AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005489

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005489 MtrunA17_Chr7g0252101 58.575 449 155 14 1 436 2 432 3.29e-160 459
MsaG005489 MtrunA17_Chr3g0093911 64.820 361 109 10 83 436 1 350 3.41e-144 415
MsaG005489 MtrunA17_Chr1g0207351 63.812 362 108 11 87 436 16 366 8.86e-142 409
MsaG005489 MtrunA17_Chr4g0075971 54.214 439 180 10 9 436 174 602 5.99e-137 405
MsaG005489 MtrunA17_Chr3g0077801 54.039 359 147 7 83 433 1 349 5.64e-117 346
MsaG005489 MtrunA17_Chr6g0488101 45.916 453 201 12 15 436 16 455 1.45e-114 343
MsaG005489 MtrunA17_Chr3g0077901 51.515 363 162 6 79 435 17 371 3.48e-111 332
MsaG005489 MtrunA17_Chr6g0488271 47.942 413 178 11 48 436 16 415 5.00e-111 333
MsaG005489 MtrunA17_Chr1g0209051 60.727 275 96 5 166 435 3 270 7.45e-104 309
MsaG005489 MtrunA17_Chr3g0077851 51.020 343 154 6 99 435 1 335 1.17e-103 311
MsaG005489 MtrunA17_Chr7g0243331 51.966 356 153 7 88 436 6 350 7.24e-103 310
MsaG005489 MtrunA17_Chr3g0112311 48.501 367 162 9 83 434 1 355 3.25e-96 293
MsaG005489 MtrunA17_Chr3g0122991 42.553 329 121 6 86 403 3 274 1.11e-71 227
MsaG005489 MtrunA17_Chr6g0452641 46.626 326 148 8 126 436 26 340 8.77e-71 227
MsaG005489 MtrunA17_Chr3g0123471 48.120 266 122 6 168 428 5 259 2.60e-64 207
MsaG005489 MtrunA17_Chr1g0202841 58.065 186 64 6 258 436 1 179 6.43e-60 193
MsaG005489 MtrunA17_Chr4g0075861 55.446 202 81 4 9 203 174 373 4.05e-53 182
MsaG005489 MtrunA17_Chr7g0243391 47.887 213 107 3 79 290 14 223 2.31e-45 157
MsaG005489 MtrunA17_Chr1g0196231 61.486 148 50 4 80 225 224 366 1.55e-42 153
MsaG005489 MtrunA17_Chr1g0206951 57.724 123 49 3 86 206 2 123 1.67e-36 130
MsaG005489 MtrunA17_Chr1g0187941 52.778 144 57 4 258 397 1 137 6.20e-36 129
MsaG005489 MtrunA17_Chr1g0196241 68.182 88 27 1 334 420 1 88 6.02e-35 124
MsaG005489 MtrunA17_Chr6g0486591 46.707 167 66 7 285 436 1 159 1.57e-33 123
MsaG005489 MtrunA17_Chr1g0209061 53.226 124 38 4 1 122 2 107 1.60e-31 116
MsaG005489 MtrunA17_Chr1g0209191 58.586 99 32 2 345 435 1 98 6.58e-30 111
MsaG005489 MtrunA17_Chr6g0459061 27.457 346 233 9 91 432 18 349 3.66e-27 111
MsaG005489 MtrunA17_Chr7g0238781 37.778 135 80 4 115 248 27 158 2.91e-15 73.2
MsaG005489 MtrunA17_Chr5g0415031 47.619 84 35 2 4 78 31 114 8.18e-13 70.9
MsaG005489 MtrunA17_Chr1g0206781 45.946 74 40 0 15 88 19 92 1.01e-12 64.7
MsaG005489 MtrunA17_Chr1g0206771 50.769 65 32 0 10 74 98 162 7.98e-12 63.9
MsaG005489 MtrunA17_Chr1g0205861 42.308 78 45 0 10 87 19 96 8.41e-12 62.0
MsaG005489 MtrunA17_Chr8g0364231 38.053 113 53 3 8 118 41 138 1.91e-11 66.6
MsaG005489 MtrunA17_Chr3g0077811 51.786 56 27 0 21 76 28 83 2.87e-11 60.5
