AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG031333

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031333 MtrunA17_Chr6g0460301 91.975 324 14 3 1 315 1 321 0.0 555
MsaG031333 MtrunA17_Chr7g0254991 62.805 328 101 9 1 315 1 320 1.26e-120 349
MsaG031333 MtrunA17_Chr3g0080341 50.000 330 142 8 1 315 1 322 1.86e-92 277
MsaG031333 MtrunA17_Chr8g0355121 51.827 301 133 5 16 315 24 313 2.68e-92 277
MsaG031333 MtrunA17_Chr4g0044771 35.882 340 139 10 16 288 18 345 5.08e-45 157
MsaG031333 MtrunA17_Chr3g0133971 48.649 148 69 4 2 149 14 154 2.38e-30 119
MsaG031333 MtrunA17_Chr3g0133971 71.154 52 15 0 239 290 347 398 1.77e-16 79.7
MsaG031333 MtrunA17_Chr2g0321411 33.688 282 133 11 20 287 12 253 1.79e-28 111
MsaG031333 MtrunA17_Chr2g0321381 36.713 286 142 11 17 287 23 284 3.18e-28 110
MsaG031333 MtrunA17_Chr5g0440841 45.652 138 72 3 1 136 6 142 1.74e-23 97.4
MsaG031333 MtrunA17_Chr5g0440841 54.023 87 39 1 229 315 184 269 1.07e-18 84.3
MsaG031333 MtrunA17_Chr7g0266211 37.313 134 66 2 22 137 45 178 1.32e-18 85.9
MsaG031333 MtrunA17_Chr5g0424871 27.740 292 165 9 16 266 12 298 2.05e-17 81.3
MsaG031333 MtrunA17_Chr5g0405951 64.912 57 8 1 244 288 166 222 2.86e-12 65.5
MsaG031333 MtrunA17_Chr4g0051101 54.098 61 27 1 228 288 115 174 6.57e-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
MsaG031333 AT3G56850.1 58.675 317 109 6 1 315 1 297 6.44e-111 324
MsaG031333 AT2G41070.3 50.633 316 101 8 1 315 1 262 8.92e-84 253
MsaG031333 AT2G41070.1 50.633 316 101 8 1 315 1 262 8.92e-84 253
MsaG031333 AT2G41070.2 50.633 316 101 8 1 315 1 262 8.92e-84 253
MsaG031333 AT2G41070.4 50.633 316 101 8 1 315 10 271 1.04e-83 254
MsaG031333 AT2G41070.5 49.653 288 90 8 1 287 1 234 8.78e-70 217
MsaG031333 AT3G44460.1 39.175 291 124 11 15 286 34 290 3.32e-31 119
MsaG031333 AT1G49720.1 48.630 146 58 3 5 137 12 153 6.57e-31 120
MsaG031333 AT1G49720.1 54.348 92 32 4 228 310 297 387 6.64e-14 72.0
MsaG031333 AT1G49720.3 48.630 146 58 3 5 137 12 153 6.57e-31 120
MsaG031333 AT1G49720.3 54.348 92 32 4 228 310 297 387 6.64e-14 72.0
MsaG031333 AT1G49720.2 50.704 142 51 4 9 137 18 153 8.97e-31 120
MsaG031333 AT1G49720.2 61.194 67 24 2 228 293 297 362 3.31e-13 70.1
MsaG031333 AT3G19290.4 43.662 142 62 2 14 137 32 173 6.40e-27 109
MsaG031333 AT3G19290.4 47.126 87 43 1 205 288 310 396 3.51e-13 70.1
