AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004884

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004884 MtrunA17_Chr1g0201751 97.959 245 3 1 1 245 1 243 1.69e-173 478
MsaG004884 MtrunA17_Chr4g0051101 41.146 192 57 5 44 220 36 186 5.01e-25 98.6
MsaG004884 MtrunA17_Chr8g0355121 32.773 238 125 7 28 242 85 310 1.75e-17 80.9
MsaG004884 MtrunA17_Chr3g0080341 31.925 213 88 5 42 209 96 296 1.44e-16 78.2
MsaG004884 MtrunA17_Chr3g0133971 43.697 119 58 3 131 245 318 431 1.20e-15 76.3
MsaG004884 MtrunA17_Chr2g0321411 32.273 220 118 8 23 223 62 269 1.45e-15 75.1
MsaG004884 MtrunA17_Chr5g0440841 35.135 185 85 5 32 209 87 243 1.90e-14 71.6
MsaG004884 MtrunA17_Chr4g0044771 56.250 64 24 1 148 211 289 348 5.27e-13 68.2
MsaG004884 MtrunA17_Chr7g0254991 47.674 86 31 2 159 242 244 317 5.01e-12 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004884 AT5G44080.1 46.886 273 82 9 9 245 70 315 4.77e-66 208
MsaG004884 AT1G03970.1 49.351 231 85 7 22 245 65 270 6.62e-54 176
MsaG004884 AT2G36270.1 28.819 288 119 6 42 247 155 438 3.60e-16 78.2
MsaG004884 AT2G36270.2 28.819 288 119 6 42 247 155 438 3.60e-16 78.2
MsaG004884 AT1G45249.1 46.729 107 45 3 142 245 319 416 7.42e-16 77.4
MsaG004884 AT1G45249.7 46.729 107 45 3 142 245 334 431 1.03e-15 77.0
MsaG004884 AT1G45249.6 46.729 107 45 3 142 245 334 431 1.03e-15 77.0
MsaG004884 AT2G36270.3 49.474 95 45 2 126 220 321 412 1.88e-14 73.2
MsaG004884 AT3G56850.1 50.000 86 33 1 157 242 219 294 2.90e-14 71.6
MsaG004884 AT2G41070.4 33.175 211 104 8 42 242 85 268 3.32e-13 68.6
MsaG004884 AT2G41070.3 33.175 211 104 8 42 242 76 259 3.96e-13 68.2
MsaG004884 AT2G41070.1 33.175 211 104 8 42 242 76 259 3.96e-13 68.2
MsaG004884 AT2G41070.2 33.175 211 104 8 42 242 76 259 3.96e-13 68.2
MsaG004884 AT1G49720.1 45.361 97 48 2 151 245 299 392 4.62e-13 68.9
MsaG004884 AT1G49720.3 45.361 97 48 2 151 245 299 392 4.62e-13 68.9
MsaG004884 AT1G45249.3 42.373 118 45 4 142 245 319 427 5.54e-13 68.9
MsaG004884 AT3G19290.3 45.455 99 45 3 151 245 339 432 6.87e-13 68.6
MsaG004884 AT4G34000.1 53.125 64 30 0 159 222 368 431 1.60e-12 67.4
MsaG004884 AT4G34000.4 53.125 64 30 0 159 222 368 431 1.60e-12 67.4
MsaG004884 AT4G34000.2 53.125 64 30 0 159 222 368 431 1.60e-12 67.4
MsaG004884 AT3G19290.4 59.016 61 25 0 151 211 339 399 1.63e-12 67.4
