AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005566

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005566 MtrunA17_Chr1g0209861 91.972 436 13 1 1 414 1 436 0.0 818
MsaG005566 MtrunA17_Chr8g0390971 40.225 445 181 17 9 411 11 412 1.40e-76 243
MsaG005566 MtrunA17_Chr5g0431351 44.144 111 42 3 294 402 124 216 4.23e-19 85.5
MsaG005566 MtrunA17_Chr7g0226451 40.152 132 56 4 294 402 220 351 4.05e-17 82.0
MsaG005566 MtrunA17_Chr4g0071811 46.154 104 44 4 299 402 293 384 4.25e-17 82.4
MsaG005566 MtrunA17_Chr1g0150471 47.561 82 36 2 329 405 221 300 1.62e-12 68.2
MsaG005566 MtrunA17_Chr3g0136701 63.636 55 16 1 348 402 224 274 2.60e-12 67.0
MsaG005566 MtrunA17_Chr7g0220721 69.767 43 13 0 360 402 327 369 5.59e-11 63.9
MsaG005566 MtrunA17_Chr4g0072871 69.767 43 13 0 360 402 298 340 8.62e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005566 AT1G25440.1 45.390 423 183 10 6 402 3 403 4.80e-97 296
MsaG005566 AT1G68520.1 43.088 434 183 16 6 407 3 404 2.50e-88 274
MsaG005566 AT1G73870.1 37.762 429 189 17 8 405 9 390 4.03e-63 208
MsaG005566 AT4G25990.1 49.533 107 38 3 296 402 293 383 5.73e-22 97.4
MsaG005566 AT5G57180.2 45.217 115 43 3 296 409 337 432 2.01e-21 96.3
MsaG005566 AT4G25990.2 43.443 122 38 4 296 402 293 398 1.97e-18 87.0
MsaG005566 AT5G14370.1 43.478 115 52 4 294 402 229 336 3.61e-18 85.5
MsaG005566 AT4G25990.3 47.525 101 37 3 296 396 293 377 4.20e-18 85.9
MsaG005566 AT1G07050.1 43.750 128 45 5 281 404 91 195 1.66e-17 80.9
MsaG005566 AT5G57180.1 45.098 102 36 3 296 396 337 419 5.96e-17 82.8
MsaG005566 AT1G49130.1 45.794 107 37 3 297 403 236 321 6.61e-17 81.6
MsaG005566 AT1G49130.1 64.000 50 18 0 15 64 23 72 9.54e-15 75.1
MsaG005566 AT1G49130.2 45.794 107 37 2 297 403 229 314 9.36e-17 81.3
MsaG005566 AT1G49130.2 64.000 50 18 0 15 64 16 65 1.09e-14 75.1
MsaG005566 AT1G07050.2 41.667 120 43 5 281 396 91 187 4.23e-13 68.2
MsaG005566 AT5G24930.1 52.113 71 28 1 338 402 267 337 1.06e-11 66.2
MsaG005566 AT5G15840.1 41.304 92 48 3 1 86 41 132 1.58e-11 65.9
MsaG005566 AT5G15840.2 41.304 92 48 3 1 86 41 132 1.98e-11 64.7
MsaG005566 AT5G57660.1 69.767 43 13 0 360 402 285 327 7.87e-11 63.5

Find 91 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGAATTCATCACCATTAA+TGG 0.149936 1:+82922516 None:intergenic
ACAAATCTCCCTTTCATTCT+TGG 0.172964 1:+82921095 None:intergenic
ATTATTTATCAGGGAACTTT+TGG 0.202916 1:-82921287 MsaT005566.1:intron
TGAAAATAATGATTATAATA+AGG 0.203891 1:-82921811 MsaT005566.1:CDS
TTCTCATCAGCATCCAAATT+TGG 0.222169 1:+82921699 None:intergenic
TATGGTGAGTTTGGTGGATA+TGG 0.250845 1:-82921245 MsaT005566.1:CDS
