AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040735

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040735 MtrunA17_Chr7g0274141 97.442 391 8 2 1 391 1 389 0.0 771
MsaG040735 MtrunA17_Chr1g0190761 56.543 405 153 10 1 387 1 400 2.40e-131 383
MsaG040735 MtrunA17_Chr3g0139301 52.899 138 58 3 151 281 76 213 4.53e-31 120
MsaG040735 MtrunA17_Chr1g0147491 58.333 120 45 2 170 286 142 259 2.94e-25 105
MsaG040735 MtrunA17_Chr3g0139571 58.904 73 30 0 196 268 2 74 2.80e-17 76.3
MsaG040735 MtrunA17_Chr4g0035414 40.000 115 59 1 173 287 17 121 2.76e-16 75.9
MsaG040735 MtrunA17_Chr3g0144941 39.785 93 56 0 193 285 27 119 1.09e-14 71.2
MsaG040735 MtrunA17_Chr8g0341311 40.816 98 53 1 171 268 54 146 5.89e-14 69.7
MsaG040735 MtrunA17_Chr7g0225661 40.816 98 53 1 171 268 64 156 8.76e-14 69.7
MsaG040735 MtrunA17_Chr8g0378901 35.238 105 68 0 181 285 20 124 9.40e-14 68.6
MsaG040735 MtrunA17_Chr6g0456061 47.297 74 39 0 196 269 90 163 6.42e-13 67.4
MsaG040735 MtrunA17_Chr1g0155551 29.747 158 88 3 165 309 9 156 1.88e-12 65.1
MsaG040735 MtrunA17_Chr7g0220571 42.857 91 44 1 178 268 77 159 3.33e-11 62.0
MsaG040735 MtrunA17_Chr4g0054291 32.895 152 87 5 121 268 7 147 7.72e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040735 AT5G28770.2 45.501 389 127 14 1 384 1 309 5.61e-72 228
MsaG040735 AT5G28770.1 45.195 385 127 14 1 384 1 302 7.86e-68 217
MsaG040735 AT5G28770.3 47.810 274 90 9 1 269 1 226 2.01e-53 178
MsaG040735 AT4G02640.3 37.615 327 147 8 1 285 1 312 1.98e-39 145
MsaG040735 AT4G02640.2 37.615 327 147 8 1 285 1 312 2.34e-39 145
MsaG040735 AT4G02640.4 37.072 321 151 7 1 285 1 306 6.19e-39 144
MsaG040735 AT4G02640.1 37.072 321 151 7 1 285 1 306 6.77e-39 144
MsaG040735 AT3G54620.1 34.293 382 162 14 1 325 1 350 1.67e-37 140
MsaG040735 AT5G24800.1 55.814 129 47 4 158 277 76 203 7.64e-35 130
MsaG040735 AT5G28770.4 43.404 235 80 9 1 230 1 187 6.58e-31 118
MsaG040735 AT3G54620.3 32.723 382 151 16 1 325 1 333 2.33e-25 106
MsaG040735 AT3G30530.1 39.796 98 56 1 171 268 59 153 5.45e-13 67.4
MsaG040735 AT2G04038.1 42.857 98 51 1 171 268 54 146 8.86e-13 66.2
MsaG040735 AT1G75390.1 37.963 108 62 1 194 301 39 141 1.03e-12 66.2
MsaG040735 AT2G18160.1 39.759 83 50 0 193 275 28 110 1.87e-12 65.5
MsaG040735 AT1G13600.1 38.776 98 54 1 171 268 67 158 2.04e-11 63.2
MsaG040735 AT5G15830.1 45.545 101 44 4 170 268 55 146 9.79e-11 60.8

Find 80 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGCTTCCCGATCTATTAT+TGG 0.211521 7:-103372340 None:intergenic
CTTTCAGGATGCTCTCTAAT+AGG 0.224164 7:+103371449 MsaT040735.1:intron
TATGTAGAATGCGGCCCTTC+TGG 0.245369 7:+103370893 MsaT040735.1:intron