MsaG004884 AT3G19290.1 59.016 61 25 0 151 211 339 399 1.91e-12 67.4
MsaG004884 AT3G19290.5 59.016 61 25 0 151 211 339 399 1.91e-12 67.4
MsaG004884 AT2G41070.5 33.889 180 92 6 42 211 76 238 2.25e-12 65.9
MsaG004884 AT4G34000.3 45.946 74 33 1 159 225 368 441 1.48e-11 64.7
MsaG004884 AT1G49720.2 55.738 61 27 0 151 211 299 359 4.51e-11 63.2
MsaG004884 AT3G44460.1 32.340 235 117 7 42 245 108 331 7.45e-11 62.0

Find 102 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGATGACGATTCCGTTAT+CGG 0.332969 1:-75084339 MsaT004884.1:CDS
TTATCCAATTGCTCCATAAC+AGG 0.338573 1:+75084158 None:intergenic
CAAGGAATTGAAAACGTTGA+TGG 0.345371 1:-75084272 MsaT004884.1:CDS
GATTTGATCGTCGAGGAAAT+TGG 0.346078 1:+75084544 None:intergenic
AACGTTGATGGGTCGGTGAT+AGG 0.356163 1:-75084260 MsaT004884.1:CDS
GATGGGTCGGTGATAGGGTT+TGG 0.356739 1:-75084254 MsaT004884.1:CDS
CGGTGATAGGGTTTGGGAAT+GGG 0.358384 1:-75084247 MsaT004884.1:CDS
GTGGAAATGGTTGAAGGTGG+GGG 0.368454 1:-75084200 MsaT004884.1:CDS
CTCGAACCGTCGACGATGTC+TGG 0.371504 1:-75084496 MsaT004884.1:CDS
ATGGGTCGGTGATAGGGTTT+GGG 0.380377 1:-75084253 MsaT004884.1:CDS
GGCCTTCGCTGCTCCACAAC+AGG 0.380747 1:+75080292 None:intergenic
TTAGGCTTATCAAGTGGAAT+TGG 0.384866 1:-75083830 MsaT004884.1:intron
GAAGAGAGGACGGCCTGTTA+TGG 0.389128 1:-75084171 MsaT004884.1:CDS
ATGGCAATGGGAATGTGAAT+GGG 0.390238 1:-75084223 MsaT004884.1:CDS
GGGGTGGAAATGGTTGAAGG+TGG 0.394857 1:-75084203 MsaT004884.1:CDS
TGTGCAGGCTGAGAGGAAAA+AGG 0.400339 1:-75082841 MsaT004884.1:intron
GGTGGAAATGGTTGAAGGTG+GGG 0.410518 1:-75084201 MsaT004884.1:CDS
GAGAATCTGCTGCTAGGTCT+AGG 0.414539 1:-75084097 MsaT004884.1:CDS
TGAGGATGAGGAGGAGGGTG+AGG 0.414838 1:-75084366 MsaT004884.1:CDS
TCGGTGATAGGGTTTGGGAA+TGG 0.430970 1:-75084248 MsaT004884.1:CDS
GAATGTGAATGGGGTGGAAA+TGG 0.432712 1:-75084213 MsaT004884.1:CDS
GCGGTGGTGAAATGAGGTTT+AGG 0.433317 1:+75084566 None:intergenic
AATGGCAATGGGAATGTGAA+TGG 0.440487 1:-75084224 MsaT004884.1:CDS
ACGGCCTGTTATGGAGCAAT+TGG 0.442422 1:-75084162 MsaT004884.1:CDS
TTGGGAATGGGAATGGCAAT+GGG 0.446748 1:-75084235 MsaT004884.1:CDS
TTTGGGAATGGGAATGGCAA+TGG 0.453383 1:-75084236 MsaT004884.1:CDS
CCACTGAGCGTCTCCGATAA+CGG 0.464675 1:+75084326 None:intergenic
TGCGGTTGAGGATGAGGAGG+AGG 0.464821 1:-75084372 MsaT004884.1:CDS