TAATGGTGACAAGCCAAATT+TGG 0.271510 1:-82921712 MsaT005566.1:CDS
CTGCCTCCATCTACCGTTAC+TGG 0.277791 1:+82921215 None:intergenic
ATGAGGCGCAACTTCTTTAC+AGG 0.278532 1:-82922322 MsaT005566.1:CDS
GAAAATAATGATTATAATAA+GGG 0.279237 1:-82921810 MsaT005566.1:CDS
GCGTCGTACAAGTCCATTAA+TGG 0.290118 1:-82922529 MsaT005566.1:intron
ACGGAGGTTCATTATGCTTA+TGG 0.290853 1:-82921263 MsaT005566.1:CDS
CTCAACATCAGCTGCAAATT+CGG 0.302034 1:+82922088 None:intergenic
GCAACAGAAGGATCGAAAAT+TGG 0.331767 1:+82922296 None:intergenic
CATTATGCTTATGGTGAGTT+TGG 0.336402 1:-82921254 MsaT005566.1:CDS
GGTTGTTCTCAAAGAAAATA+AGG 0.347288 1:-82921151 MsaT005566.1:CDS
TTTCATCTTGTGCCGGAGTT+AGG 0.348067 1:-82922380 MsaT005566.1:CDS
CATTAGTCCAGGGACACTTT+TGG 0.361781 1:+82921730 None:intergenic
AGCTGATGTTGAGAGCTTAT+TGG 0.374691 1:-82922078 MsaT005566.1:CDS
AGAAAATAAGGTACGAGGTT+AGG 0.382846 1:-82921139 MsaT005566.1:CDS
GATTAGAAAATGAGTGTATA+GGG 0.387111 1:-82922049 MsaT005566.1:CDS
GCTGATGTTGAGAGCTTATT+GGG 0.387210 1:-82922077 MsaT005566.1:CDS
GGATTAGAAAATGAGTGTAT+AGG 0.395364 1:-82922050 MsaT005566.1:CDS
CAAAAGTGTCCCTGGACTAA+TGG 0.395385 1:-82921729 MsaT005566.1:CDS
TGTCATCCAGTAACGGTAGA+TGG 0.408098 1:-82921221 MsaT005566.1:CDS
GGAGATAATATGATGGAGAT+TGG 0.419606 1:-82921921 MsaT005566.1:CDS
GCAGAGAGGCAAGGGTTTCA+AGG 0.431755 1:-82921196 MsaT005566.1:CDS
TGTATAGGGATGGAAGAGTT+GGG 0.440723 1:-82922035 MsaT005566.1:CDS
AGTGGAAAGGTGAAGGAAGA+AGG 0.445582 1:-82921969 MsaT005566.1:CDS
ATAAATTATACCATGCAATC+AGG 0.446039 1:+82921672 None:intergenic
TGTTGAGAGCTTATTGGGTA+AGG 0.449331 1:-82922072 MsaT005566.1:CDS
AACTCCGGCACAAGATGAAA+CGG 0.453947 1:+82922383 None:intergenic
TGAAAGGGAGATTTGTGAAG+AGG 0.460030 1:-82921088 MsaT005566.1:CDS
ATTTGGATGCTGATGAGAAC+TGG 0.465263 1:-82921695 MsaT005566.1:CDS
GTGGAAAGGTGAAGGAAGAA+GGG 0.466089 1:-82921968 MsaT005566.1:CDS
TCAGTTGGTTCAACTGAAAG+AGG 0.468044 1:-82922251 MsaT005566.1:CDS
GTGTATAGGGATGGAAGAGT+TGG 0.474392 1:-82922036 MsaT005566.1:CDS
TGGCTTGTCACCATTAGTCC+AGG 0.479305 1:+82921719 None:intergenic
AGTGAGAAGTGGAAGTGTAG+TGG 0.486251 1:-82921987 MsaT005566.1:CDS
TGTACTAGTCCTCCTTCAGT+TGG 0.493939 1:-82922266 MsaT005566.1:CDS
CTGTTGGAGGCAAAACTGCT+AGG 0.494037 1:-82922690 MsaT005566.1:CDS
GAGAGCTATGAAATTGTTGA+GGG 0.496187 1:-82921942 MsaT005566.1:CDS
GTTGAGAGCTTATTGGGTAA+GGG 0.499986 1:-82922071 MsaT005566.1:CDS
TATGCTTATGGTGAGTTTGG+TGG 0.509644 1:-82921251 MsaT005566.1:CDS
AGATGGAGGCAGAGAGGCAA+GGG 0.513332 1:-82921204 MsaT005566.1:CDS
GAAAGGGAGATTTGTGAAGA+GGG 0.514753 1:-82921087 MsaT005566.1:CDS
GAGAAGAGACCAAGAATGAA+AGG 0.514881 1:-82921104 MsaT005566.1:CDS