MsaG005489 MtrunA17_Chr1g0205811 41.667 96 47 2 9 95 14 109 4.11e-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
MsaG005489 AT1G24190.2 51.389 72 33 1 8 77 13 84 4.66e-13 72.0
MsaG005489 AT1G24190.1 51.389 72 33 1 8 77 13 84 4.67e-13 72.0
MsaG005489 AT1G24190.3 51.389 72 33 1 8 77 13 84 5.15e-13 72.0
MsaG005489 AT1G70060.2 52.857 70 31 1 9 76 14 83 2.06e-11 67.0
MsaG005489 AT1G70060.1 52.857 70 31 1 9 76 14 83 2.06e-11 67.0
MsaG005489 AT3G01320.2 37.190 121 57 4 8 126 56 159 6.02e-11 65.5
MsaG005489 AT5G15020.1 45.349 86 42 2 8 88 51 136 6.69e-11 65.1
MsaG005489 AT3G01320.1 37.190 121 57 4 8 126 56 159 6.93e-11 65.1
MsaG005489 AT5G15020.2 45.349 86 42 2 8 88 51 136 7.35e-11 65.1

Find 79 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGGCATACTGATTTAATTT+TGG 0.112441 1:+81934154 MsaT005489.1:CDS
ACCTTCTTTATTCTTGTAAA+TGG 0.131332 1:-81938677 None:intergenic
CTCTCATATCCCCACTTATT+CGG 0.195575 1:-81939208 None:intergenic
TAAGAAACTTGAAGAATTAA+TGG 0.210838 1:-81938500 None:intergenic
CTCTGAGGAATTTGTCTTGA+TGG 0.261294 1:+81938772 MsaT005489.1:CDS
ATGAAATACCCTCAACCTTT+AGG 0.276024 1:+81939002 MsaT005489.1:CDS
CTCTGAAATCAAGCCTTATA+TGG 0.300310 1:+81938715 MsaT005489.1:CDS
AGAGTCAAGCAGCTGCTTAA+AGG 0.323406 1:+81934134 MsaT005489.1:CDS
GCAAAATGTAGTGTGTATTC+CGG 0.338701 1:+81939265 MsaT005489.1:CDS
TAAACATAGATGAGTGCTTC+TGG 0.348959 1:+81938579 MsaT005489.1:CDS
AAAGGTTGAGGGTATTTCAT+TGG 0.363083 1:-81938999 None:intergenic
TCTCATATCCCCACTTATTC+GGG 0.366790 1:-81939207 None:intergenic
TAAGGGATGTGTACAGGATA+AGG 0.368086 1:+81939077 MsaT005489.1:CDS
CATATTCCTACACGTTTGAT+TGG 0.378889 1:+81939335 MsaT005489.1:CDS
CAAAATGTAGTGTGTATTCC+GGG 0.390668 1:+81939266 MsaT005489.1:CDS
TTATGTCAAACTGGAAACTT+TGG 0.395167 1:+81939132 MsaT005489.1:CDS
AACCATGAGTTATGTCAAAC+TGG 0.399495 1:+81939123 MsaT005489.1:CDS
AGTTTGATTTGATGTTCCTT+TGG 0.399942 1:-81934194 None:intergenic
AGTCATCAAAATCTAATGTT+TGG 0.409906 1:-81938397 None:intergenic
GTTGTGATCTAAAGGGAAAA+AGG 0.417556 1:+81938319 MsaT005489.1:intron
GAGTCAAGCAGCTGCTTAAA+GGG 0.418662 1:+81934135 MsaT005489.1:CDS
TTGGTCGGGTATGCTGATAA+AGG 0.422181 1:-81938540 None:intergenic
AAGGTTGAGGGTATTTCATT+GGG 0.422234 1:-81938998 None:intergenic
ATATGGATCTTAACCGTGCT+TGG 0.424144 1:+81938732 MsaT005489.1:CDS
GCACGGTTAAGATCCATATA+AGG 0.426694 1:-81938728 None:intergenic
TTGCCGGTGTGTGCAAGAAT+TGG 0.432034 1:+81938429 MsaT005489.1:CDS
TGCATTATGCTTCCAGCTCA+TGG 0.442339 1:+81939310 MsaT005489.1:CDS
TGATTTGATGTTCCTTTGGC+AGG 0.443659 1:-81934190 None:intergenic
TGGGTTACTTATTCGACAAT+GGG 0.449270 1:+81938848 MsaT005489.1:CDS
AATATCCAAGTCACTCAACT+AGG 0.457567 1:-81939393 None:intergenic
ATTACAATTAACCAACCTAA+AGG 0.459909 1:-81939017 None:intergenic