TGGAAATGGTTGAAGGTGGG+GGG 0.467922 1:-75084199 MsaT004884.1:CDS
ACGTTGATGGGTCGGTGATA+GGG 0.467935 1:-75084259 MsaT004884.1:CDS
TCAAGTGGAATTGGAGTCCT+TGG 0.472571 1:-75083821 MsaT004884.1:CDS
AGATGGAGAAGAAGGTGGAT+CGG 0.476558 1:+75084589 None:intergenic
GGGTGGAAATGGTTGAAGGT+GGG 0.482957 1:-75084202 MsaT004884.1:CDS
ATGTGCTAGTAGAGGGCAAA+GGG 0.484672 1:-75079961 MsaT004884.1:CDS
TGTGAAAGCTGGTGCGGTTG+AGG 0.485583 1:-75084384 MsaT004884.1:CDS
AAATTGGCGGTGGTGAAATG+AGG 0.489571 1:+75084560 None:intergenic
GGTTTAGGAGATGGAGAAGA+AGG 0.490179 1:+75084581 None:intergenic
AGCACATTTGCAGTCTGCAC+AGG 0.493719 1:+75079977 None:intergenic
TGACAAGTTGATGAAGGAAA+AGG 0.495815 1:-75083776 MsaT004884.1:intron
TAGGTCTAGGGAACGCAAGC+AGG 0.503430 1:-75084084 MsaT004884.1:intron
TCGAGGAGTGGCGACGGCGT+CGG 0.506745 1:+75084514 None:intergenic
GGAAAATGACAAGTTGATGA+AGG 0.507651 1:-75083782 MsaT004884.1:CDS
AGCTGGTGCGGTTGAGGATG+AGG 0.510481 1:-75084378 MsaT004884.1:CDS
ATAGGGTTTGGGAATGGGAA+TGG 0.514457 1:-75084242 MsaT004884.1:CDS
GCGATGTGATCTCCGGCGAT+AGG 0.515092 1:-75084457 MsaT004884.1:CDS
AATGGGGTGGAAATGGTTGA+AGG 0.515608 1:-75084206 MsaT004884.1:CDS
TTCTTTACACTCCCTATCGC+CGG 0.515808 1:+75084445 None:intergenic
GAGTGGCGACGGCGTCGGCG+AGG 0.520677 1:+75084519 None:intergenic
ATCGGAAGAAGGCATGAGCT+TGG 0.521805 1:+75084607 None:intergenic
AAGGAATTGAAAACGTTGAT+GGG 0.523079 1:-75084271 MsaT004884.1:CDS
CGATGTGATCTCCGGCGATA+GGG 0.523997 1:-75084456 MsaT004884.1:CDS
TCGGAGACGCTCAGTGGTAG+TGG 0.524000 1:-75084320 MsaT004884.1:CDS
GTCTGCACAGGGGTGAGACC+AGG 0.526399 1:+75079989 None:intergenic
GTCGCCGGCGATGTGATCTC+CGG 0.529993 1:-75084464 MsaT004884.1:CDS
GTGAAATGAGGTTTAGGAGA+TGG 0.530378 1:+75084572 None:intergenic
GAAGAAGGTGGATCGGAAGA+AGG 0.530586 1:+75084596 None:intergenic
TTAGGAGATGGAGAAGAAGG+TGG 0.530669 1:+75084584 None:intergenic
TAGATACAATGTAGGCATCC+TGG 0.531044 1:-75080007 MsaT004884.1:intron
TGGCAATGGGAATGTGAATG+GGG 0.531390 1:-75084222 MsaT004884.1:CDS
CTCCTCTAGCTTCACCGCCA+AGG 0.538630 1:+75083804 None:intergenic
GCCGCCACGGTTACTCCGTA+GGG 0.544674 1:-75080272 MsaT004884.1:CDS
GCGGTTGAGGATGAGGAGGA+GGG 0.553341 1:-75084371 MsaT004884.1:CDS
CGATGAGATGATGACGCTGG+AGG 0.560524 1:-75084414 MsaT004884.1:CDS
CATGAGCTTGGAAGAAGCCA+TGG 0.560742 1:+75084619 None:intergenic