ATATTATTATTATTCCTCGC+TGG 0.519712 1:+82922407 None:intergenic
GGGATAGCCAAAAGTGTCCC+TGG 0.521182 1:-82921737 MsaT005566.1:CDS
ACTCCGGCACAAGATGAAAC+GGG 0.530371 1:+82922384 None:intergenic
TGGAAAGGTGAAGGAAGAAG+GGG 0.536636 1:-82921967 MsaT005566.1:CDS
AGAGAGCTATGAAATTGTTG+AGG 0.539264 1:-82921943 MsaT005566.1:CDS
TGAAACATGTGAAGAGGTGA+AGG 0.548485 1:-82921853 MsaT005566.1:CDS
GGTTCAACTGAAAGAGGACT+AGG 0.551091 1:-82922245 MsaT005566.1:CDS
AACGTAGCAAACGCTGTTGG+AGG 0.555203 1:-82922703 MsaT005566.1:CDS
AAATTCACATGACGAAAATG+AGG 0.559316 1:-82922339 MsaT005566.1:CDS
ATGATGCAGTAATCATTGCA+TGG 0.567325 1:-82921758 MsaT005566.1:CDS
TCGGCTAATTCAATATCAGA+TGG 0.569236 1:+82922107 None:intergenic
AGAAGAGACCAAGAATGAAA+GGG 0.570209 1:-82921103 MsaT005566.1:CDS
CTTTCAGTTGAACCAACTGA+AGG 0.572765 1:+82922254 None:intergenic
GAAGTGTAGTGGAAAGGTGA+AGG 0.573136 1:-82921976 MsaT005566.1:CDS
TGATGCAGTAATCATTGCAT+GGG 0.576146 1:-82921757 MsaT005566.1:CDS
AGCATGAGGAGAGTGAGAAG+TGG 0.578354 1:-82921998 MsaT005566.1:CDS
CCTCGCTGGTTCACTGCTCG+AGG 0.578376 1:+82922421 None:intergenic
TAGATGGAGGCAGAGAGGCA+AGG 0.578587 1:-82921205 MsaT005566.1:CDS
GGCTTGTCACCATTAGTCCA+GGG 0.579867 1:+82921720 None:intergenic
TGTTGAGGGAGATAATATGA+TGG 0.580179 1:-82921928 MsaT005566.1:CDS
AAAATAATGATTATAATAAG+GGG 0.580910 1:-82921809 MsaT005566.1:CDS
TCAGTTGAACCAACTGAAGG+AGG 0.581033 1:+82922257 None:intergenic
TGTTGGAGGCAAAACTGCTA+GGG 0.581207 1:-82922689 MsaT005566.1:CDS
AGAAAATGAGTGTATAGGGA+TGG 0.586862 1:-82922045 MsaT005566.1:CDS
TATCCCGTTTCATCTTGTGC+CGG 0.588273 1:-82922387 MsaT005566.1:CDS
TAGTGATAATAATTATGAGA+TGG 0.589411 1:-82922150 MsaT005566.1:CDS
GAAGAGGTGAAGGAGAAGTG+TGG 0.601873 1:-82921843 MsaT005566.1:CDS
AGGAAATGTTGGAACTGCAA+AGG 0.601959 1:+82921061 None:intergenic
TGAGAACTGGCCTGATTGCA+TGG 0.605682 1:-82921682 MsaT005566.1:intron
ATTGATTGATACAAAGCATG+AGG 0.625826 1:-82922012 MsaT005566.1:CDS
GTACATAATTCAGCAACAGA+AGG 0.631423 1:+82922284 None:intergenic
CTCAAAGAAAATAAGGTACG+AGG 0.632554 1:-82921144 MsaT005566.1:CDS
AACGGTAGATGGAGGCAGAG+AGG 0.643178 1:-82921210 MsaT005566.1:CDS
ACAGAGAAAAGCGAAGAACA+AGG 0.643427 1:-82921172 MsaT005566.1:CDS
TTCTCATGAAACATGTGAAG+AGG 0.648117 1:-82921859 MsaT005566.1:CDS
AACTGAAAGAGGACTAGGAG+TGG 0.648150 1:-82922240 MsaT005566.1:CDS
GAAGTGGAAGTGTAGTGGAA+AGG 0.652932 1:-82921982 MsaT005566.1:CDS
ACTTCATCGAAACCTAACTC+CGG 0.656115 1:+82922368 None:intergenic
ATATGGATGTCATCCAGTAA+CGG 0.662808 1:-82921228 MsaT005566.1:CDS
TGAGGCGCAACTTCTTTACA+GGG 0.664773 1:-82922321 MsaT005566.1:CDS
AGCGAAAGCAGAGTTCAACT+AGG 0.665722 1:-82922173 MsaT005566.1:CDS
