AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016789


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016789 MtrunA17_Chr3g0132751 96.657 359 11 1 1 358 1 359 0.0 709
MsaG016789 MtrunA17_Chr4g0049741 44.860 321 131 8 54 358 29 319 1.51e-77 241
MsaG016789 MtrunA17_Chr5g0427661 48.000 250 115 7 12 252 14 257 3.34e-62 200
MsaG016789 MtrunA17_Chr3g0132761 52.821 195 78 5 68 258 71 255 9.27e-58 189
MsaG016789 MtrunA17_Chr3g0102511 52.410 166 55 4 162 306 10 172 1.01e-39 147
MsaG016789 MtrunA17_Chr4g0002231 48.958 96 40 3 147 235 42 135 3.72e-23 94.0
MsaG016789 MtrunA17_Chr4g0002261 59.322 59 23 1 112 169 6 64 1.32e-14 68.2
MsaG016789 MtrunA17_Chr4g0002251 52.381 63 21 2 194 256 2 55 1.23e-13 65.5
MsaG016789 MtrunA17_Chr3g0091641 57.143 49 21 0 122 170 490 538 8.66e-12 66.2
MsaG016789 MtrunA17_Chr4g0061021 57.143 49 21 0 122 170 497 545 3.54e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016789 AT3G21175.2 58.470 183 67 4 68 243 79 259 9.13e-62 200
MsaG016789 AT3G21175.1 56.831 183 72 3 68 243 79 261 1.02e-59 194
MsaG016789 AT1G51600.1 52.736 201 76 5 68 253 83 279 1.23e-58 192
MsaG016789 AT1G51600.2 52.736 201 76 5 68 253 83 279 1.23e-58 192
MsaG016789 AT4G24470.1 51.412 177 82 3 68 243 83 256 9.29e-51 172
MsaG016789 AT4G24470.2 51.412 177 82 3 68 243 83 256 9.29e-51 172
MsaG016789 AT4G24470.3 51.412 177 82 3 68 243 83 256 1.25e-50 172
MsaG016789 AT3G21175.3 51.449 138 60 3 68 198 79 216 1.90e-32 121

