AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028331

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028331 MtrunA17_Chr5g0434331 84.659 176 17 1 12 177 32 207 1.28e-109 311
MsaG028331 MtrunA17_Chr8g0386511 37.410 139 64 3 62 177 16 154 9.68e-24 91.3
MsaG028331 MtrunA17_Chr1g0179781 28.000 200 93 8 23 176 7 201 2.59e-16 73.2
MsaG028331 MtrunA17_Chr5g0395181 26.154 195 107 7 17 176 15 207 2.77e-16 73.2
MsaG028331 MtrunA17_Chr2g0297251 31.818 132 77 4 22 142 36 165 1.34e-14 69.7
MsaG028331 MtrunA17_Chr4g0040071 23.737 198 103 7 23 176 15 208 4.36e-13 64.7
MsaG028331 MtrunA17_Chr7g0230511 27.407 135 80 4 23 144 9 138 7.69e-13 64.7
MsaG028331 MtrunA17_Chr5g0411151 25.500 200 99 9 23 176 35 230 3.46e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028331 AT2G27930.1 27.895 190 101 7 20 176 1 187 2.99e-14 67.8
MsaG028331 AT2G27930.4 27.895 190 101 7 20 176 1 187 2.99e-14 67.8
MsaG028331 AT1G31040.1 29.412 136 86 3 22 148 18 152 5.05e-14 68.2
MsaG028331 AT1G32700.1 24.121 199 102 6 23 176 12 206 8.51e-13 64.3
MsaG028331 AT2G01818.1 30.345 145 72 5 25 145 13 152 8.67e-13 64.3
MsaG028331 AT4G17900.1 24.413 213 116 8 6 176 17 226 2.66e-12 63.2
MsaG028331 AT4G17900.2 25.510 196 101 8 23 176 20 212 1.49e-11 60.8
MsaG028331 AT2G12646.1 26.950 141 94 2 20 151 3 143 4.28e-11 60.1
MsaG028331 AT2G12646.2 26.950 141 94 2 20 151 3 143 4.28e-11 60.1
MsaG028331 AT1G76590.1 26.061 165 104 6 20 170 15 175 4.86e-11 60.1