MsaG031333 AT3G19290.2 45.070 142 60 2 14 137 32 173 7.64e-27 109
MsaG031333 AT3G19290.3 45.070 142 60 2 14 137 32 173 9.13e-27 109
MsaG031333 AT3G19290.3 42.373 118 56 2 205 310 310 427 1.65e-13 71.2
MsaG031333 AT3G19290.1 45.070 142 60 2 14 137 32 173 9.69e-27 109
MsaG031333 AT3G19290.1 42.373 118 55 3 205 310 310 426 4.42e-13 69.7
MsaG031333 AT3G19290.5 45.070 142 60 2 14 137 32 173 9.69e-27 109
MsaG031333 AT3G19290.5 42.373 118 55 3 205 310 310 426 4.42e-13 69.7
MsaG031333 AT1G45249.7 43.293 164 61 7 16 154 36 192 2.55e-21 94.0
MsaG031333 AT1G45249.7 49.558 113 42 4 211 315 326 431 1.96e-17 82.8
MsaG031333 AT1G45249.6 43.293 164 61 7 16 154 36 192 2.55e-21 94.0
MsaG031333 AT1G45249.6 49.558 113 42 4 211 315 326 431 1.96e-17 82.8
MsaG031333 AT1G45249.1 43.293 164 61 7 16 154 21 177 2.56e-21 94.0
MsaG031333 AT1G45249.1 49.558 113 42 4 211 315 311 416 2.03e-17 82.8
MsaG031333 AT1G45249.3 43.293 164 61 7 16 154 21 177 2.58e-21 94.0
MsaG031333 AT1G45249.3 45.161 124 42 5 211 315 311 427 1.41e-14 74.3
MsaG031333 AT1G45249.10 43.293 164 61 7 16 154 21 177 2.95e-21 93.2
MsaG031333 AT1G45249.5 43.293 164 61 7 16 154 21 177 2.95e-21 93.2
MsaG031333 AT1G45249.4 46.377 138 53 5 16 137 21 153 3.62e-21 93.6
MsaG031333 AT1G45249.8 46.377 138 53 5 16 137 21 153 3.62e-21 93.6
MsaG031333 AT1G45249.2 46.377 138 53 5 16 137 21 153 3.62e-21 93.6
MsaG031333 AT1G45249.9 46.377 138 53 5 16 137 21 153 3.62e-21 93.6
MsaG031333 AT4G34000.3 39.024 164 61 5 13 137 24 187 4.34e-21 93.6
MsaG031333 AT4G34000.3 55.000 80 27 2 209 288 347 417 6.91e-18 84.3
MsaG031333 AT4G34000.1 39.024 164 61 5 13 137 24 187 6.23e-21 93.2
MsaG031333 AT4G34000.1 55.952 84 27 3 209 291 347 421 1.00e-17 84.0
MsaG031333 AT4G34000.4 39.024 164 61 5 13 137 24 187 6.23e-21 93.2
MsaG031333 AT4G34000.4 55.952 84 27 3 209 291 347 421 1.00e-17 84.0
MsaG031333 AT4G34000.2 39.024 164 61 5 13 137 24 187 6.23e-21 93.2
MsaG031333 AT4G34000.2 55.952 84 27 3 209 291 347 421 1.00e-17 84.0
MsaG031333 AT2G36270.1 55.556 90 29 2 229 308 342 430 2.38e-16 79.7
MsaG031333 AT2G36270.2 55.556 90 29 2 229 308 342 430 2.38e-16 79.7
MsaG031333 AT4G35900.1 59.155 71 28 1 245 315 216 285 2.90e-16 78.2
MsaG031333 AT2G36270.3 70.690 58 16 1 229 286 342 398 5.55e-16 78.6
MsaG031333 AT5G44080.1 31.799 239 100 10 91 312 120 312 1.37e-15 76.6
MsaG031333 AT2G17770.2 54.167 72 32 1 244 315 125 195 1.25e-14 71.6
