AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026130

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026130 MtrunA17_Chr5g0410531 94.293 403 22 1 1 403 1 402 0.0 781
MsaG026130 MtrunA17_Chr8g0369161 75.312 401 85 6 1 391 1 397 0.0 583
MsaG026130 MtrunA17_Chr7g0275321 38.560 389 185 18 1 376 1 348 6.59e-57 192
MsaG026130 MtrunA17_Chr8g0373571 37.371 388 170 16 1 376 1 327 1.09e-50 173
MsaG026130 MtrunA17_Chr8g0347741 34.940 415 197 16 1 399 1 358 3.48e-44 158
MsaG026130 MtrunA17_Chr1g0162721 34.021 97 62 1 287 381 198 294 1.26e-11 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026130 AT2G35530.1 61.800 411 131 10 1 397 1 399 2.13e-160 457
MsaG026130 AT1G32150.1 61.675 394 109 13 1 380 1 366 8.26e-147 422
MsaG026130 AT2G46270.1 34.574 376 169 15 19 376 10 326 1.79e-40 148
MsaG026130 AT2G46270.3 34.574 376 169 15 19 376 10 326 1.79e-40 148
MsaG026130 AT4G36730.2 32.174 345 142 9 38 376 29 287 2.53e-28 113
MsaG026130 AT2G46270.2 57.746 71 30 0 306 376 233 303 2.24e-18 86.3
MsaG026130 AT2G46270.2 34.272 213 92 11 19 204 10 201 2.17e-16 80.5
MsaG026130 AT2G46270.4 57.746 71 30 0 306 376 233 303 2.24e-18 86.3
MsaG026130 AT2G46270.4 34.272 213 92 11 19 204 10 201 2.17e-16 80.5
MsaG026130 AT4G01120.1 42.500 120 59 2 268 379 202 319 1.58e-17 84.0
MsaG026130 AT4G36730.1 58.824 68 19 4 38 98 29 94 3.44e-14 73.6
MsaG026130 AT5G38800.1 40.698 86 47 1 311 396 72 153 6.04e-11 61.2

Find 139 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTGCTCCTGGAGCTGTTTC+TGG 0.165879 5:-17173468 MsaT026130.1:CDS
TAAATATAGGAATGGATTAT+TGG 0.223124 5:-17173431 MsaT026130.1:CDS
GTTGCGGGAGGGGTGGTTAC+TGG 0.250650 5:-17173351 MsaT026130.1:CDS
ACCTGGACACCCCACATATA+AGG 0.260255 5:+17177272 None:intergenic
AAAGACGAAAGCAGTCTAAT+AGG 0.280364 5:-17172312 MsaT026130.1:CDS
TCAGTGCATACTTCACAAAA+TGG 0.288388 5:-17173555 MsaT026130.1:CDS
TCAGTCACAACTTTGGTTAC+AGG 0.304902 5:-17173310 MsaT026130.1:intron
TTTGTTAAACACCTGAAAAC+TGG 0.324704 5:+17177425 None:intergenic
ATCTCGGCAAGCGGTGCTCC+TGG 0.346619 5:-17173480 MsaT026130.1:CDS
GGTAGTTTGAACATGATTAC+AGG 0.349225 5:-17174588 MsaT026130.1:CDS
GCTTGCGCAACCTGGATCTC+CGG 0.349988 5:+17172281 None:intergenic
CCTATATTTAAGTTTGTTGC+GGG 0.356569 5:+17173444 None:intergenic
TACCTTGAGAGCTGCATTCT+CGG 0.363000 5:+17172055 None:intergenic