Find 95 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTAAAACTCACAGAGATTC+AGG 0.223095 3:+102165519 None:intergenic
CATGCATTGCACAAAGTTCT+TGG 0.241152 3:+102165347 None:intergenic
AGTTCAGCTGTGGGCATGCC+TGG 0.281391 3:+102168198 None:intergenic
GCTATTCTTCGTGAAAGATT+TGG 0.306955 3:+102168038 None:intergenic
GCAGCTGCAGTTGCAGTTGC+AGG 0.307759 3:+102170452 None:intergenic
TGCCATTTGATCAGAGTAAC+AGG 0.315044 3:-102168176 MsaT016789.1:CDS
GATACAGATATTGACATTCC+TGG 0.340740 3:-102163071 MsaT016789.1:CDS
GCTGGTCCGCGACGCATTGC+AGG 0.357972 3:+102165374 None:intergenic
ATTGGTAATTTGTCATTCTT+CGG 0.372377 3:-102163403 MsaT016789.1:CDS
TCCTGCAATCTCTAGGGCTT+GGG 0.375005 3:-102168077 MsaT016789.1:intron
ACCAGACGACTTTGCTCAAC+AGG 0.377857 3:+102164664 None:intergenic
TGATGATACTATGGATGAAT+TGG 0.387456 3:-102170522 MsaT016789.1:CDS
ACCTTCTAATCAAAGTTTCC+AGG 0.390784 3:+102163053 None:intergenic
TGCTAGGATGCATCGGGAAA+AGG 0.402415 3:-102165625 MsaT016789.1:intron
TCAATAGCTGGAATTGTTGC+AGG 0.402850 3:+102170581 None:intergenic
ACTCACAGAGATTCAGGATT+AGG 0.406041 3:+102165525 None:intergenic
ACAGTTGGCTTGACATCAAC+AGG 0.416226 3:+102163764 None:intergenic
GCTAGGATGCATCGGGAAAA+GGG 0.419663 3:-102165624 MsaT016789.1:intron
ACCTTCTGATGTGTGACATC+GGG 0.425377 3:+102170371 None:intergenic
GGAACCAGGGCTTTGCTTCA+AGG 0.426853 3:+102165590 None:intergenic
TGATGATGGTGATGATACTA+TGG 0.427625 3:-102170531 MsaT016789.1:CDS
CACAAAGTTCTTGGTCCAGC+TGG 0.446059 3:+102165356 None:intergenic
GCAATGCATGCGGCCTCATG+TGG 0.449902 3:-102165334 MsaT016789.1:CDS
CTCTAGTTGGAATTCAGCAC+AGG 0.449996 3:-102165568 MsaT016789.1:CDS
GTCAAGCCAACTGTTCTTGA+AGG 0.454609 3:-102163755 MsaT016789.1:CDS
ATTTCTTGCTAGGATGCATC+GGG 0.457873 3:-102165631 MsaT016789.1:intron
CTTTCTAATCCTTCAGATGC+AGG 0.461274 3:-102163110 MsaT016789.1:CDS
GCAATGCGTCGCGGACCAGC+TGG 0.462401 3:-102165371 MsaT016789.1:CDS
AGCAAAATGACCAACCTTGT+TGG 0.463402 3:+102165310 None:intergenic
GGAGGAAGTGGTGCGCAGCC+AGG 0.464266 3:-102168216 MsaT016789.1:CDS
TCCTGTTGAGCAAAGTCGTC+TGG 0.466212 3:-102164665 MsaT016789.1:intron
ACCTTCCGCACCAACAGTCT+TGG 0.467444 3:+102163601 None:intergenic
ACCCTGTTACTCTGATCAAA+TGG 0.485919 3:+102168174 None:intergenic
GAAGAATAGCCTCCTTGGTC+AGG 0.487750 3:-102168025 MsaT016789.1:CDS
TCCAAGACTGTTGGTGCGGA+AGG 0.498699 3:-102163602 MsaT016789.1:CDS
AAAGCCCTGGTTCCTCTAGT+TGG 0.498939 3:-102165581 MsaT016789.1:CDS
TTCACGAAGAATAGCCTCCT+TGG 0.502425 3:-102168030 MsaT016789.1:CDS
CGGCCTCATGTGGGCCAACA+AGG 0.505964 3:-102165324 MsaT016789.1:intron
GAACCAGGGCTTTGCTTCAA+GGG 0.507428 3:+102165591 None:intergenic
TATTTCTTGCTAGGATGCAT+CGG 0.512222 3:-102165632 MsaT016789.1:intron
TTCGGAAAATGATGATGAGC+AGG 0.513065 3:-102163385 MsaT016789.1:intron
TTAGACATTCCTGCATCTGA+AGG 0.515486 3:+102163101 None:intergenic
GCTGCAGCTGCAACACGTAT+TGG 0.518862 3:-102170434 MsaT016789.1:CDS
AATTCCCCTTCAAGAACAGT+TGG 0.521168 3:+102163749 None:intergenic
TGGAATTCAGCACAGGGTGC+TGG 0.521463 3:-102165561 MsaT016789.1:CDS
GGTAATTCAGTGAACGTTGA+AGG 0.522137 3:-102170485 MsaT016789.1:CDS
TCGTCGTCGTCATCAATAGC+TGG 0.535781 3:+102170569 None:intergenic
ATCAAATGGCAGTTCAGCTG+TGG 0.540344 3:+102168188 None:intergenic
TACCTTCTGATGTGTGACAT+CGG 0.541157 3:+102170370 None:intergenic
GAAGAACCTTCCAAGACTGT+TGG 0.545293 3:-102163611 MsaT016789.1:CDS
GACACTCAGAGATCTCAGTA+AGG 0.560391 3:-102164701 MsaT016789.1:CDS
GCACAGGGTGCTGGTCAAGA+TGG 0.560830 3:-102165552 MsaT016789.1:CDS
GCACCCTTGAAGCAAAGCCC+TGG 0.567134 3:-102165594 MsaT016789.1:CDS
ACTACAACTACCTCATCACC+AGG 0.568839 3:+102163557 None:intergenic
TCAAGCCAACTGTTCTTGAA+GGG 0.572288 3:-102163754 MsaT016789.1:CDS
TAGATACTCCGTGAGAAAAG+AGG 0.572399 3:-102167961 MsaT016789.1:CDS
CCCCGATGTCACACATCAGA+AGG 0.572507 3:-102170372 MsaT016789.1:intron
CTCAGAGATCTCAGTAAGGG+TGG 0.581454 3:-102164697 MsaT016789.1:CDS
TGCAATCTCTAGGGCTTGGG+CGG 0.583296 3:-102168074 MsaT016789.1:intron
GAATTGGATGAAGAAACAAA+TGG 0.583383 3:-102170506 MsaT016789.1:CDS
GCAGGATCCTCAGATGGAAG+AGG 0.588835 3:+102170599 None:intergenic