MsaG031333 AT5G42910.1 39.200 125 56 3 16 136 20 128 2.85e-14 73.2
MsaG031333 AT1G03970.1 28.632 234 104 9 91 312 85 267 1.36e-12 67.4

Find 74 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:+24243849 MsaT031333.1:CDS
GATATCGCCATCTTCTTTAA+TGG 0.187061 6:+24244394 MsaT031333.1:CDS
CACAAACACTAGGTCGAAAA+AGG 0.215282 6:+24244954 MsaT031333.1:CDS
AAAACCATCTTGGTAATTTA+GGG 0.238621 6:+24243850 MsaT031333.1:CDS
CAAGGGAGTTTAGCATTATC+TGG 0.253390 6:+24243993 MsaT031333.1:CDS
GCTGGCGAGGTTTCGGATTT+CGG 0.287074 6:+24243930 MsaT031333.1:CDS
GATGACTTTGGAGGATTTCT+TGG 0.296873 6:+24244124 MsaT031333.1:CDS
GGAAGAAGAGGGGTGTTGAT+AGG 0.304171 6:+24244063 MsaT031333.1:CDS
TGTTGAAGCTGGCGAGGTTT+CGG 0.333824 6:+24243923 MsaT031333.1:CDS
GGTTGCCGGGAATCAAGTTT+TGG 0.343807 6:+24244364 MsaT031333.1:CDS
TTTCGCAACATGGTCTTCAT+TGG 0.353409 6:+24244240 MsaT031333.1:CDS
ATATCGCCATCTTCTTTAAT+GGG 0.357518 6:+24244395 MsaT031333.1:CDS
AGGATGATGGTGGTTTGTTA+AGG 0.362877 6:+24244186 MsaT031333.1:CDS
CAAAGACTTTACCTTTATCT+AGG 0.373965 6:+24243790 MsaT031333.1:CDS
TGCATCCAAAACTTGATTCC+CGG 0.395693 6:-24244369 None:intergenic
CTGAATTAGTTCTGCGGAGC+TGG 0.399076 6:-24246542 None:intergenic
GGCTCGGGTGGCGGCGCAGT+TGG 0.410598 6:-24246513 None:intergenic
GAGGATTTCTTGGTGAAAGC+TGG 0.421412 6:+24244134 MsaT031333.1:CDS
GGATGATGGTGGTTTGTTAA+GGG 0.422756 6:+24244187 MsaT031333.1:CDS
GAAGAAGAGGGGTGTTGATA+GGG 0.424019 6:+24244064 MsaT031333.1:CDS
ACTTTACCTTTATCTAGGTC+AGG 0.424724 6:+24243795 MsaT031333.1:CDS
AAAGATCCTGACCTAGATAA+AGG 0.429936 6:-24243801 None:intergenic
TGATTCCCGGCAACCTGAAA+AGG 0.430801 6:-24244356 None:intergenic
GATGAAGTTCAAAACCATCT+TGG 0.441683 6:+24243840 MsaT031333.1:CDS
TTGGTGAAAGCTGGAGTTGT+TGG 0.447659 6:+24244143 MsaT031333.1:CDS
GGTAGTGATGTTGCTGCTGC+TGG 0.447760 6:+24243954 MsaT031333.1:CDS
TTTCATAACAATAAGGATGA+TGG 0.459884 6:+24244173 MsaT031333.1:CDS
GCAGGCTTATACACAAGAAC+TGG 0.460547 6:+24245176 MsaT031333.1:intron
GATGTTGCTGCTGCTGGTGG+TGG 0.468799 6:+24243960 MsaT031333.1:CDS
TTGATTCGAATGAGGATTCT+CGG 0.469255 6:+24244210 MsaT031333.1:CDS
ATTGCAATGAAGACATCAAA+AGG 0.473157 6:-24246568 None:intergenic
CGGCAAAATGTTTCGCAACA+TGG 0.482638 6:+24244230 MsaT031333.1:CDS
TCTTCATTGGATGCAATATC+CGG 0.491078 6:+24244253 MsaT031333.1:CDS
GACACTTGGTGAGATGACTT+TGG 0.498834 6:+24244112 MsaT031333.1:CDS