ATAGGGCTCTCCATTGAAAT+CGG 0.363438 5:-17173746 MsaT026130.1:intron
CCCTTATATGTGGGGTGTCC+AGG 0.365670 5:-17177273 MsaT026130.1:intron
AAAAGGTCAAAAGGAAGTTT+AGG 0.381702 5:-17174609 MsaT026130.1:CDS
GGTTGTGCAGGGTGGTCATT+AGG 0.383561 5:-17171459 None:intergenic
TATGCCTCCACATGGATTCA+TGG 0.385756 5:-17177315 MsaT026130.1:CDS
GGAGCACCGCTTGCCGAGAT+AGG 0.387822 5:+17173483 None:intergenic
GTCTACCACAGTTGCGGGAG+GGG 0.409011 5:-17173361 MsaT026130.1:CDS
GTAGGCATGGCATAAGGATA+TGG 0.411726 5:+17174849 None:intergenic
ACAGGTGAACCATCTCAAAA+TGG 0.415026 5:-17173582 MsaT026130.1:intron
AAGACGAAAGCAGTCTAATA+GGG 0.416680 5:-17172311 MsaT026130.1:CDS
GTGCCGTCTACCACAGTTGC+GGG 0.429081 5:-17173366 MsaT026130.1:CDS
CTGGCCCAGTCAGTATTAAC+TGG 0.429198 5:+17177444 None:intergenic
CATAACCTGCTTGCGCAACC+TGG 0.432249 5:+17172273 None:intergenic
CCCGCAACAAACTTAAATAT+AGG 0.444449 5:-17173444 MsaT026130.1:CDS
CCTGGACACCCCACATATAA+GGG 0.445518 5:+17177273 None:intergenic
TAGGGCTCTCCATTGAAATC+GGG 0.448319 5:-17173745 MsaT026130.1:CDS
CCACATATAAGGGTGAGCTT+GGG 0.451082 5:+17177283 None:intergenic
CCCACATATAAGGGTGAGCT+TGG 0.455251 5:+17177282 None:intergenic
CAGTGCATACTTCACAAAAT+GGG 0.455379 5:-17173554 MsaT026130.1:CDS
GGCACCTTTCCGCGGAGAGC+GGG 0.455864 5:+17173384 None:intergenic
TCCTATATTTAAGTTTGTTG+CGG 0.459038 5:+17173443 None:intergenic
GGGAATCTGCCCGGAGATCC+AGG 0.460251 5:-17172291 MsaT026130.1:CDS
CTTGCGCAACCTGGATCTCC+GGG 0.461009 5:+17172282 None:intergenic
TTAATCTACAGGAGAGACTT+GGG 0.468089 5:-17171541 MsaT026130.1:intron
TTGCCAATCAAAAGGTCAAA+AGG 0.468116 5:-17174618 MsaT026130.1:CDS
CCATCAGTTTCCATGCTGGC+AGG 0.471564 5:+17174666 None:intergenic
ACAGCGGGGACATCTGCTAA+TGG 0.473912 5:-17174543 MsaT026130.1:CDS
TTTAATCTACAGGAGAGACT+TGG 0.481648 5:-17171542 MsaT026130.1:intron
ATGGGGATACATTGCAACAT+AGG 0.481817 5:+17175010 None:intergenic
GAGAGACTTGGGGAACAGCC+AGG 0.482816 5:-17171530 MsaT026130.1:CDS
CCCAAGCTCACCCTTATATG+TGG 0.482879 5:-17177283 MsaT026130.1:CDS
TATGTCTGTCATTCCTATCT+CGG 0.487110 5:-17173496 MsaT026130.1:CDS
CCAAGCTCACCCTTATATGT+GGG 0.487502 5:-17177282 MsaT026130.1:CDS
GAAGCCTCAGCAATACCGTT+TGG 0.488036 5:+17174825 None:intergenic
GACAGGCTGGATTCTTTGGA+AGG 0.489238 5:-17173721 MsaT026130.1:intron
GTTTGATTAACCACTGTATG+AGG 0.491464 5:+17173519 None:intergenic
TGGACAGACAGAGGTTGTGC+AGG 0.495031 5:-17171471 MsaT026130.1:CDS