CAACCTTGTTGGCCCACATG+AGG 0.589336 3:+102165321 None:intergenic
TGCATCAAACCCTGGTGATG+AGG 0.590145 3:-102163567 MsaT016789.1:intron
GAATTCCAACTAGAGGAACC+AGG 0.591328 3:+102165576 None:intergenic
CAATGCATGCGGCCTCATGT+GGG 0.602828 3:-102165333 MsaT016789.1:CDS
TCAAATGGCAGTTCAGCTGT+GGG 0.609776 3:+102168189 None:intergenic
ATTGTTGCAGGATCCTCAGA+TGG 0.609966 3:+102170593 None:intergenic
TGATGACGACGACGACGATG+AGG 0.610620 3:-102170561 MsaT016789.1:CDS
ATGTCAATATCTGTATCTGA+AGG 0.610986 3:+102163077 None:intergenic
TCCGCACCAACAGTCTTGGA+AGG 0.612491 3:+102163605 None:intergenic
GGAACAACCTCTTCCATCTG+AGG 0.612918 3:-102170606 MsaT016789.1:CDS
GAAGAATGACAAATTACCAA+TGG 0.616321 3:+102163405 None:intergenic
GGATTAGAAAGCTCGACCAC+GGG 0.617309 3:+102163122 None:intergenic
CAAGCCAACTGTTCTTGAAG+GGG 0.619999 3:-102163753 MsaT016789.1:CDS
ACCTTCCAAGACTGTTGGTG+CGG 0.622461 3:-102163606 MsaT016789.1:CDS
CTAGGATGCATCGGGAAAAG+GGG 0.623092 3:-102165623 MsaT016789.1:intron
TGAGAAAAGAGGTGGCAGAA+AGG 0.629475 3:-102167950 MsaT016789.1:intron
GATGAGGACTATACTGATGA+TGG 0.633851 3:-102170545 MsaT016789.1:CDS
AGACGTAGATGTCAACATTG+TGG 0.641093 3:-102165416 MsaT016789.1:CDS
AGGATTAGAAAGCTCGACCA+CGG 0.642905 3:+102163121 None:intergenic
AGAACTTTGTGCAATGCATG+CGG 0.654215 3:-102165344 MsaT016789.1:CDS
CTGTGCTGAATTCCAACTAG+AGG 0.664420 3:+102165569 None:intergenic
AATACTCCTGCAATGCGTCG+CGG 0.665782 3:-102165380 MsaT016789.1:CDS
ACACTCAGAGATCTCAGTAA+GGG 0.666946 3:-102164700 MsaT016789.1:CDS
TCTAGTTGGAATTCAGCACA+GGG 0.669194 3:-102165567 MsaT016789.1:CDS
ATACTCCGTGAGAAAAGAGG+TGG 0.671679 3:-102167958 MsaT016789.1:CDS
AATGATCATGCATCAAACCC+TGG 0.673623 3:-102163575 MsaT016789.1:CDS
AATTCCAACTAGAGGAACCA+GGG 0.673882 3:+102165577 None:intergenic
CCTTCTGATGTGTGACATCG+GGG 0.685593 3:+102170372 None:intergenic
ATATGACCTACAGGAACCCG+TGG 0.688581 3:-102163138 MsaT016789.1:intron
GTTGGCTTGACATCAACAGG+AGG 0.690482 3:+102163767 None:intergenic
TTGGCTTGACATCAACAGGA+GGG 0.707354 3:+102163768 None:intergenic
GCCATTTGATCAGAGTAACA+GGG 0.709466 3:-102168175 MsaT016789.1:intron
CTACAACTACCTCATCACCA+GGG 0.715371 3:+102163558 None:intergenic
TTCACGGTACCTGACCAAGG+AGG 0.733564 3:+102168016 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 102163058 102170633 102163058 ID=MsaG016789
Chr3 mRNA 102163058 102170633 102163058 ID=MsaT016789.1;Parent=MsaG016789
Chr3 exon 102163058 102163147 102163058 ID=MsaT016789.1.exon10;Parent=MsaT016789.1
Chr3 CDS 102163058 102163147 102163058 ID=cds.MsaT016789.1;Parent=MsaT016789.1
Chr3 exon 102163386 102163466 102163386 ID=MsaT016789.1.exon9;Parent=MsaT016789.1
Chr3 CDS 102163386 102163466 102163386 ID=cds.MsaT016789.1;Parent=MsaT016789.1
Chr3 exon 102163568 102163642 102163568 ID=MsaT016789.1.exon8;Parent=MsaT016789.1
Chr3 CDS 102163568 102163642 102163568 ID=cds.MsaT016789.1;Parent=MsaT016789.1
Chr3 exon 102163727 102163792 102163727 ID=MsaT016789.1.exon7;Parent=MsaT016789.1
Chr3 CDS 102163727 102163792 102163727 ID=cds.MsaT016789.1;Parent=MsaT016789.1
Chr3 exon 102164666 102164725 102164666 ID=MsaT016789.1.exon6;Parent=MsaT016789.1
Chr3 CDS 102164666 102164725 102164666 ID=cds.MsaT016789.1;Parent=MsaT016789.1
Chr3 exon 102165325 102165436 102165325 ID=MsaT016789.1.exon5;Parent=MsaT016789.1
Chr3 CDS 102165325 102165436 102165325 ID=cds.MsaT016789.1;Parent=MsaT016789.1
Chr3 exon 102165531 102165641 102165531 ID=MsaT016789.1.exon4;Parent=MsaT016789.1
Chr3 CDS 102165531 102165641 102165531 ID=cds.MsaT016789.1;Parent=MsaT016789.1
Chr3 exon 102167951 102168084 102167951 ID=MsaT016789.1.exon3;Parent=MsaT016789.1
Chr3 CDS 102167951 102168084 102167951 ID=cds.MsaT016789.1;Parent=MsaT016789.1
Chr3 exon 102168176 102168262 102168176 ID=MsaT016789.1.exon2;Parent=MsaT016789.1
Chr3 CDS 102168176 102168262 102168176 ID=cds.MsaT016789.1;Parent=MsaT016789.1
Chr3 exon 102170373 102170633 102170373 ID=MsaT016789.1.exon1;Parent=MsaT016789.1
Chr3 CDS 102170373 102170633 102170373 ID=cds.MsaT016789.1;Parent=MsaT016789.1
Gene Sequence