AGAATCTGCTGCTAGGTCTA+GGG 0.563610 1:-75084096 MsaT004884.1:CDS
TTCCTGTTGTGGAGCAGCGA+AGG 0.563922 1:-75080294 MsaT004884.1:CDS
GGCCGCCACGGTTACTCCGT+AGG 0.566727 1:-75080273 MsaT004884.1:CDS
ATCGTCGAGGAAATTGGCGG+TGG 0.569885 1:+75084550 None:intergenic
AGAATAGAGAATCTGCTGCT+AGG 0.572500 1:-75084103 MsaT004884.1:CDS
CTCCAGCGTCATCATCTCAT+CGG 0.572527 1:+75084415 None:intergenic
AGTGGCGACGGCGTCGGCGA+GGG 0.573280 1:+75084520 None:intergenic
ATCGTCGACGGTTCGAGGAG+TGG 0.573362 1:+75084502 None:intergenic
CAGACATCGTCGACGGTTCG+AGG 0.576404 1:+75084497 None:intergenic
GCACATTTGCAGTCTGCACA+GGG 0.576824 1:+75079978 None:intergenic
GACTGCAAATGTGCTAGTAG+AGG 0.577729 1:-75079969 MsaT004884.1:CDS
GACGGTTCGAGGAGTGGCGA+CGG 0.580962 1:+75084508 None:intergenic
AATTGAAAACGTTGATGGGT+CGG 0.585668 1:-75084267 MsaT004884.1:CDS
GTCTGGCGAGAGATCGTCGC+CGG 0.590254 1:-75084479 MsaT004884.1:CDS
AAGCTGCTCAGCAGAGACAG+AGG 0.593315 1:-75084136 MsaT004884.1:CDS
TTGATCGTCGAGGAAATTGG+CGG 0.607652 1:+75084547 None:intergenic
ACTGCAAATGTGCTAGTAGA+GGG 0.608591 1:-75079968 MsaT004884.1:CDS
ATCGCCGGAGATCACATCGC+CGG 0.608850 1:+75084460 None:intergenic
TTCCGATGAGATGATGACGC+TGG 0.609887 1:-75084417 MsaT004884.1:CDS
CTCTCGCCAGACATCGTCGA+CGG 0.611545 1:+75084490 None:intergenic
CAATGGGAATGTGAATGGGG+TGG 0.612710 1:-75084219 MsaT004884.1:CDS
TGGAGCAGCGAAGGCCGCCA+CGG 0.612735 1:-75080285 MsaT004884.1:CDS
GTAGGGTTCGCTCCTTGCAG+TGG 0.618144 1:-75080255 MsaT004884.1:intron
AGTGGAATTGGAGTCCTTGG+CGG 0.619638 1:-75083818 MsaT004884.1:CDS
GTCCTTGGCGGTGAAGCTAG+AGG 0.622234 1:-75083806 MsaT004884.1:CDS
CCGTTATCGGAGACGCTCAG+TGG 0.634758 1:-75084326 MsaT004884.1:CDS
ATATTCTTGTGCAGGCTGAG+AGG 0.635094 1:-75082848 MsaT004884.1:intron
AATGTGCTAGTAGAGGGCAA+AGG 0.636434 1:-75079962 MsaT004884.1:CDS
AAATATGATCTACCACTGCA+AGG 0.655779 1:+75080243 None:intergenic
TGGTGCGGTTGAGGATGAGG+AGG 0.665882 1:-75084375 MsaT004884.1:CDS
CGAGGGAGATTTGATCGTCG+AGG 0.673387 1:+75084537 None:intergenic
ACTGCAAGGAGCGAACCCTA+CGG 0.673999 1:+75080257 None:intergenic
ACGACTATATGATGTAGTCA+CGG 0.675264 1:-75079930 MsaT004884.1:CDS
CTTGGCGGTGAAGCTAGAGG+AGG 0.703301 1:-75083803 MsaT004884.1:CDS
CGAACCCTACGGAGTAACCG+TGG 0.709737 1:+75080268 None:intergenic