GGGTGGTTACTGGTGGATCA+CGG 0.495283 5:-17173341 MsaT026130.1:CDS
GCGGGGCCAGAAACAGCTCC+AGG 0.501668 5:+17173462 None:intergenic
GGTGGTTACTGGTGGATCAC+GGG 0.504171 5:-17173340 MsaT026130.1:CDS
TGCGATTTACTTCTAATCTG+AGG 0.506078 5:+17172105 None:intergenic
TACCGGAGGCATGGATGGAT+GGG 0.506551 5:+17174974 None:intergenic
CCAGTCAGTATTAACTGGTC+CGG 0.510781 5:+17177449 None:intergenic
AATGAACATGGTAAAACAGC+GGG 0.512685 5:-17174558 MsaT026130.1:CDS
GAGATCCAGGTTGCGCAAGC+AGG 0.514097 5:-17172278 MsaT026130.1:intron
GCGATTTACTTCTAATCTGA+GGG 0.523780 5:+17172106 None:intergenic
CACATGTGTTGATCGTTCCC+TGG 0.524375 5:+17171512 None:intergenic
TGCCCATCCATCCATGCCTC+CGG 0.527121 5:-17174976 MsaT026130.1:intron
ATGATTACCGGAGGCATGGA+TGG 0.528642 5:+17174969 None:intergenic
CCTTCGACCACCACAAGCAC+CGG 0.529424 5:-17177468 MsaT026130.1:CDS
GCGGGAATGTTGGATGAAGT+TGG 0.529481 5:+17173402 None:intergenic
CCGGACCAGTTAATACTGAC+TGG 0.532558 5:-17177449 MsaT026130.1:CDS
CAGCACATGATGCCTCCTTA+CGG 0.532632 5:-17175050 MsaT026130.1:CDS
TGGGGATACATTGCAACATA+GGG 0.533477 5:+17175011 None:intergenic
TTTGGAGTAGGCATGGCATA+AGG 0.540351 5:+17174843 None:intergenic
ATGAATCCATGTGGAGGCAT+AGG 0.540941 5:+17177317 None:intergenic
TTACCGGAGGCATGGATGGA+TGG 0.541081 5:+17174973 None:intergenic
GGTGAAAGTGGAAGTTATGA+AGG 0.541983 5:-17173949 MsaT026130.1:CDS
CCGGTGCTTGTGGTGGTCGA+AGG 0.542859 5:+17177468 None:intergenic
CGTCTACCACAGTTGCGGGA+GGG 0.548049 5:-17173362 MsaT026130.1:CDS
GACAATGATTACCGGAGGCA+TGG 0.549201 5:+17174965 None:intergenic
TTTACCATCAGTTTCCATGC+TGG 0.549293 5:+17174662 None:intergenic
GGGAAACACTCCTGCCAGCA+TGG 0.550438 5:-17174676 MsaT026130.1:CDS
TATGCCATGCCTACTCCAAA+CGG 0.550779 5:-17174840 MsaT026130.1:CDS
TTCCGAGAATGCAGCTCTCA+AGG 0.555646 5:-17172057 MsaT026130.1:intron
ATAGTGTTCAGTCACAACTT+TGG 0.556498 5:-17173317 MsaT026130.1:CDS
TCCGCGGAGAGCGGGAATGT+TGG 0.562352 5:+17173392 None:intergenic
CATTCCCGCTCTCCGCGGAA+AGG 0.563820 5:-17173388 MsaT026130.1:CDS
AGTTATGAAGGCACTAGTGA+AGG 0.565853 5:-17173937 MsaT026130.1:CDS
CCGTCTACCACAGTTGCGGG+AGG 0.565964 5:-17173363 MsaT026130.1:CDS
GCAACATAGGGATGTGGTGG+TGG 0.567309 5:+17175023 None:intergenic
GCGGGAGGGGTGGTTACTGG+TGG 0.570321 5:-17173348 MsaT026130.1:CDS
TACCACAGTTGCGGGAGGGG+TGG 0.570983 5:-17173358 MsaT026130.1:CDS
GTCAATTAGACCTGTGATGT+TGG 0.571910 5:+17177572 None:intergenic
