AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG030585

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030585 MtrunA17_Chr6g0460301 94.769 325 13 3 1 325 1 321 0.0 582
MsaG030585 MtrunA17_Chr7g0254991 61.862 333 106 8 1 325 1 320 8.09e-125 360
MsaG030585 MtrunA17_Chr8g0355121 50.000 310 135 5 16 325 24 313 3.14e-90 272
MsaG030585 MtrunA17_Chr3g0080341 48.083 339 145 8 1 325 1 322 1.51e-89 270
MsaG030585 MtrunA17_Chr4g0044771 34.118 340 155 8 16 298 18 345 1.53e-42 150
MsaG030585 MtrunA17_Chr2g0321411 32.986 288 137 11 20 297 12 253 1.72e-28 111
MsaG030585 MtrunA17_Chr3g0133971 44.304 158 71 5 2 159 14 154 8.29e-28 112
MsaG030585 MtrunA17_Chr3g0133971 71.154 52 15 0 249 300 347 398 1.96e-16 79.7
MsaG030585 MtrunA17_Chr2g0321381 36.149 296 140 12 17 297 23 284 5.79e-27 107
MsaG030585 MtrunA17_Chr5g0440841 42.568 148 72 3 1 146 6 142 3.39e-22 94.0
MsaG030585 MtrunA17_Chr5g0440841 54.023 87 39 1 239 325 184 269 1.24e-18 84.3
MsaG030585 MtrunA17_Chr7g0266211 37.313 134 76 2 22 147 45 178 2.74e-19 88.2
MsaG030585 MtrunA17_Chr5g0424871 26.910 301 166 9 16 276 12 298 3.14e-17 80.9
MsaG030585 MtrunA17_Chr5g0405951 64.912 57 8 1 254 298 166 222 3.18e-12 65.5
MsaG030585 MtrunA17_Chr4g0051101 54.098 61 27 1 238 298 115 174 7.17e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030585 AT3G56850.1 56.269 327 111 7 1 325 1 297 2.46e-106 313
MsaG030585 AT2G41070.3 48.773 326 102 9 1 325 1 262 3.14e-79 242
MsaG030585 AT2G41070.1 48.773 326 102 9 1 325 1 262 3.14e-79 242
MsaG030585 AT2G41070.2 48.773 326 102 9 1 325 1 262 3.14e-79 242
MsaG030585 AT2G41070.4 48.773 326 102 9 1 325 10 271 3.16e-79 243
MsaG030585 AT2G41070.5 47.651 298 91 9 1 297 1 234 1.80e-65 206
MsaG030585 AT1G49720.1 47.297 148 67 3 5 147 12 153 3.87e-29 115
MsaG030585 AT1G49720.1 54.348 92 32 4 238 320 297 387 6.98e-14 72.4
MsaG030585 AT1G49720.3 47.297 148 67 3 5 147 12 153 3.87e-29 115
MsaG030585 AT1G49720.3 54.348 92 32 4 238 320 297 387 6.98e-14 72.4
MsaG030585 AT1G49720.2 49.306 144 60 4 9 147 18 153 4.67e-29 115
MsaG030585 AT1G49720.2 61.194 67 24 2 238 303 297 362 3.43e-13 70.1
MsaG030585 AT3G44460.1 37.294 303 123 12 15 296 34 290 5.11e-28 111
MsaG030585 AT3G19290.4 44.366 142 71 2 14 147 32 173 3.07e-26 107
MsaG030585 AT3G19290.4 47.126 87 43 1 215 298 310 396 3.45e-13 70.1
