AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002188

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002188 MtrunA17_Chr6g0476171 76.829 246 52 3 126 368 2 245 1.65e-134 384
MsaG002188 MtrunA17_Chr1g0163201 32.021 381 205 9 35 368 19 392 1.89e-49 171
MsaG002188 MtrunA17_Chr1g0163181 29.078 423 211 10 28 368 14 429 5.73e-47 165
MsaG002188 MtrunA17_Chr1g0163131 34.069 317 137 11 1 256 1 306 4.91e-44 154
MsaG002188 MtrunA17_Chr1g0163131 43.182 88 48 1 281 368 221 306 1.08e-14 73.9
MsaG002188 MtrunA17_Chr1g0163151 39.269 219 126 5 150 368 10 221 1.22e-43 150
MsaG002188 MtrunA17_Chr1g0163261 36.824 296 131 11 19 268 9 294 5.12e-42 149
MsaG002188 MtrunA17_Chr1g0163111 39.462 223 120 8 155 368 12 228 6.86e-40 141
MsaG002188 MtrunA17_Chr1g0163101 45.783 166 42 3 6 125 6 169 2.63e-38 135
MsaG002188 MtrunA17_Chr1g0163231 35.971 278 120 8 23 255 13 277 9.77e-38 137
MsaG002188 MtrunA17_Chr1g0162151 38.426 216 95 7 158 367 23 206 2.52e-36 131
MsaG002188 MtrunA17_Chr1g0171611 32.283 254 150 4 23 255 13 265 2.26e-35 130
MsaG002188 MtrunA17_Chr6g0476181 47.368 152 20 2 34 125 1 152 1.52e-33 122
MsaG002188 MtrunA17_Chr1g0163251 34.276 283 139 8 28 268 14 291 2.73e-33 127
MsaG002188 MtrunA17_Chr1g0163091 42.012 169 90 7 138 304 2 164 1.74e-28 108
MsaG002188 MtrunA17_Chr1g0162161 45.000 140 29 3 34 125 3 142 3.07e-27 105
MsaG002188 MtrunA17_Chr1g0163141 93.750 48 3 0 31 78 7 54 1.35e-26 104
MsaG002188 MtrunA17_Chr1g0163141 87.234 47 6 0 79 125 122 168 3.28e-19 84.3
MsaG002188 MtrunA17_Chr1g0163121 73.913 46 12 0 33 78 9 54 2.50e-18 80.9
MsaG002188 MtrunA17_Chr7g0233531 25.926 270 151 8 34 259 1 265 3.62e-18 83.6
MsaG002188 MtrunA17_Chr1g0163081 75.556 45 11 0 34 78 5 49 9.69e-18 79.3
MsaG002188 MtrunA17_Chr7g0233521 26.316 266 155 7 34 259 1 265 4.32e-15 74.7
MsaG002188 MtrunA17_Chr5g0419211 35.870 92 58 1 177 268 11 101 3.85e-13 65.5
MsaG002188 MtrunA17_Chr1g0163221 23.171 246 140 7 113 357 151 348 3.97e-13 69.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 73 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGACCCATTTGGAAGTTTA+AGG 0.139491 1:+33619271 None:intergenic
GAATTTACATGAGATGTTTA+AGG 0.185675 1:-33616047 MsaT002188.1:CDS
TTTGGAAGTTTAAGGGATAT+TGG 0.281020 1:+33619279 None:intergenic
TGCAACGCGGTGATGGTATT+TGG 0.284893 1:-33619230 MsaT002188.1:CDS
CTCCAGGCCTGGTTCCTTTG+TGG 0.324562 1:+33617789 None:intergenic