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATCAACTGCTCCAAGATTA+AGG 0.334487 5:-60961871 MsaT028331.1:intron
AGAATCTGCTTGCCGGTATA+TGG 0.349756 5:-60961987 MsaT028331.1:intron
TCACCAGCCAAAGTGGCTTC+AGG 0.350529 5:-60962095 MsaT028331.1:CDS
GACACATCATCATGCGGCTT+TGG 0.388033 5:-60961202 MsaT028331.1:CDS
ATTGCAAAGAATCTGCTTGC+CGG 0.399091 5:-60961994 MsaT028331.1:CDS
ATAGTAGAATACCTTAATCT+TGG 0.415338 5:+60961860 None:intergenic
AATCCTGAAGCCACTTTGGC+TGG 0.443360 5:+60962092 None:intergenic
AGCAATACAAATGCAACAAC+CGG 0.449608 5:-60961267 MsaT028331.1:CDS
TGGCTGGTGAACTTCACGTT+GGG 0.459890 5:+60962108 None:intergenic
ACTTTCTTTGATCAGAAGAA+AGG 0.463053 5:+60960905 None:intergenic
CTGAAGATTCAATTCCTACT+CGG 0.475908 5:-60960991 MsaT028331.1:CDS
TATATGACTGCATAGTAGTA+AGG 0.513325 5:+60961892 None:intergenic
AAACTTCTGAGCCTCAGAAA+AGG 0.514174 5:-60960955 MsaT028331.1:CDS
GTACTGCTCCATTGCTTGCA+AGG 0.516727 5:-60961146 MsaT028331.1:intron
TTTGGCAGCAGAAACTCAAA+TGG 0.521805 5:-60961184 MsaT028331.1:CDS
CCCACGATGTGGATCAGCAT+TGG 0.527266 5:-60961227 MsaT028331.1:CDS
TTGGCTGGTGAACTTCACGT+TGG 0.528347 5:+60962107 None:intergenic
TCCCCTTGTGATTCCCGAGT+AGG 0.539017 5:+60960977 None:intergenic
GTTCTGCTCATTTAGATCGA+AGG 0.554273 5:-60962042 MsaT028331.1:CDS
TGAAGATTCAATTCCTACTC+GGG 0.557663 5:-60960990 MsaT028331.1:CDS
CCTCAGAAAAGGAAACGAAA+AGG 0.571203 5:-60960944 MsaT028331.1:CDS
CCTGATGATAGACCATATAC+CGG 0.575296 5:+60961975 None:intergenic
GTGAAGTTCACCAGCCAAAG+TGG 0.592642 5:-60962102 MsaT028331.1:CDS
AGTCATCACCTTGCAAGCAA+TGG 0.595069 5:+60961138 None:intergenic
ATTCCTACTCGGGAATCACA+AGG 0.595771 5:-60960980 MsaT028331.1:CDS
CTGCATCGTCTCCCACGATG+TGG 0.599916 5:-60961238 MsaT028331.1:CDS
TTCCTACTCGGGAATCACAA+GGG 0.613593 5:-60960979 MsaT028331.1:CDS
ATACAAATGCAACAACCGGC+GGG 0.618184 5:-60961263 MsaT028331.1:CDS
TCCTACTCGGGAATCACAAG+GGG 0.620881 5:-60960978 MsaT028331.1:CDS
TAATTTGTAGGATGAGCAAG+TGG 0.626865 5:-60962131 MsaT028331.1:intron
CCAATGCTGATCCACATCGT+GGG 0.635092 5:+60961227 None:intergenic
AATACAAATGCAACAACCGG+CGG 0.635554 5:-60961264 MsaT028331.1:CDS
GGAGACGATGCAGAACCCGC+CGG 0.642418 5:+60961248 None:intergenic
TCCAATGCTGATCCACATCG+TGG 0.660274 5:+60961226 None:intergenic
TTGGATGACACATCATCATG+CGG 0.687565 5:-60961208 MsaT028331.1:CDS
AGTTTATAAATATATGCACA+AGG 0.697960 5:-60961925 MsaT028331.1:CDS
CAGAAGAAAGGAGCTCTGTG+TGG 0.766323 5:+60960917 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 60960916 60963008 60960916 ID=MsaG028331
Chr5 mRNA 60960916 60963008 60960916 ID=MsaT028331.1;Parent=MsaG028331
Chr5 exon 60960916 60961035 60960916 ID=MsaT028331.1.exon5;Parent=MsaT028331.1
Chr5 CDS 60960916 60961035 60960916 ID=cds.MsaT028331.1;Parent=MsaT028331.1
Chr5 exon 60961147 60961287 60961147 ID=MsaT028331.1.exon4;Parent=MsaT028331.1
Chr5 CDS 60961147 60961287 60961147 ID=cds.MsaT028331.1;Parent=MsaT028331.1
Chr5 exon 60961872 60961955 60961872 ID=MsaT028331.1.exon3;Parent=MsaT028331.1
Chr5 CDS 60961872 60961955 60961872 ID=cds.MsaT028331.1;Parent=MsaT028331.1
Chr5 exon 60961988 60962143 60961988 ID=MsaT028331.1.exon2;Parent=MsaT028331.1
Chr5 CDS 60961988 60962143 60961988 ID=cds.MsaT028331.1;Parent=MsaT028331.1
Chr5 exon 60962976 60963008 60962976 ID=MsaT028331.1.exon1;Parent=MsaT028331.1
Chr5 CDS 60962976 60963008 60962976 ID=cds.MsaT028331.1;Parent=MsaT028331.1
Gene Sequence

>MsaT028331.1

ATGAGCTCTTCTTCTTCCAGAAAAATGATTAAGGATGAGCAAGTGGCCCAACGTGAAGTTCACCAGCCAAAGTGGCTTCAGGATTTTTTGGGGAAATTGTTTTTCAAGTCATGTTCTGCTCATTTAGATCGAAGGAATGAGTTGAATATATACTGTATAAATTGCAAAGAATCTGCTTGCCGGTATATGATACTCAAAGTTTATAAATATATGCACAAGGATGTTGTCTGCCTTACTACTATGCAGTCATATATCAACTGCTCCAAGATTAAGCAATACAAATGCAACAACCGGCGGGTTCTGCATCGTCTCCCACGATGTGGATCAGCATTGGATGACACATCATCATGCGGCTTTGGCAGCAGAAACTCAAATGGAGCTGATTCATATCAGTACTGCTCCATTGCTTGCAAGGTCAAGGATATGTCAAGAAAGTCTGAAGATTCAATTCCTACTCGGGAATCACAAGGGGAAACTTCTGAGCCTCAGAAAAGGAAACGAAAAGGAACACCACACAGAGCTCCTTTCTTCTGA
Protein sequence

>MsaT028331.1

MSSSSSRKMIKDEQVAQREVHQPKWLQDFLGKLFFKSCSAHLDRRNELNIYCINCKESACRYMILKVYKYMHKDVVCLTTMQSYINCSKIKQYKCNNRRVLHRLPRCGSALDDTSSCGFGSRNSNGADSYQYCSIACKVKDMSRKSEDSIPTRESQGETSEPQKRKRKGTPHRAPFF*