TGTGGTGGTGGAGTACCGTA+AGG 0.572339 5:+17175035 None:intergenic
AAGTATGGGCAATAATGAGA+TGG 0.572969 5:-17177633 None:intergenic
CACATATAAGGGTGAGCTTG+GGG 0.573392 5:+17177284 None:intergenic
TGGTAAACCTCCTGAAGTGA+AGG 0.575107 5:-17174646 MsaT026130.1:CDS
TACATTGCAACATAGGGATG+TGG 0.580807 5:+17175017 None:intergenic
CTAATGGAATTCACTCAAAG+AGG 0.581180 5:-17174527 MsaT026130.1:intron
GACACCGCCACCAACATCAC+AGG 0.583308 5:-17177582 MsaT026130.1:intron
AACAAACTTAAATATAGGAA+TGG 0.588482 5:-17173439 MsaT026130.1:CDS
CGGCACCTTTCCGCGGAGAG+CGG 0.591194 5:+17173383 None:intergenic
ATTAACTGGTCCGGTGCTTG+TGG 0.591408 5:+17177458 None:intergenic
CGGACCAGTTAATACTGACT+GGG 0.594452 5:-17177448 MsaT026130.1:CDS
AACTGGTCCGGTGCTTGTGG+TGG 0.595789 5:+17177461 None:intergenic
CAAGCTCACCCTTATATGTG+GGG 0.599058 5:-17177281 MsaT026130.1:CDS
GATGGGCATAAATGCCACCA+TGG 0.603044 5:+17174991 None:intergenic
AACCACCCCTCCCGCAACTG+TGG 0.605113 5:+17173356 None:intergenic
TCAGCAATACCGTTTGGAGT+AGG 0.605905 5:+17174831 None:intergenic
CCTCCCGCAACTGTGGTAGA+CGG 0.610873 5:+17173363 None:intergenic
TGTAACGACACTCAACAAAG+TGG 0.612194 5:-17171491 MsaT026130.1:CDS
AGTGCATACTTCACAAAATG+GGG 0.613656 5:-17173553 MsaT026130.1:CDS
ATGGGCATAAATGCCACCAT+GGG 0.618961 5:+17174992 None:intergenic
AGAGACTTGGGGAACAGCCA+GGG 0.619062 5:-17171529 MsaT026130.1:CDS
GGATAAAACAGCAAAAGAGA+AGG 0.619999 5:-17177612 MsaT026130.1:CDS
AGGGCTCTCCATTGAAATCG+GGG 0.621854 5:-17173744 MsaT026130.1:CDS
GTCATTCCTATCTCGGCAAG+CGG 0.624506 5:-17173489 MsaT026130.1:CDS
GTAGTTTGAACATGATTACA+GGG 0.624590 5:-17174587 MsaT026130.1:CDS
CCTGCCAGCATGGAAACTGA+TGG 0.625964 5:-17174666 MsaT026130.1:CDS
TAGACCTGTGATGTTGGTGG+CGG 0.632032 5:+17177578 None:intergenic
TACTCCAAACGGTATTGCTG+AGG 0.632684 5:-17174829 MsaT026130.1:CDS
AATACCGTTTGGAGTAGGCA+TGG 0.637188 5:+17174836 None:intergenic
GGTGCCGTCTACCACAGTTG+CGG 0.643744 5:-17173367 MsaT026130.1:CDS
AGTCTAATAGGGAATCTGCC+CGG 0.645669 5:-17172300 MsaT026130.1:CDS
GGACAGACAGAGGTTGTGCA+GGG 0.645924 5:-17171470 MsaT026130.1:CDS
ACTTAATGCACCTCATACAG+TGG 0.648863 5:-17173529 MsaT026130.1:CDS
GGGCTCTCCATTGAAATCGG+GGG 0.649580 5:-17173743 MsaT026130.1:CDS
TAATCTACAGGAGAGACTTG+GGG 0.650587 5:-17171540 MsaT026130.1:intron
TATTCTCCTATGCCTCCACA+TGG 0.653498 5:-17177323 MsaT026130.1:CDS
AATTAGACCTGTGATGTTGG+TGG 0.654977 5:+17177575 None:intergenic