GTTTCCCTAAATTACCAAGA+TGG 0.502080 6:-24243854 None:intergenic
CTGTCGAGAGGAGGCAAAAG+AGG 0.507973 6:+24245005 MsaT031333.1:CDS
AGAGGGGTGTTGATAGGGAT+AGG 0.509576 6:+24244069 MsaT031333.1:CDS
GTAGTACCCATTAAAGAAGA+TGG 0.510152 6:-24244401 None:intergenic
GCATGAACTGCCGCAAAACC+CGG 0.510299 6:-24244323 None:intergenic
GTATGAAAAGCATATGATGC+CGG 0.511392 6:+24244304 MsaT031333.1:CDS
GTTAAGGGTTGATTCGAATG+AGG 0.514656 6:+24244202 MsaT031333.1:CDS
GTTGTTACAGGAGATAGAGA+AGG 0.525779 6:+24246485 MsaT031333.1:intron
TAAAGTTTCGCGTTTAGAAG+AGG 0.534492 6:+24245203 MsaT031333.1:CDS
AACCTGAAAAGGCTGTTGAA+TGG 0.537317 6:-24244345 None:intergenic
AGATATGCAAGGGAAGAAGA+GGG 0.542486 6:+24244052 MsaT031333.1:CDS
AAGATATGCAAGGGAAGAAG+AGG 0.548251 6:+24244051 MsaT031333.1:CDS
ACTTGGTGAGATGACTTTGG+AGG 0.554555 6:+24244115 MsaT031333.1:CDS
CATAACAATAAGGATGATGG+TGG 0.567397 6:+24244176 MsaT031333.1:CDS
TATGAAAAGCATATGATGCC+GGG 0.578298 6:+24244305 MsaT031333.1:CDS
AAAATAGGGAATCTGCTGCT+CGG 0.583543 6:+24245035 MsaT031333.1:CDS
GTTGTTGCTGCTGAACAGAA+TGG 0.584868 6:-24244277 None:intergenic
GGTAATTTAGGGAAACCACT+TGG 0.595722 6:+24243861 MsaT031333.1:CDS
TCGGTCACGAGCAAGAAGAC+AGG 0.598431 6:+24245054 MsaT031333.1:CDS
TAGTAAGAAAACTGTTGATG+AGG 0.605589 6:+24244022 MsaT031333.1:CDS
AGAAAACTGTTGATGAGGTG+TGG 0.606026 6:+24244027 MsaT031333.1:CDS
AGGTGTGGAAAGATATGCAA+GGG 0.611551 6:+24244042 MsaT031333.1:CDS
GATATGCAAGGGAAGAAGAG+GGG 0.613310 6:+24244053 MsaT031333.1:CDS
AGTGATGTTGCTGCTGCTGG+TGG 0.613641 6:+24243957 MsaT031333.1:CDS
AGTGTGTGGAGTGTTGAAGC+TGG 0.616392 6:+24243912 MsaT031333.1:CDS
ATGAGTTGCTTAAGAGTGTG+TGG 0.618901 6:+24243898 MsaT031333.1:CDS
TAGAGAAAACTGTCGAGAGG+AGG 0.623550 6:+24244996 MsaT031333.1:CDS
TGCTGCTGAACAGAATGGAC+CGG 0.626230 6:-24244272 None:intergenic
TAGTAGAGAAAACTGTCGAG+AGG 0.627657 6:+24244993 MsaT031333.1:CDS
GTTACAGGAGATAGAGAAGG+AGG 0.629200 6:+24246488 MsaT031333.1:intron
TTTCTCTACTAAAATACCAG+AGG 0.634525 6:-24244981 None:intergenic
GTGGAGTGTTGAAGCTGGCG+AGG 0.635886 6:+24243917 MsaT031333.1:CDS
TCAAGATTCATACTTCCAAG+TGG 0.648117 6:-24243876 None:intergenic
GGTGGTGGTTTGAATTCACA+AGG 0.648655 6:+24243975 MsaT031333.1:CDS
GTTTAGAAGAGGAAAATGAA+AGG 0.656611 6:+24245214 MsaT031333.1:CDS
TTATCAGATACACAAACACT+AGG 0.668593 6:+24244944 MsaT031333.1:CDS
GGCGAGGTTTCGGATTTCGG+CGG 0.691722 6:+24243933 MsaT031333.1:CDS