AGTTTAAGGGATATTGGATT+TGG 0.337634 1:+33619285 None:intergenic
GGCCTGGTTCCTTTGTGGTT+GGG 0.360014 1:+33617794 None:intergenic
GGAATTTCGTAGAGAGGTAT+TGG 0.365580 1:-33619317 MsaT002188.1:CDS
TTATCACCTTCAACATGATA+TGG 0.368518 1:+33618452 None:intergenic
AAGAAGCATGGTATATTTAG+TGG 0.374789 1:-33615891 MsaT002188.1:CDS
AGGCCTGGTTCCTTTGTGGT+TGG 0.376846 1:+33617793 None:intergenic
ATGGTATTTGGCTTCAGAAT+TGG 0.387348 1:-33619218 MsaT002188.1:CDS
TATAATGAACATCTCGACTA+TGG 0.388378 1:-33615816 MsaT002188.1:CDS
GGTCAGCATGCAAAATGAAT+TGG 0.396575 1:-33619254 MsaT002188.1:CDS
TGACCCATTTGGAAGTTTAA+GGG 0.399923 1:+33619272 None:intergenic
ATTCAGTGGAGTTGAGAGTA+GGG 0.448522 1:-33615866 MsaT002188.1:CDS
ATATCCCTTAAACTTCCAAA+TGG 0.449227 1:-33619276 MsaT002188.1:CDS
TGGAGACACTTGCTTGTTTG+AGG 0.451137 1:-33615742 MsaT002188.1:CDS
TTAGAAGTGTTGGTGAGGAC+AGG 0.455257 1:-33617975 MsaT002188.1:CDS
AACCACAAAGGAACCAGGCC+TGG 0.458200 1:-33617791 MsaT002188.1:CDS
TGCTTCTTCAACAGCTCACT+TGG 0.461685 1:+33615906 None:intergenic
ATAGTAATTGTGAATGAAAG+TGG 0.468831 1:+33617820 None:intergenic
CCTTGAAACTTCTCCAGGCC+TGG 0.474173 1:+33617778 None:intergenic
GACTATGGTTGGTTCACTAA+AGG 0.474605 1:-33615801 MsaT002188.1:CDS
TACCTCTCTACGAAATTCCT+TGG 0.476007 1:+33619321 None:intergenic
AAGGAACATGAGTTGAAAGT+TGG 0.478819 1:-33617877 MsaT002188.1:CDS
TGAGAGTAGGGGAAGGAACA+TGG 0.483751 1:-33615854 MsaT002188.1:CDS
TTATCGCCATATCATGTTGA+AGG 0.488274 1:-33618458 MsaT002188.1:CDS
AATAGCAATGCCATTTGAGT+TGG 0.499962 1:+33618951 None:intergenic
AGTGAAACTAGGACTCTCAT+TGG 0.512039 1:+33618487 None:intergenic
TTCGAAAACCAACTAGGTAT+CGG 0.513588 1:+33618036 None:intergenic
CAATACCTTGAAACTTCTCC+AGG 0.515419 1:+33617773 None:intergenic
AGAGATTGCAAAGTAAAGAC+TGG 0.515563 1:-33615762 MsaT002188.1:CDS
AATTCAGTGGAGTTGAGAGT+AGG 0.518002 1:-33615867 MsaT002188.1:CDS
TAATGGAAACACAGGAGGCA+TGG 0.520474 1:-33618567 MsaT002188.1:CDS
TGTTGAAGGTGATAATAGAT+TGG 0.520882 1:-33618444 MsaT002188.1:intron
TATCCCTTAAACTTCCAAAT+GGG 0.521322 1:-33619275 MsaT002188.1:CDS
TGTGCAAAATCATGTGTTCA+AGG 0.521657 1:-33615712 MsaT002188.1:CDS
TATTCTTTCGAAAACCAACT+AGG 0.522446 1:+33618030 None:intergenic
CCAGGCCTGGAGAAGTTTCA+AGG 0.523708 1:-33617778 MsaT002188.1:intron
TTCAGTGGAGTTGAGAGTAG+GGG 0.529294 1:-33615865 MsaT002188.1:CDS
ATTACTGCTGCTACACCTCA+AGG 0.536881 1:-33618931 MsaT002188.1:CDS