>MsaT016789.1

ATGGCGGAACAACCTCTTCCATCTGAGGATCCTGCAACAATTCCAGCTATTGATGACGACGACGACGATGAGGACTATACTGATGATGGTGATGATACTATGGATGAATTGGATGAAGAAACAAATGGTAATTCAGTGAACGTTGAAGGCACTTCAATTCCTGCAACTGCAACTGCAGCTGCAGCTGCAACACGTATTGGTGAACTCACTCTTTCTTTTGAAGGCGAGGTTTATGTCTTCCCCGATGTCACACATCAGAAGGTGCAAGCTGTTTTGCTGTTTTTGGGAGGAAGTGGTGCGCAGCCAGGCATGCCCACAGCTGAACTGCCATTTGATCAGAGTAACAGGGGCTTGGGCGGTATTGCAAAGATTCCAAATCTTTCACGAAGAATAGCCTCCTTGGTCAGGTACCGTGAAAAACGCAAGGAAAGATGTTTTGACAAGAAAATTAGATACTCCGTGAGAAAAGAGGTGGCAGAAAGGATGCATCGGGAAAAGGGGCAGTTTGCACCCTTGAAGCAAAGCCCTGGTTCCTCTAGTTGGAATTCAGCACAGGGTGCTGGTCAAGATGGCAGTCCTAATCCTGAATCTCTACGTAGATGTCAACATTGTGGAGTCAATGAAAATAATACTCCTGCAATGCGTCGCGGACCAGCTGGACCAAGAACTTTGTGCAATGCATGCGGCCTCATGTGGGCCAACAAGGGGACACTCAGAGATCTCAGTAAGGGTGGAAGAAATCTTCCTGTTGAGCAAAGTCGTCTGGACCCTCCTGTTGATGTCAAGCCAACTGTTCTTGAAGGGGAATTCTCTGTCATTGAAAATGAACAAGGTATTTCTGAAGAACCTTCCAAGACTGTTGGTGCGGAAGGTTTGAATGATCATGCATCAAACCCTGGTGATGAGGAATTGTCTGAATCTGCAGAACACCTAACAAAAACACTGCCATTGGTAATTTGTCATTCTTCGGAAAATGATGATGAGCAGGAACCCGTGGTCGAGCTTTCTAATCCTTCAGATGCAGGAATGTCTAATCCTTCAGATACAGATATTGACATTCCTGGAAACTTTGATTAG

Protein sequence

>MsaT016789.1

MAEQPLPSEDPATIPAIDDDDDDEDYTDDGDDTMDELDEETNGNSVNVEGTSIPATATAAAAATRIGELTLSFEGEVYVFPDVTHQKVQAVLLFLGGSGAQPGMPTAELPFDQSNRGLGGIAKIPNLSRRIASLVRYREKRKERCFDKKIRYSVRKEVAERMHREKGQFAPLKQSPGSSSWNSAQGAGQDGSPNPESLRRCQHCGVNENNTPAMRRGPAGPRTLCNACGLMWANKGTLRDLSKGGRNLPVEQSRLDPPVDVKPTVLEGEFSVIENEQGISEEPSKTVGAEGLNDHASNPGDEELSESAEHLTKTLPLVICHSSENDDEQEPVVELSNPSDAGMSNPSDTDIDIPGNFD*