MsaG030585 AT3G19290.2 44.366 142 71 2 14 147 32 173 3.31e-26 107
MsaG030585 AT3G19290.3 44.366 142 71 2 14 147 32 173 3.86e-26 107
MsaG030585 AT3G19290.3 42.373 118 56 2 215 320 310 427 1.60e-13 71.2
MsaG030585 AT3G19290.1 44.366 142 71 2 14 147 32 173 3.94e-26 107
MsaG030585 AT3G19290.1 42.373 118 55 3 215 320 310 426 4.01e-13 70.1
MsaG030585 AT3G19290.5 44.366 142 71 2 14 147 32 173 3.94e-26 107
MsaG030585 AT3G19290.5 42.373 118 55 3 215 320 310 426 4.01e-13 70.1
MsaG030585 AT4G34000.3 39.634 164 70 7 13 147 24 187 5.03e-20 90.5
MsaG030585 AT4G34000.3 55.000 80 27 2 219 298 347 417 7.95e-18 84.3
MsaG030585 AT4G34000.1 39.634 164 70 7 13 147 24 187 6.23e-20 90.5
MsaG030585 AT4G34000.1 55.952 84 27 3 219 301 347 421 1.09e-17 84.0
MsaG030585 AT4G34000.4 39.634 164 70 7 13 147 24 187 6.23e-20 90.5
MsaG030585 AT4G34000.4 55.952 84 27 3 219 301 347 421 1.09e-17 84.0
MsaG030585 AT4G34000.2 39.634 164 70 7 13 147 24 187 6.23e-20 90.5
MsaG030585 AT4G34000.2 55.952 84 27 3 219 301 347 421 1.09e-17 84.0
MsaG030585 AT1G45249.7 40.237 169 69 7 16 164 36 192 1.01e-18 86.7
MsaG030585 AT1G45249.7 49.558 113 42 4 221 325 326 431 2.16e-17 82.8
MsaG030585 AT1G45249.6 40.237 169 69 7 16 164 36 192 1.01e-18 86.7
MsaG030585 AT1G45249.6 49.558 113 42 4 221 325 326 431 2.16e-17 82.8
MsaG030585 AT1G45249.10 42.657 143 61 5 16 147 21 153 1.16e-18 86.3
MsaG030585 AT1G45249.5 42.657 143 61 5 16 147 21 153 1.16e-18 86.3
MsaG030585 AT1G45249.1 40.237 169 69 7 16 164 21 177 1.19e-18 86.7
MsaG030585 AT1G45249.1 49.558 113 42 4 221 325 311 416 2.05e-17 82.8
MsaG030585 AT1G45249.3 40.237 169 69 7 16 164 21 177 1.21e-18 86.7
MsaG030585 AT1G45249.3 45.161 124 42 5 221 325 311 427 1.51e-14 74.3
MsaG030585 AT1G45249.4 42.657 143 61 5 16 147 21 153 1.61e-18 85.9
MsaG030585 AT1G45249.8 42.657 143 61 5 16 147 21 153 1.61e-18 85.9
MsaG030585 AT1G45249.2 42.657 143 61 5 16 147 21 153 1.61e-18 85.9
MsaG030585 AT1G45249.9 42.657 143 61 5 16 147 21 153 1.61e-18 85.9
MsaG030585 AT2G36270.1 55.556 90 29 2 239 318 342 430 2.51e-16 79.7
MsaG030585 AT2G36270.2 55.556 90 29 2 239 318 342 430 2.51e-16 79.7
MsaG030585 AT4G35900.1 50.000 94 44 2 232 325 195 285 4.35e-16 77.8
MsaG030585 AT2G36270.3 70.690 58 16 1 239 296 342 398 6.36e-16 78.6
MsaG030585 AT5G44080.1 32.218 239 99 10 101 322 120 312 8.86e-16 77.0