TGGTAGACGGCACCTTTCCG+CGG 0.657685 5:+17173376 None:intergenic
TATGTTGCAATGTATCCCCA+TGG 0.658872 5:-17175008 MsaT026130.1:CDS
TCAACAAAGTGGACAGACAG+AGG 0.662687 5:-17171480 MsaT026130.1:CDS
CTATATTTAAGTTTGTTGCG+GGG 0.664908 5:+17173445 None:intergenic
TCCAACATTCCCGCTCTCCG+CGG 0.674208 5:-17173393 MsaT026130.1:CDS
GGTGGTGGAGTACCGTAAGG+AGG 0.676648 5:+17175038 None:intergenic
TAATGAACATGGTAAAACAG+CGG 0.688598 5:-17174559 MsaT026130.1:CDS
ATTGCAACATAGGGATGTGG+TGG 0.698457 5:+17175020 None:intergenic
CAGACAGAGGTTGTGCAGGG+TGG 0.709413 5:-17171467 MsaT026130.1:CDS
GTGCATACTTCACAAAATGG+GGG 0.716053 5:-17173552 MsaT026130.1:CDS
CTTGATGCCATGAATCCATG+TGG 0.723044 5:+17177308 None:intergenic
TGGGCATAAATGCCACCATG+GGG 0.725796 5:+17174993 None:intergenic
GATGCCATGAATCCATGTGG+AGG 0.727658 5:+17177311 None:intergenic
GTTGCAATGTATCCCCATGG+TGG 0.737517 5:-17175005 MsaT026130.1:CDS
ATGAACATGGTAAAACAGCG+GGG 0.756524 5:-17174557 MsaT026130.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 17171460 17177651 17171460 ID=MsaG026130
Chr5 mRNA 17171460 17177651 17171460 ID=MsaT026130.1;Parent=MsaG026130
Chr5 exon 17171460 17171552 17171460 ID=MsaT026130.1.exon12;Parent=MsaT026130.1
Chr5 CDS 17171460 17171552 17171460 ID=cds.MsaT026130.1;Parent=MsaT026130.1
Chr5 exon 17172058 17172183 17172058 ID=MsaT026130.1.exon11;Parent=MsaT026130.1
Chr5 CDS 17172058 17172183 17172058 ID=cds.MsaT026130.1;Parent=MsaT026130.1
Chr5 exon 17172279 17172356 17172279 ID=MsaT026130.1.exon10;Parent=MsaT026130.1
Chr5 CDS 17172279 17172356 17172279 ID=cds.MsaT026130.1;Parent=MsaT026130.1
Chr5 exon 17173311 17173600 17173311 ID=MsaT026130.1.exon9;Parent=MsaT026130.1
Chr5 CDS 17173311 17173600 17173311 ID=cds.MsaT026130.1;Parent=MsaT026130.1
Chr5 exon 17173722 17173764 17173722 ID=MsaT026130.1.exon8;Parent=MsaT026130.1
Chr5 CDS 17173722 17173764 17173722 ID=cds.MsaT026130.1;Parent=MsaT026130.1
Chr5 exon 17173915 17173972 17173915 ID=MsaT026130.1.exon7;Parent=MsaT026130.1
Chr5 CDS 17173915 17173972 17173915 ID=cds.MsaT026130.1;Parent=MsaT026130.1
Chr5 exon 17174528 17174697 17174528 ID=MsaT026130.1.exon6;Parent=MsaT026130.1
Chr5 CDS 17174528 17174697 17174528 ID=cds.MsaT026130.1;Parent=MsaT026130.1
Chr5 exon 17174824 17174880 17174824 ID=MsaT026130.1.exon5;Parent=MsaT026130.1
Chr5 CDS 17174824 17174880 17174824 ID=cds.MsaT026130.1;Parent=MsaT026130.1