AGGATGCTGAATTAGTTCTG+CGG 0.716972 6:-24246548 None:intergenic
GTGGTGGTTTGAATTCACAA+GGG 0.738125 6:+24243976 MsaT031333.1:CDS
GAGGTGTGGAAAGATATGCA+AGG 0.743009 6:+24244041 MsaT031333.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 24243759 24246575 24243759 ID=MsaG031333
Chr6 mRNA 24243759 24246575 24243759 ID=MsaT031333.1;Parent=MsaG031333
Chr6 exon 24243759 24244416 24243759 ID=MsaT031333.1.exon1;Parent=MsaT031333.1
Chr6 CDS 24243759 24244416 24243759 ID=cds.MsaT031333.1;Parent=MsaT031333.1
Chr6 exon 24244939 24245075 24244939 ID=MsaT031333.1.exon2;Parent=MsaT031333.1
Chr6 CDS 24244939 24245075 24244939 ID=cds.MsaT031333.1;Parent=MsaT031333.1
Chr6 exon 24245180 24245251 24245180 ID=MsaT031333.1.exon3;Parent=MsaT031333.1
Chr6 CDS 24245180 24245251 24245180 ID=cds.MsaT031333.1;Parent=MsaT031333.1
Chr6 exon 24246495 24246575 24246495 ID=MsaT031333.1.exon4;Parent=MsaT031333.1
Chr6 CDS 24246495 24246575 24246495 ID=cds.MsaT031333.1;Parent=MsaT031333.1
Gene Sequence

>MsaT031333.1

ATGGGGTCACAAGGTGGAACAGTTTCAGAGTCAAAGACTTTACCTTTATCTAGGTCAGGATCTTTGTATAATCTAACACTTGATGAAGTTCAAAACCATCTTGGTAATTTAGGGAAACCACTTGGAAGTATGAATCTTGATGAGTTGCTTAAGAGTGTGTGGAGTGTTGAAGCTGGCGAGGTTTCGGATTTCGGCGGTAGTGATGTTGCTGCTGCTGGTGGTGGTTTGAATTCACAAGGGAGTTTAGCATTATCTGGAGATCTTAGTAAGAAAACTGTTGATGAGGTGTGGAAAGATATGCAAGGGAAGAAGAGGGGTGTTGATAGGGATAGGAAATCGCGTGAAAAACAACAGACACTTGGTGAGATGACTTTGGAGGATTTCTTGGTGAAAGCTGGAGTTGTTGGTGAATCTTTTCATAACAATAAGGATGATGGTGGTTTGTTAAGGGTTGATTCGAATGAGGATTCTCGGCAAAATGTTTCGCAACATGGTCTTCATTGGATGCAATATCCGGTCCATTCTGTTCAGCAGCAACAACATCAGTATGAAAAGCATATGATGCCGGGTTTTGCGGCAGTTCATGCCATTCAACAGCCTTTTCAGGTTGCCGGGAATCAAGTTTTGGATGCAGCGATATCGCCATCTTCTTTAATGGGTACATTATCAGATACACAAACACTAGGTCGAAAAAGGGTTGCCTCTGGTATTTTAGTAGAGAAAACTGTCGAGAGGAGGCAAAAGAGGATGATAAAAAATAGGGAATCTGCTGCTCGGTCACGAGCAAGAAGACAGGCTTATACACAAGAACTGGAACTTAAAGTTTCGCGTTTAGAAGAGGAAAATGAAAGGCTTAGAAGACAGAATGAGATAGAGAAGGAGGTACCAACTGCGCCGCCACCCGAGCCTAAAAACCAGCTCCGCAGAACTAATTCAGCATCCTTTTGA
Protein sequence

>MsaT031333.1

MGSQGGTVSESKTLPLSRSGSLYNLTLDEVQNHLGNLGKPLGSMNLDELLKSVWSVEAGEVSDFGGSDVAAAGGGLNSQGSLALSGDLSKKTVDEVWKDMQGKKRGVDRDRKSREKQQTLGEMTLEDFLVKAGVVGESFHNNKDDGGLLRVDSNEDSRQNVSQHGLHWMQYPVHSVQQQQHQYEKHMMPGFAAVHAIQQPFQVAGNQVLDAAISPSSLMGTLSDTQTLGRKRVASGILVEKTVERRQKRMIKNRESAARSRARRQAYTQELELKVSRLEEENERLRRQNEIEKEVPTAPPPEPKNQLRRTNSASF*