATGGAGGTCCTTTTGTGCCATCATCTATCACAAAAGATACATCAGAAACAGCTGGTGCACTTTGGGACATATTCCGAAGAGAAGATACTGCAAAGTTAGAAGCATATCTTAGAAAACACTCCAAAGAATTTAGGCATACTTATTGTTCTCCAGTAAAAGAGGTTATTCATCCTATTCATGACCAATGTTTTTATTTGACTTTTGAGCATAAGAAGAAGCTAGAGGAAGAGTTTGGTGTAGTACCTTTGACTTTTGAGCAGAAACTTGGTGAAGCAGTATTTATACCTGCTGGATGCCCTCACCAAGTGAGAAATCTGAAGTCATGCACAAAAGTTGCAGTAGACTTTGTGTCACCAGAAAATGTGGATATATGCATGCTTTTAACTGAAGAGTTTCGTCGACTTCCTAAGAATCACAGGGCAAGAGAAGACAAACTTGAGGTAAAAAAGATGATAATCCATGCTGTTGACCAAGTTGTTAAAGAATTGGAAGCTTTCATTGGATGCTCATCACTCGACTGA
Protein sequence

>MsaT007089.1

MKFQYKNRGDEYMHGGDPLPITCDTSNLEGHVEIFTKWNVNSDGSVECAPKELGGCGGCVMELKRILPDGRISKLVTKARGMKKHFCIIEKQKNVETERISSCSNYNDIYRQMSSDLIGKKLFKFQEYWRNGVPVLIFDVLKQGTGLSWEPMVTWRALRVNSSSSVSSNDNSNVQAIDCLASCEAPPYDEFENVLPRHCDEFIRCLPFQEYCDPRAGILNLAAKLPPNVIRPDLGPKTYIAYGTREELGRGDSVTKLHCDIADAVNILTHITEVKLTDEQLYAIKKIKRAHKAQDREEGLVQDNGGPFVPSSITKDTSETAGALWDIFRREDTAKLEAYLRKHSKEFRHTYCSPVKEVIHPIHDQCFYLTFEHKKKLEEEFGVVPLTFEQKLGEAVFIPAGCPHQVRNLKSCTKVAVDFVSPENVDICMLLTEEFRRLPKNHRAREDKLEVKKMIIHAVDQVVKELEAFIGCSSLD*