Chr5 exon 17174977 17175069 17174977 ID=MsaT026130.1.exon4;Parent=MsaT026130.1
Chr5 CDS 17174977 17175069 17174977 ID=cds.MsaT026130.1;Parent=MsaT026130.1
Chr5 exon 17177274 17177348 17177274 ID=MsaT026130.1.exon3;Parent=MsaT026130.1
Chr5 CDS 17177274 17177348 17177274 ID=cds.MsaT026130.1;Parent=MsaT026130.1
Chr5 exon 17177437 17177496 17177437 ID=MsaT026130.1.exon2;Parent=MsaT026130.1
Chr5 CDS 17177437 17177496 17177437 ID=cds.MsaT026130.1;Parent=MsaT026130.1
Chr5 exon 17177583 17177651 17177583 ID=MsaT026130.1.exon1;Parent=MsaT026130.1
Chr5 CDS 17177583 17177651 17177583 ID=cds.MsaT026130.1;Parent=MsaT026130.1
Gene Sequence

>MsaT026130.1

ATGGGCAATAATGAGATGGATAAAACAGCAAAAGAGAAGGACTCGAAGACACCGCCACCAACATCACAGGAGCAGCCTTCGACCACCACAAGCACCGGACCAGTTAATACTGACTGGGCCAGTTTTCAGGCATATTCTCCTATGCCTCCACATGGATTCATGGCATCAAGTCCCCAAGCTCACCCTTATATGTGGGGTGTCCAGCACATGATGCCTCCTTACGGTACTCCACCACCACATCCCTATGTTGCAATGTATCCCCATGGTGGCATTTATGCCCATCCATCCATGCCTCCGGGATCTTATCCATATCCTTATGCCATGCCTACTCCAAACGGTATTGCTGAGGCTTCCGGAAACACTCCTGCCAGCATGGAAACTGATGGTAAACCTCCTGAAGTGAAGGAAAAATTGCCAATCAAAAGGTCAAAAGGAAGTTTAGGTAGTTTGAACATGATTACAGGGAAAAATAATGAACATGGTAAAACAGCGGGGACATCTGCTAATGGAATTCACTCAAAGAGTGGTGAAAGTGGAAGTTATGAAGGCACTAGTGAAGGAAGTGATGCAAATTCTCAGAATGGCTCTCCATTGAAATCGGGGGACAGGCTGGATTCTTTGGAAGGTGAACCATCTCAAAATGGCAGTTCAGTGCATACTTCACAAAATGGGGGACTTAATGCACCTCATACAGTGGTTAATCAAACTATGTCTGTCATTCCTATCTCGGCAAGCGGTGCTCCTGGAGCTGTTTCTGGCCCCGCAACAAACTTAAATATAGGAATGGATTATTGGAACACGCCAACTTCATCCAACATTCCCGCTCTCCGCGGAAAGGTGCCGTCTACCACAGTTGCGGGAGGGGTGGTTACTGGTGGATCACGGGATAGTGTTCAGTCACAACTTTGGTTACAGGATGAAAGAGAGCTTAAAAGACAAAGACGAAAGCAGTCTAATAGGGAATCTGCCCGGAGATCCAGGTTGCGCAAGCAGGCTGAGTGCGACGAGCTTGCTCAGCGTGCTGATGTTTTGAAAGAAGAAAATGCTTCCCTCAGATTAGAAGTAAATCGCATTAGAAGCGAGTATGAGCAGCTACTTTCCGAGAATGCAGCTCTCAAGGAGAGACTTGGGGAACAGCCAGGGAACGATCAACACATGTGTAACGACACTCAACAAAGTGGACAGACAGAGGTTGTGCAGGGTGGTCATTAG
Protein sequence

>MsaT026130.1

MGNNEMDKTAKEKDSKTPPPTSQEQPSTTTSTGPVNTDWASFQAYSPMPPHGFMASSPQAHPYMWGVQHMMPPYGTPPPHPYVAMYPHGGIYAHPSMPPGSYPYPYAMPTPNGIAEASGNTPASMETDGKPPEVKEKLPIKRSKGSLGSLNMITGKNNEHGKTAGTSANGIHSKSGESGSYEGTSEGSDANSQNGSPLKSGDRLDSLEGEPSQNGSSVHTSQNGGLNAPHTVVNQTMSVIPISASGAPGAVSGPATNLNIGMDYWNTPTSSNIPALRGKVPSTTVAGGVVTGGSRDSVQSQLWLQDERELKRQRRKQSNRESARRSRLRKQAECDELAQRADVLKEENASLRLEVNRIRSEYEQLLSENAALKERLGEQPGNDQHMCNDTQQSGQTEVVQGGH*