TGAAACAGCCGATACCTAGT+TGG 0.537742 1:-33618044 MsaT002188.1:intron
AAGGCAACAATTAGAAGTGT+TGG 0.542696 1:-33617985 MsaT002188.1:CDS
AATGGAAACACAGGAGGCAT+GGG 0.543418 1:-33618566 MsaT002188.1:CDS
TACATGAATGAGTTATTGCA+AGG 0.543984 1:-33618009 MsaT002188.1:CDS
ATGAACATCTCGACTATGGT+TGG 0.544359 1:-33615812 MsaT002188.1:CDS
GTCAGCATGCAAAATGAATT+GGG 0.544595 1:-33619253 MsaT002188.1:CDS
GTGAAACTAGGACTCTCATT+GGG 0.547777 1:+33618488 None:intergenic
TATATTTAGTGGAAATTCAG+TGG 0.549056 1:-33615880 MsaT002188.1:CDS
TAGAAGTGTTGGTGAGGACA+GGG 0.562489 1:-33617974 MsaT002188.1:CDS
TTTGGCTTCAGAATTGGAAG+AGG 0.566576 1:-33619212 MsaT002188.1:intron
GATAATTTGACAGTGAAACT+AGG 0.566923 1:+33618476 None:intergenic
ATGGTTGGTTCACTAAAGGT+TGG 0.573713 1:-33615797 MsaT002188.1:CDS
ATCCCAACCACAAAGGAACC+AGG 0.573957 1:-33617796 MsaT002188.1:CDS
TTGTGAATGTTAGTCCCTTG+AGG 0.580089 1:+33618916 None:intergenic
AATTGGGTGCAACGCGGTGA+TGG 0.587564 1:-33619237 MsaT002188.1:CDS
GCAGAGGCTAATGGAAACAC+AGG 0.596384 1:-33618575 MsaT002188.1:intron
AACAATTAGAAGTGTTGGTG+AGG 0.601806 1:-33617980 MsaT002188.1:CDS
TTCCAAGGAATTTCGTAGAG+AGG 0.604264 1:-33619323 MsaT002188.1:CDS
TGTGCCTGCAGATGATTCCA+AGG 0.610321 1:-33619338 MsaT002188.1:intron
GAGCGTGGTAGTGAAGCTAA+AGG 0.613987 1:-33620235 MsaT002188.1:CDS
AGTGAGCTGTTGAAGAAGCA+TGG 0.617628 1:-33615903 MsaT002188.1:CDS
TACTATTATCCCAACCACAA+AGG 0.624953 1:-33617803 MsaT002188.1:CDS
GTGTTGGTGAGGACAGGGCA+TGG 0.626789 1:-33617969 MsaT002188.1:CDS
GAATGAGTTATTGCAAGGGA+AGG 0.643476 1:-33618004 MsaT002188.1:CDS
GTGGAGTTGAGAGTAGGGGA+AGG 0.647557 1:-33615861 MsaT002188.1:CDS
GAACAACACGGCAATGAGCG+TGG 0.647962 1:-33620250 MsaT002188.1:CDS
TTACTGCTGCTACACCTCAA+GGG 0.655475 1:-33618930 MsaT002188.1:CDS
ACATGAATGAGTTATTGCAA+GGG 0.661417 1:-33618008 MsaT002188.1:CDS
GAGGCTAATGGAAACACAGG+AGG 0.702704 1:-33618572 MsaT002188.1:CDS
AGCATGTGGTTTGAACAACA+CGG 0.751745 1:-33620262 MsaT002188.1:CDS
AAAATGAATTGGGTGCAACG+CGG 0.811094 1:-33619243 MsaT002188.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 33615698 33620281 33615698 ID=MsaG002188
Chr1 mRNA 33615698 33620281 33615698 ID=MsaT002188.1;Parent=MsaG002188
Chr1 exon 33615698 33615940 33615698 ID=MsaT002188.1.exon7;Parent=MsaT002188.1
Chr1 CDS 33615698 33615940 33615698 ID=cds.MsaT002188.1;Parent=MsaT002188.1
Chr1 exon 33616024 33616082 33616024 ID=MsaT002188.1.exon6;Parent=MsaT002188.1