CTGAAATAACGGAGCAATAT+TGG 0.250912 7:+103369618 MsaT040735.1:CDS
TATTGATTCTGAGGATTATC+AGG 0.285549 7:+103369838 MsaT040735.1:CDS
ATTGTAACAGCAGGTTTCTT+TGG 0.288769 7:-103370977 None:intergenic
GAGACAGTTAAAAGATTTAC+TGG 0.291659 7:+103372141 MsaT040735.1:CDS
CTCATGGCAATAGGGATCTT+TGG 0.341962 7:+103370662 MsaT040735.1:intron
CCATCTTATCCTTCTGAACT+TGG 0.355060 7:+103370717 MsaT040735.1:CDS
CCTGCCACGGGTGGCTAGCT+TGG 0.382757 7:+103372431 MsaT040735.1:CDS
AAGATATCAAAGTTGCTGTT+GGG 0.385646 7:+103370942 MsaT040735.1:CDS
GACATTAGATTATTAGATAA+GGG 0.396715 7:-103372297 None:intergenic
TTTCAGGATGCTCTCTAATA+GGG 0.402739 7:+103371450 MsaT040735.1:intron
TCCTTCTGAACTTGGACCTC+TGG 0.404582 7:+103370725 MsaT040735.1:CDS
ATTCTATCACTTGTCTTCTT+CGG 0.406886 7:-103372484 None:intergenic
TATTAGGTCTCTGAATTAAG+AGG 0.422615 7:+103371640 MsaT040735.1:intron
CCAAGCTAGCCACCCGTGGC+AGG 0.428000 7:-103372431 None:intergenic
GTTGAAGTTGAAGATGAAGA+AGG 0.442163 7:-103369767 None:intergenic
GCAGCAGGTGGGAACAAGAT+AGG 0.452428 7:+103372396 MsaT040735.1:CDS
ATGGGAATGTCATTATTTGA+TGG 0.455802 7:+103372204 MsaT040735.1:CDS
GATGGCTGTGATCCATTGTC+AGG 0.464580 7:-103370699 None:intergenic
GAGATACAACAAAGATGAAT+CGG 0.465070 7:+103369666 MsaT040735.1:CDS
GGGATCTTTGGTCAAATCTC+AGG 0.465850 7:+103370674 MsaT040735.1:intron
GGACATTAGATTATTAGATA+AGG 0.466925 7:-103372298 None:intergenic
AAAGATATCAAAGTTGCTGT+TGG 0.482051 7:+103370941 MsaT040735.1:CDS
GAGGGAGAGATTAATATGAA+TGG 0.483459 7:+103371040 MsaT040735.1:CDS
GGACCTCTGGCTACTTTGAA+AGG 0.489971 7:+103370738 MsaT040735.1:CDS
AATGTCTGAGGTATCATCAA+TGG 0.491343 7:+103372185 MsaT040735.1:CDS
GGCGCAAGCAAGATCAAGCT+TGG 0.492090 7:-103369873 None:intergenic
GTTATCAATTGCTGAAATAA+CGG 0.504761 7:+103369607 MsaT040735.1:CDS
GCAGGTTTCTTTGGCATGCA+AGG 0.507308 7:-103370968 None:intergenic
ATGTCTGAGGTATCATCAAT+GGG 0.509553 7:+103372186 MsaT040735.1:CDS
TTATTTGGATCTTCTTGCAC+AGG 0.510884 7:-103372261 None:intergenic
AGAGGAGCCAATAATAGATC+GGG 0.512572 7:+103372333 MsaT040735.1:CDS
CAGAAGAACACCGCAGCAGG+TGG 0.514294 7:+103372384 MsaT040735.1:CDS
GCGCCGCCGTCGCTAAGTCG+AGG 0.516197 7:+103369891 MsaT040735.1:CDS
CGCCGCCGTCGCTAAGTCGA+GGG 0.517985 7:+103369892 MsaT040735.1:CDS
GAGAGGAGCCAATAATAGAT+CGG 0.524926 7:+103372332 MsaT040735.1:CDS
GTTGACTTCGAAAGCGTGCA+AGG 0.526678 7:+103369640 MsaT040735.1:CDS
GAATCGGAGTGATTCAGAAT+GGG 0.529997 7:+103369682 MsaT040735.1:CDS
GGCTCCTCTCATATCATGAC+TGG 0.535600 7:-103372319 None:intergenic
GTGCAGAAGAACACCGCAGC+AGG 0.536590 7:+103372381 MsaT040735.1:CDS
CCAAGTTCAGAAGGATAAGA+TGG 0.536978 7:-103370717 None:intergenic