MsaG030585 AT2G17770.2 54.167 72 32 1 254 325 125 195 1.74e-14 71.2
MsaG030585 AT1G03970.1 28.205 234 105 9 101 322 85 267 2.12e-12 66.6
MsaG030585 AT5G42910.1 34.815 135 58 3 16 146 20 128 1.30e-11 65.5

Find 70 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAAACCATCTTGGTAATTT+AGG 0.046059 6:+10403482 MsaT030585.1:CDS
GATATCGCCATCTTCTTTAA+TGG 0.187061 6:+10404057 MsaT030585.1:CDS
CACAAACACTAGGTCGAAAA+AGG 0.215282 6:+10404613 MsaT030585.1:CDS
CAAGAGAGTTTAGCATTATC+TGG 0.215509 6:+10403656 MsaT030585.1:CDS
AAAACCATCTTGGTAATTTA+GGG 0.269307 6:+10403483 MsaT030585.1:CDS
AGAAAACTGTTGATGAGATT+TGG 0.281184 6:+10403690 MsaT030585.1:CDS
GCTGGCGAGGTTTCGGATTT+CGG 0.294514 6:+10403563 MsaT030585.1:CDS
GATGACTTTGGAGGATTTCT+TGG 0.296873 6:+10403787 MsaT030585.1:CDS
GGAAGAAGAGGGGTGTTGAT+AGG 0.304171 6:+10403726 MsaT030585.1:CDS
TGTTGAAGCTGGCGAGGTTT+CGG 0.333824 6:+10403556 MsaT030585.1:CDS
GGTTGCCGGGAATCAAGTTT+TGG 0.343807 6:+10404027 MsaT030585.1:CDS
TTTCGCAACATGGTCTTCAT+TGG 0.353409 6:+10403903 MsaT030585.1:CDS
ATATCGCCATCTTCTTTAAT+GGG 0.357518 6:+10404058 MsaT030585.1:CDS
AGGATGATGGTGGTTTGTTA+AGG 0.362877 6:+10403849 MsaT030585.1:CDS
CAAAGACTTTACCTTTATCT+AGG 0.373965 6:+10403423 MsaT030585.1:CDS
TGCATCCAAAACTTGATTCC+CGG 0.395693 6:-10404032 None:intergenic
CTGAATTAGTTCTGCGGAGC+TGG 0.399076 6:-10406204 None:intergenic
GGCTCGGGTGGCGGCGCAGT+TGG 0.410598 6:-10406175 None:intergenic
GAGGATTTCTTGGTGAAAGC+TGG 0.421412 6:+10403797 MsaT030585.1:CDS
GGATGATGGTGGTTTGTTAA+GGG 0.422756 6:+10403850 MsaT030585.1:CDS
GAAGAAGAGGGGTGTTGATA+GGG 0.424019 6:+10403727 MsaT030585.1:CDS
ACTTTACCTTTATCTAGGTC+AGG 0.424724 6:+10403428 MsaT030585.1:CDS
AAAGATCCTGACCTAGATAA+AGG 0.429936 6:-10403434 None:intergenic
TGATTCCCGGCAACCTGAAA+AGG 0.430801 6:-10404019 None:intergenic
GATGAAGTTCAAAACCATCT+TGG 0.441683 6:+10403473 MsaT030585.1:CDS
ATGAGTTGCTTAAGAGTGTA+TGG 0.441846 6:+10403531 MsaT030585.1:CDS
TTGGTGAAAGCTGGAGTTGT+TGG 0.447659 6:+10403806 MsaT030585.1:CDS
TTTCATAACAATAAGGATGA+TGG 0.459884 6:+10403836 MsaT030585.1:CDS
GCAGGCTTATACACAAGAAC+TGG 0.460547 6:+10404835 MsaT030585.1:intron
TTGATTCGAATGAGGATTCT+CGG 0.469255 6:+10403873 MsaT030585.1:CDS
ATTGCAATGAAGACATCAAA+AGG 0.473157 6:-10406230 None:intergenic
CGGCAAAATGTTTCGCAACA+TGG 0.482638 6:+10403893 MsaT030585.1:CDS