Chr1 CDS 33616024 33616082 33616024 ID=cds.MsaT002188.1;Parent=MsaT002188.1
Chr1 exon 33617779 33618058 33617779 ID=MsaT002188.1.exon5;Parent=MsaT002188.1
Chr1 CDS 33617779 33618058 33617779 ID=cds.MsaT002188.1;Parent=MsaT002188.1
Chr1 exon 33618445 33618593 33618445 ID=MsaT002188.1.exon4;Parent=MsaT002188.1
Chr1 CDS 33618445 33618593 33618445 ID=cds.MsaT002188.1;Parent=MsaT002188.1
Chr1 exon 33618875 33619014 33618875 ID=MsaT002188.1.exon3;Parent=MsaT002188.1
Chr1 CDS 33618875 33619014 33618875 ID=cds.MsaT002188.1;Parent=MsaT002188.1
Chr1 exon 33619213 33619349 33619213 ID=MsaT002188.1.exon2;Parent=MsaT002188.1
Chr1 CDS 33619213 33619349 33619213 ID=cds.MsaT002188.1;Parent=MsaT002188.1
Chr1 exon 33620183 33620281 33620183 ID=MsaT002188.1.exon1;Parent=MsaT002188.1
Chr1 CDS 33620183 33620281 33620183 ID=cds.MsaT002188.1;Parent=MsaT002188.1
Gene Sequence

>MsaT002188.1

ATGTGGTTTGAACAACACGGCAATGAGCGTGGTAGTGAAGCTAAAGGAATGCATTTCTATTTACATGTTCAACAATGCGAGCTTCAACACAAAGAACTCATGATTCCAAGGAATTTCGTAGAGAGGTATTGGAAAGATGTACCAAATCCAATATCCCTTAAACTTCCAAATGGGTCAGCATGCAAAATGAATTGGGTGCAACGCGGTGATGGTATTTGGCTTCAGAATTGGAAGAGTGACACTGAAAATACAAAAATTCCCCTCAAGAAAAAGAGAACCAACTCAAATGGCATTGCTATTACTGCTGCTACACCTCAAGGGACTAACATTCACAAGAGAAAAACTAATATCAATGCAACCCAGCAAAAAGTTTCGGAGGCTAATGGAAACACAGGAGGCATGGGTAAGAATGCTAAAAATGCACAAAGACTAAACGAGAGAAGTTGCACAAATTCTCATCCCAATGAGAGTCCTAGTTTCACTGTCAAATTATCGCCATATCATGTTGAAGGTGATAATAGATTGCCGATACCTAGTTGGTTTTCGAAAGAATACATGAATGAGTTATTGCAAGGGAAGGCAACAATTAGAAGTGTTGGTGAGGACAGGGCATGGCACGTGACACTAAACTTTCAGAAAAGCAAGAGCAGTTTTCTAATGAGGGCAGGTTGGAAGTCATTTTCAAAGGAACATGAGTTGAAAGTTGGTGATGTATGTAAATTTGAGATGACTCAACGCGAACCACTTTCATTCACAATTACTATTATCCCAACCACAAAGGAACCAGGCCTGGAGAAGTTTCAAGATTCTGTAAGTCTGAATTTACATGAGATGTTTAAGGTTTTTATAACATCATCAGACAAGTTGGTTGTACTACCAAGTGAGCTGTTGAAGAAGCATGGTATATTTAGTGGAAATTCAGTGGAGTTGAGAGTAGGGGAAGGAACATGGTTTGTAGATGTGAGTTATAATGAACATCTCGACTATGGTTGGTTCACTAAAGGTTGGCAAGAATTTGTGAGAGATTGCAAAGTAAAGACTGGAGACACTTGCTTGTTTGAGGCGATTGATGTGCAAAATCATGTGTTCAAGGTTTCAATTGTTTGA
Protein sequence

>MsaT002188.1

MWFEQHGNERGSEAKGMHFYLHVQQCELQHKELMIPRNFVERYWKDVPNPISLKLPNGSACKMNWVQRGDGIWLQNWKSDTENTKIPLKKKRTNSNGIAITAATPQGTNIHKRKTNINATQQKVSEANGNTGGMGKNAKNAQRLNERSCTNSHPNESPSFTVKLSPYHVEGDNRLPIPSWFSKEYMNELLQGKATIRSVGEDRAWHVTLNFQKSKSSFLMRAGWKSFSKEHELKVGDVCKFEMTQREPLSFTITIIPTTKEPGLEKFQDSVSLNLHEMFKVFITSSDKLVVLPSELLKKHGIFSGNSVELRVGEGTWFVDVSYNEHLDYGWFTKGWQEFVRDCKVKTGDTCLFEAIDVQNHVFKVSIV*