TGTGCTAGTAGAGGGCAAAG+GGG 0.714313 1:-75079960 MsaT004884.1:CDS
CACATTTGCAGTCTGCACAG+GGG 0.730816 1:+75079979 None:intergenic
ACCCTACGGAGTAACCGTGG+CGG 0.761547 1:+75080271 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 75079925 75084639 75079925 ID=MsaG004884
Chr1 mRNA 75079925 75084639 75079925 ID=MsaT004884.1;Parent=MsaG004884
Chr1 exon 75079925 75080015 75079925 ID=MsaT004884.1.exon5;Parent=MsaT004884.1
Chr1 CDS 75079925 75080015 75079925 ID=cds.MsaT004884.1;Parent=MsaT004884.1
Chr1 exon 75080256 75080332 75080256 ID=MsaT004884.1.exon4;Parent=MsaT004884.1
Chr1 CDS 75080256 75080332 75080256 ID=cds.MsaT004884.1;Parent=MsaT004884.1
Chr1 exon 75082827 75082856 75082827 ID=MsaT004884.1.exon3;Parent=MsaT004884.1
Chr1 CDS 75082827 75082856 75082827 ID=cds.MsaT004884.1;Parent=MsaT004884.1
Chr1 exon 75083777 75083848 75083777 ID=MsaT004884.1.exon2;Parent=MsaT004884.1
Chr1 CDS 75083777 75083848 75083777 ID=cds.MsaT004884.1;Parent=MsaT004884.1
Chr1 exon 75084085 75084639 75084085 ID=MsaT004884.1.exon1;Parent=MsaT004884.1
Chr1 CDS 75084085 75084639 75084085 ID=cds.MsaT004884.1;Parent=MsaT004884.1
Gene Sequence

>MsaT004884.1

ATGGCTTCTTCCAAGCTCATGCCTTCTTCCGATCCACCTTCTTCTCCATCTCCTAAACCTCATTTCACCACCGCCAATTTCCTCGACGATCAAATCTCCCTCGCCGACGCCGTCGCCACTCCTCGAACCGTCGACGATGTCTGGCGAGAGATCGTCGCCGGCGATGTGATCTCCGGCGATAGGGAGTGTAAAGAAGAGATTTCCGATGAGATGATGACGCTGGAGGATTTTCTTGTGAAAGCTGGTGCGGTTGAGGATGAGGAGGAGGGTGAGGATGTGAAGATGACGATTCCGTTATCGGAGACGCTCAGTGGTAGTGGTATGTTTTCGTTGGATTCGAGTTTTCAAGGAATTGAAAACGTTGATGGGTCGGTGATAGGGTTTGGGAATGGGAATGGCAATGGGAATGTGAATGGGGTGGAAATGGTTGAAGGTGGGGGGAGGGGGAAGAGAGGACGGCCTGTTATGGAGCAATTGGATAAAGCTGCTCAGCAGAGACAGAGGAGAATGATTAAGAATAGAGAATCTGCTGCTAGGTCTAGGGAACGCAAGCAGGCTTATCAAGTGGAATTGGAGTCCTTGGCGGTGAAGCTAGAGGAGGAAAATGACAAGTTGATGAAGGAAAAGGCTGAGAGGAAAAAGGAGAGGTTCAAGCAGCTTATGGAAAAAGTGATTCCTGTTGTGGAGCAGCGAAGGCCGCCACGGTTACTCCGTAGGGTTCGCTCCTTGCAGTGGCATCCTGGTCTCACCCCTGTGCAGACTGCAAATGTGCTAGTAGAGGGCAAAGGGGATTGTAGACGACTATATGATGTAGTCACGGTTTAG
Protein sequence

>MsaT004884.1

MASSKLMPSSDPPSSPSPKPHFTTANFLDDQISLADAVATPRTVDDVWREIVAGDVISGDRECKEEISDEMMTLEDFLVKAGAVEDEEEGEDVKMTIPLSETLSGSGMFSLDSSFQGIENVDGSVIGFGNGNGNGNVNGVEMVEGGGRGKRGRPVMEQLDKAAQQRQRRMIKNRESAARSRERKQAYQVELESLAVKLEEENDKLMKEKAERKKERFKQLMEKVIPVVEQRRPPRLLRRVRSLQWHPGLTPVQTANVLVEGKGDCRRLYDVVTV*