CAATAATAGTATTGATTCTG+AGG 0.537078 7:+103369829 MsaT040735.1:CDS
AGATATCAAAGTTGCTGTTG+GGG 0.538293 7:+103370943 MsaT040735.1:CDS
ACAATCAAGTCAACAACAAG+TGG 0.544242 7:+103370995 MsaT040735.1:CDS
TGAATCGGAGTGATTCAGAA+TGG 0.545437 7:+103369681 MsaT040735.1:CDS
GCCAGAGGTCCAAGTTCAGA+AGG 0.550767 7:-103370726 None:intergenic
CATCTTCAGAGTCGAATTCG+TGG 0.551475 7:+103372456 MsaT040735.1:CDS
AACAAATTCCCTGCCACGGG+TGG 0.555330 7:+103372422 MsaT040735.1:CDS
AAGATTTACTGGATCGAACC+CGG 0.558877 7:+103372152 MsaT040735.1:CDS
CAAGCTAGCCACCCGTGGCA+GGG 0.562427 7:-103372430 None:intergenic
TCTTCGTCTTGAGCGTCTAG+CGG 0.573008 7:-103371476 None:intergenic
CAGACATTGCATTAAACACC+GGG 0.574406 7:-103372170 None:intergenic
TAGATGGATCGTTTCCAGAA+GGG 0.575636 7:-103370907 None:intergenic
ATCAGACGATGAGGAAGCTG+AGG 0.576946 7:+103371021 MsaT040735.1:CDS
TTTAACTGAGCTTGAAACAC+AGG 0.587276 7:+103371510 MsaT040735.1:CDS
GTTGACTTGATTGTAACAGC+AGG 0.587759 7:-103370986 None:intergenic
ACGAACAAATTCCCTGCCAC+GGG 0.590000 7:+103372419 MsaT040735.1:CDS
TTAGATGGATCGTTTCCAGA+AGG 0.592645 7:-103370908 None:intergenic
ACTTCGAAAGCGTGCAAGGG+AGG 0.597046 7:+103369644 MsaT040735.1:CDS
TCAGACATTGCATTAAACAC+CGG 0.598502 7:-103372171 None:intergenic
AAATCTCAGGATCCTGACAA+TGG 0.601386 7:+103370687 MsaT040735.1:CDS
GACGAACAAATTCCCTGCCA+CGG 0.607260 7:+103372418 MsaT040735.1:CDS
TGTTGAAACATTAAGAGCAA+AGG 0.611502 7:+103371750 MsaT040735.1:CDS
TATCTTGTTCCCACCTGCTG+CGG 0.616019 7:-103372394 None:intergenic
GCATCAGCTGATGACTCAGA+AGG 0.620005 7:-103372231 None:intergenic
TTGACTTCGAAAGCGTGCAA+GGG 0.621528 7:+103369641 MsaT040735.1:CDS
CTGATGCAAAACGAGTAAGA+AGG 0.628581 7:+103371074 MsaT040735.1:CDS
TTTGAGATTGACATCAACGG+TGG 0.645017 7:-103369804 None:intergenic
TCAGACGATGAGGAAGCTGA+GGG 0.659901 7:+103371022 MsaT040735.1:CDS
ATGTCCAGTCATGATATGAG+AGG 0.664118 7:+103372315 MsaT040735.1:CDS
GGTGTTTAATGCAATGTCTG+AGG 0.664829 7:+103372173 MsaT040735.1:CDS
AGAAGAACACCGCAGCAGGT+GGG 0.666761 7:+103372385 MsaT040735.1:CDS
AAGTGGATCATCAGACGATG+AGG 0.668470 7:+103371012 MsaT040735.1:CDS
TGTTCCAAGCTAGCCACCCG+TGG 0.670248 7:-103372435 None:intergenic
TACCCTCGACTTAGCGACGG+CGG 0.681240 7:-103369894 None:intergenic
AAACCTTTCAAAGTAGCCAG+AGG 0.696494 7:-103370741 None:intergenic
ATATACCCTCGACTTAGCGA+CGG 0.708838 7:-103369897 None:intergenic
CTTCAGAGTCGAATTCGTGG+TGG 0.718456 7:+103372459 MsaT040735.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 103369596 103372500 103369596 ID=MsaG040735
Chr7 mRNA 103369596 103372500 103369596 ID=MsaT040735.1;Parent=MsaG040735