TCTTCATTGGATGCAATATC+CGG 0.491078 6:+10403916 MsaT030585.1:CDS
GCTTCCCTAAATTACCAAGA+TGG 0.497455 6:-10403487 None:intergenic
GACACTTGGTGAGATGACTT+TGG 0.498834 6:+10403775 MsaT030585.1:CDS
CTGTCGAGAGGAGGCAAAAG+AGG 0.507973 6:+10404664 MsaT030585.1:CDS
AGAGGGGTGTTGATAGGGAT+AGG 0.509576 6:+10403732 MsaT030585.1:CDS
GTAGTACCCATTAAAGAAGA+TGG 0.510152 6:-10404064 None:intergenic
GCATGAACTGCCGCAAAACC+CGG 0.510299 6:-10403986 None:intergenic
GTATGAAAAGCATATGATGC+CGG 0.511392 6:+10403967 MsaT030585.1:CDS
GTTAAGGGTTGATTCGAATG+AGG 0.514656 6:+10403865 MsaT030585.1:CDS
GTTGTTACAGGAGATAGAGA+AGG 0.525779 6:+10406147 MsaT030585.1:intron
TAAAGTTTCGCGTTTAGAAG+AGG 0.534492 6:+10404862 MsaT030585.1:CDS
AACCTGAAAAGGCTGTTGAA+TGG 0.537317 6:-10404008 None:intergenic
AGATATGCAAGGGAAGAAGA+GGG 0.542486 6:+10403715 MsaT030585.1:CDS
AAGATATGCAAGGGAAGAAG+AGG 0.548251 6:+10403714 MsaT030585.1:CDS
ACTTGGTGAGATGACTTTGG+AGG 0.554555 6:+10403778 MsaT030585.1:CDS
ATGCAGCATAATCAACTTGG+TGG 0.555521 6:+10403623 MsaT030585.1:CDS
CATAACAATAAGGATGATGG+TGG 0.567397 6:+10403839 MsaT030585.1:CDS
TATGAAAAGCATATGATGCC+GGG 0.578298 6:+10403968 MsaT030585.1:CDS
AAAATAGGGAATCTGCTGCT+CGG 0.583543 6:+10404694 MsaT030585.1:CDS
GAGATTTGGAAAGATATGCA+AGG 0.583817 6:+10403704 MsaT030585.1:CDS
GTTGTTGCTGCTGAACAGAA+TGG 0.584868 6:-10403940 None:intergenic
AACATGCAGCATAATCAACT+TGG 0.593590 6:+10403620 MsaT030585.1:CDS
GGTAATTTAGGGAAGCCACT+TGG 0.596916 6:+10403494 MsaT030585.1:CDS
TCGGTCACGAGCAAGAAGAC+AGG 0.598431 6:+10404713 MsaT030585.1:CDS
AGTGTATGGAGTGTTGAAGC+TGG 0.601387 6:+10403545 MsaT030585.1:CDS
GATATGCAAGGGAAGAAGAG+GGG 0.613310 6:+10403716 MsaT030585.1:CDS
TAGAGAAAACTGTCGAGAGG+AGG 0.623550 6:+10404655 MsaT030585.1:CDS
AGATTTGGAAAGATATGCAA+GGG 0.625209 6:+10403705 MsaT030585.1:CDS
TGCTGCTGAACAGAATGGAC+CGG 0.626230 6:-10403935 None:intergenic
TAGTAGAGAAAACTGTCGAG+AGG 0.627657 6:+10404652 MsaT030585.1:CDS
GTTACAGGAGATAGAGAAGG+AGG 0.629200 6:+10406150 MsaT030585.1:intron
TTTCTCTACTAAAATACCAG+AGG 0.634525 6:-10404640 None:intergenic
GGCGAGGTTTCGGATTTCGG+TGG 0.641650 6:+10403566 MsaT030585.1:CDS
ATGGAGTGTTGAAGCTGGCG+AGG 0.647172 6:+10403550 MsaT030585.1:CDS
TCAAGATTCATACTTCCAAG+TGG 0.649292 6:-10403509 None:intergenic
GTTTAGAAGAGGAAAATGAA+AGG 0.656611 6:+10404873 MsaT030585.1:CDS