CATCCAGTAACGGTAGATGG+AGG 0.676181 1:-82921218 MsaT005566.1:CDS
CCTCGAGCAGTGAACCAGCG+AGG 0.723417 1:-82922421 MsaT005566.1:CDS
GCATAACAAAGAGAGCACGT+TGG 0.777160 1:-82922654 MsaT005566.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 82921049 82922743 82921049 ID=MsaG005566
Chr1 mRNA 82921049 82922743 82921049 ID=MsaT005566.1;Parent=MsaG005566
Chr1 exon 82921049 82921297 82921049 ID=MsaT005566.1.exon3;Parent=MsaT005566.1
Chr1 CDS 82921049 82921297 82921049 ID=cds.MsaT005566.1;Parent=MsaT005566.1
Chr1 exon 82921683 82922464 82921683 ID=MsaT005566.1.exon2;Parent=MsaT005566.1
Chr1 CDS 82921683 82922464 82921683 ID=cds.MsaT005566.1;Parent=MsaT005566.1
Chr1 exon 82922530 82922743 82922530 ID=MsaT005566.1.exon1;Parent=MsaT005566.1
Chr1 CDS 82922530 82922743 82922530 ID=cds.MsaT005566.1;Parent=MsaT005566.1
Gene Sequence

>MsaT005566.1

ATGACTTGTTCTAGTAAAAACGTAGCAAACGCTGTTGGAGGCAAAACTGCTAGGGCTTGTGACAGTTGCATAACAAAGAGAGCACGTTGGTATTGTGCTGCTGATGATGCTTTTCTCTGTCAAGCTTGTGACTCTTCTGTTCATTCAGCTAATTCTTTAGCTCGAAGACATGAAAGAGTTCGTTTGAAAACAGCGTCGTACAAGTCCATTAATGGGAAACACAAATCAAAATCATCCTCGAGCAGTGAACCAGCGAGGAATAATAATAATATCCCGTTTCATCTTGTGCCGGAGTTAGGTTTCGATGAAGTTAATTCAAATTCACATGACGAAAATGAGGCGCAACTTCTTTACAGGGTACCAATTTTCGATCCTTCTGTTGCTGAATTATGTACTAGTCCTCCTTCAGTTGGTTCAACTGAAAGAGGACTAGGAGTGGTAGTTGTTGCTTCTGCTTTCGCTCCTGATGTTAAAAACAATGAGAGCGAAAGCAGAGTTCAACTAGGTAGTGATAATAATTATGAGATGGAAAGCTTTCACGAGCTTCTTCCATCTGATATTGAATTAGCCGAATTTGCAGCTGATGTTGAGAGCTTATTGGGTAAGGGATTAGAAAATGAGTGTATAGGGATGGAAGAGTTGGGATTGATTGATACAAAGCATGAGGAGAGTGAGAAGTGGAAGTGTAGTGGAAAGGTGAAGGAAGAAGGGGAAGAGAGCTATGAAATTGTTGAGGGAGATAATATGATGGAGATTGGAAAAGAATCTTCATTTGAGTTGAATTTTGATTATGATGATTCTCATGAAACATGTGAAGAGGTGAAGGAGAAGTGTGGAGAACAAAATGAAAATAATGATTATAATAAGGGGAAAAGAAAAATATCTTTGCAGCTAGATTATGATGCAGTAATCATTGCATGGGATAGCCAAAAGTGTCCCTGGACTAATGGTGACAAGCCAAATTTGGATGCTGATGAGAACTGGCCTGATTGCATGGGAACTTTTGGAACGGAGGTTCATTATGCTTATGGTGAGTTTGGTGGATATGGATGTCATCCAGTAACGGTAGATGGAGGCAGAGAGGCAAGGGTTTCAAGGTACAGAGAAAAGCGAAGAACAAGGTTGTTCTCAAAGAAAATAAGGTACGAGGTTAGGAAATTGAATGCAGAGAAGAGACCAAGAATGAAAGGGAGATTTGTGAAGAGGGCTTCCTTTGCAGTTCCAACATTTCCTTTGCTAAAATAA
Protein sequence

>MsaT005566.1

MTCSSKNVANAVGGKTARACDSCITKRARWYCAADDAFLCQACDSSVHSANSLARRHERVRLKTASYKSINGKHKSKSSSSSEPARNNNNIPFHLVPELGFDEVNSNSHDENEAQLLYRVPIFDPSVAELCTSPPSVGSTERGLGVVVVASAFAPDVKNNESESRVQLGSDNNYEMESFHELLPSDIELAEFAADVESLLGKGLENECIGMEELGLIDTKHEESEKWKCSGKVKEEGEESYEIVEGDNMMEIGKESSFELNFDYDDSHETCEEVKEKCGEQNENNDYNKGKRKISLQLDYDAVIIAWDSQKCPWTNGDKPNLDADENWPDCMGTFGTEVHYAYGEFGGYGCHPVTVDGGREARVSRYREKRRTRLFSKKIRYEVRKLNAEKRPRMKGRFVKRASFAVPTFPLLK*