Chr7 exon 103369596 103369913 103369596 ID=MsaT040735.1.exon1;Parent=MsaT040735.1
Chr7 CDS 103369596 103369913 103369596 ID=cds.MsaT040735.1;Parent=MsaT040735.1
Chr7 exon 103370675 103370759 103370675 ID=MsaT040735.1.exon2;Parent=MsaT040735.1
Chr7 CDS 103370675 103370759 103370675 ID=cds.MsaT040735.1;Parent=MsaT040735.1
Chr7 exon 103370900 103371095 103370900 ID=MsaT040735.1.exon3;Parent=MsaT040735.1
Chr7 CDS 103370900 103371095 103370900 ID=cds.MsaT040735.1;Parent=MsaT040735.1
Chr7 exon 103371456 103371531 103371456 ID=MsaT040735.1.exon4;Parent=MsaT040735.1
Chr7 CDS 103371456 103371531 103371456 ID=cds.MsaT040735.1;Parent=MsaT040735.1
Chr7 exon 103371646 103371771 103371646 ID=MsaT040735.1.exon5;Parent=MsaT040735.1
Chr7 CDS 103371646 103371771 103371646 ID=cds.MsaT040735.1;Parent=MsaT040735.1
Chr7 exon 103372126 103372500 103372126 ID=MsaT040735.1.exon6;Parent=MsaT040735.1
Chr7 CDS 103372126 103372500 103372126 ID=cds.MsaT040735.1;Parent=MsaT040735.1
Gene Sequence

>MsaT040735.1

ATGGAAAGAGTGTTATCAATTGCTGAAATAACGGAGCAATATTGGTTGACTTCGAAAGCGTGCAAGGGAGGAGATACAACAAAGATGAATCGGAGTGATTCAGAATGGGCTTTCCAAAAGTTTTTACGTGAACAACAAGCTGCTGAAGAAGCAGAAGCTGCTACTGCAAAGCCTTCTTCATCTTCAACTTCAACTTCAACTTCTTCTTCCACCGTTGATGTCAATCTCAAAATCAATAATAGTATTGATTCTGAGGATTATCAGGCTCTTCTCAAGACCAAGCTTGATCTTGCTTGCGCCGCCGTCGCTAAGTCGAGGGGATCTTTGGTCAAATCTCAGGATCCTGACAATGGATCACAGCCATCTTATCCTTCTGAACTTGGACCTCTGGCTACTTTGAAAGAATGCGGCCCTTCTGGAAACGATCCATCTAAATTACAAAATAAAGATATCAAAGTTGCTGTTGGGGTTCCTTGCATGCCAAAGAAACCTGCTGTTACAATCAAGTCAACAACAAGTGGATCATCAGACGATGAGGAAGCTGAGGGAGAGATTAATATGAATGGAGACAACCCTACTGATGCAAAACGAGTAAGAAGGATGCTCTCTAATAGGGAATCCGCTAGACGCTCAAGACGAAGAAAGCAAGCTCATTTAACTGAGCTTGAAACACAGGTCTCTGAATTAAGAGGTGAAAATTCTTCATTGTTAAAGCGTTTAACAGATGTGACCCAAAAATTCAACAATTCTGCTGTTGACAACAGAATATTAAAAGCTGATGTTGAAACATTAAGAGCAAAGGTGAAGATGGCTGAAGAGACAGTTAAAAGATTTACTGGATCGAACCCGGTGTTTAATGCAATGTCTGAGGTATCATCAATGGGAATGTCATTATTTGATGGAAGTCCTTCTGAGTCATCAGCTGATGCATCTGTGCCTGTGCAAGAAGATCCAAATAATCACTTTTTTCAACCCTTATCTAATAATCTAATGTCCAGTCATGATATGAGAGGAGCCAATAATAGATCGGGAAGCATTATTTCTTCAGCTGAAAGTGTGCAGAAGAACACCGCAGCAGGTGGGAACAAGATAGGACGAACAAATTCCCTGCCACGGGTGGCTAGCTTGGAACATCTTCAGAGTCGAATTCGTGGTGGTGCCGAAGAAGACAAGTGA
Protein sequence

>MsaT040735.1

MERVLSIAEITEQYWLTSKACKGGDTTKMNRSDSEWAFQKFLREQQAAEEAEAATAKPSSSSTSTSTSSSTVDVNLKINNSIDSEDYQALLKTKLDLACAAVAKSRGSLVKSQDPDNGSQPSYPSELGPLATLKECGPSGNDPSKLQNKDIKVAVGVPCMPKKPAVTIKSTTSGSSDDEEAEGEINMNGDNPTDAKRVRRMLSNRESARRSRRRKQAHLTELETQVSELRGENSSLLKRLTDVTQKFNNSAVDNRILKADVETLRAKVKMAEETVKRFTGSNPVFNAMSEVSSMGMSLFDGSPSESSADASVPVQEDPNNHFFQPLSNNLMSSHDMRGANNRSGSIISSAESVQKNTAAGGNKIGRTNSLPRVASLEHLQSRIRGGAEEDK*