TTATCAGATACACAAACACT+AGG 0.668593 6:+10404603 MsaT030585.1:CDS
AGGATGCTGAATTAGTTCTG+CGG 0.716972 6:-10406210 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 10403392 10406237 10403392 ID=MsaG030585
Chr6 mRNA 10403392 10406237 10403392 ID=MsaT030585.1;Parent=MsaG030585
Chr6 exon 10403392 10404079 10403392 ID=MsaT030585.1.exon1;Parent=MsaT030585.1
Chr6 CDS 10403392 10404079 10403392 ID=cds.MsaT030585.1;Parent=MsaT030585.1
Chr6 exon 10404598 10404734 10404598 ID=MsaT030585.1.exon2;Parent=MsaT030585.1
Chr6 CDS 10404598 10404734 10404598 ID=cds.MsaT030585.1;Parent=MsaT030585.1
Chr6 exon 10404839 10404910 10404839 ID=MsaT030585.1.exon3;Parent=MsaT030585.1
Chr6 CDS 10404839 10404910 10404839 ID=cds.MsaT030585.1;Parent=MsaT030585.1
Chr6 exon 10406157 10406237 10406157 ID=MsaT030585.1.exon4;Parent=MsaT030585.1
Chr6 CDS 10406157 10406237 10406157 ID=cds.MsaT030585.1;Parent=MsaT030585.1
Gene Sequence

>MsaT030585.1

ATGGGGTCACAAGGTGGAACAGTTTCAGAGTCAAAGACTTTACCTTTATCTAGGTCAGGATCTTTGTATAATCTAACACTTGATGAAGTTCAAAACCATCTTGGTAATTTAGGGAAGCCACTTGGAAGTATGAATCTTGATGAGTTGCTTAAGAGTGTATGGAGTGTTGAAGCTGGCGAGGTTTCGGATTTCGGTGGTAGTGATGTTGCTGCTGCTGCTGCTGGTGGTAACATGCAGCATAATCAACTTGGTGGTTTGAATTCACAAGAGAGTTTAGCATTATCTGGAGATCTTAGTAAGAAAACTGTTGATGAGATTTGGAAAGATATGCAAGGGAAGAAGAGGGGTGTTGATAGGGATAGGAAATCGCGTGAAAAACAACAGACACTTGGTGAGATGACTTTGGAGGATTTCTTGGTGAAAGCTGGAGTTGTTGGTGAATCTTTTCATAACAATAAGGATGATGGTGGTTTGTTAAGGGTTGATTCGAATGAGGATTCTCGGCAAAATGTTTCGCAACATGGTCTTCATTGGATGCAATATCCGGTCCATTCTGTTCAGCAGCAACAACATCAGTATGAAAAGCATATGATGCCGGGTTTTGCGGCAGTTCATGCCATTCAACAGCCTTTTCAGGTTGCCGGGAATCAAGTTTTGGATGCAGCGATATCGCCATCTTCTTTAATGGGTACATTATCAGATACACAAACACTAGGTCGAAAAAGGGTTGCCTCTGGTATTTTAGTAGAGAAAACTGTCGAGAGGAGGCAAAAGAGGATGATAAAAAATAGGGAATCTGCTGCTCGGTCACGAGCAAGAAGACAGGCTTATACACAAGAACTGGAACTTAAAGTTTCGCGTTTAGAAGAGGAAAATGAAAGGCTTAGAAGACAGAATGAGATAGAGAAGGAGGTACCAACTGCGCCGCCACCCGAGCCTAAAAACCAGCTCCGCAGAACTAATTCAGCATCCTTTTGA
Protein sequence

>MsaT030585.1

MGSQGGTVSESKTLPLSRSGSLYNLTLDEVQNHLGNLGKPLGSMNLDELLKSVWSVEAGEVSDFGGSDVAAAAAGGNMQHNQLGGLNSQESLALSGDLSKKTVDEIWKDMQGKKRGVDRDRKSREKQQTLGEMTLEDFLVKAGVVGESFHNNKDDGGLLRVDSNEDSRQNVSQHGLHWMQYPVHSVQQQQHQYEKHMMPGFAAVHAIQQPFQVAGNQVLDAAISPSSLMGTLSDTQTLGRKRVASGILVEKTVERRQKRMIKNRESAARSRARRQAYTQELELKVSRLEEENERLRRQNEIEKEVPTAPPPEPKNQLRRTNSASF*