TTGGCAGCGATTGTACAAGC+TGG 0.463810 1:+81934020 MsaT005489.1:CDS
AAGCTGGGTTTCAAGATAAG+AGG 0.471098 1:+81934036 MsaT005489.1:CDS
AAGGGATGTGTACAGGATAA+GGG 0.471486 1:+81939078 MsaT005489.1:CDS
AATATATGTTGTCACTTTCG+AGG 0.471894 1:+81938913 MsaT005489.1:CDS
ATCAATCTCGAAATTGTGGT+TGG 0.483573 1:+81938828 MsaT005489.1:CDS
TATGTCAAACTGGAAACTTT+GGG 0.486945 1:+81939133 MsaT005489.1:CDS
ATAAAATAAGGGATGTGTAC+AGG 0.487509 1:+81939071 MsaT005489.1:CDS
TAGGAATATGCTCCATGAGC+TGG 0.492289 1:-81939322 None:intergenic
GTCACTTTCGAGGGCAACAT+AGG 0.493506 1:+81938923 MsaT005489.1:CDS
TCCATTTACAAGAATAAAGA+AGG 0.500617 1:+81938676 MsaT005489.1:CDS
TCAATCTCGAAATTGTGGTT+GGG 0.502080 1:+81938829 MsaT005489.1:CDS
TGATAGACATGCAAGATCTC+AGG 0.503913 1:-81938809 None:intergenic
TGGCAGCGATTGTACAAGCT+GGG 0.511829 1:+81934021 MsaT005489.1:CDS
AGCTGGGTTTCAAGATAAGA+GGG 0.518029 1:+81934037 MsaT005489.1:CDS
CATTGAGCAACCCGAATAAG+TGG 0.521050 1:+81939197 MsaT005489.1:CDS
GTCTATCAATCTCGAAATTG+TGG 0.522717 1:+81938824 MsaT005489.1:CDS
ATTAACCAACCTAAAGGTTG+AGG 0.523383 1:-81939011 None:intergenic
TCACTTTCGAGGGCAACATA+GGG 0.529869 1:+81938924 MsaT005489.1:CDS
AATACCCTCAACCTTTAGGT+TGG 0.533454 1:+81939006 MsaT005489.1:CDS
AATGATATCAAGCACATCAC+AGG 0.534113 1:-81938372 None:intergenic
CCGGTGTGTGCAAGAATTGG+AGG 0.534247 1:+81938432 MsaT005489.1:CDS
TTCCAGTTTGACATAACTCA+TGG 0.536068 1:-81939125 None:intergenic
ATATATGTTGTCACTTTCGA+GGG 0.539644 1:+81938914 MsaT005489.1:CDS
AAAACTCCTAAAAGATGTCA+AGG 0.541090 1:+81934079 MsaT005489.1:CDS
CATATAAGGCTTGATTTCAG+AGG 0.542743 1:-81938714 None:intergenic
TTGATGTTCCTTTGGCAGGA+AGG 0.546048 1:-81934186 None:intergenic
TTGGGTTACTTATTCGACAA+TGG 0.547533 1:+81938847 MsaT005489.1:CDS
ATATCCAAGTCACTCAACTA+GGG 0.561752 1:-81939392 None:intergenic
ACCTATGTTACGTCTTCTAA+CGG 0.564873 1:+81938608 MsaT005489.1:CDS
TTAACCAACCTAAAGGTTGA+GGG 0.566777 1:-81939010 None:intergenic
CAAATCAAACTTGAGACCAC+TGG 0.570634 1:+81934206 MsaT005489.1:CDS
ATATAAGGCTTGATTTCAGA+GGG 0.576887 1:-81938713 None:intergenic
GCACATCACAGGGAAGTTCA+CGG 0.580584 1:-81938361 None:intergenic
AATTTATACAAGACGTTCTG+CGG 0.581560 1:+81934109 MsaT005489.1:CDS
AGTAAGAGTTGTTGACGCTG+TGG 0.603128 1:+81938877 MsaT005489.1:CDS
ATTCAACACCTTCCTGCCAA+AGG 0.618562 1:+81934178 MsaT005489.1:CDS
CACTTTCGAGGGCAACATAG+GGG 0.620239 1:+81938925 MsaT005489.1:CDS
ATTGAGCAACCCGAATAAGT+GGG 0.621690 1:+81939198 MsaT005489.1:CDS
CGGTGTGTGCAAGAATTGGA+GGG 0.623193 1:+81938433 MsaT005489.1:CDS
TGTCAAAAGCAAGCCAAGCA+CGG 0.623330 1:-81938745 None:intergenic
TCCGTTAGAAGACGTAACAT+AGG 0.634163 1:-81938609 None:intergenic
AAAACACCAATCAAACGTGT+AGG 0.635770 1:-81939341 None:intergenic
ATGATATCAAGCACATCACA+GGG 0.647975 1:-81938371 None:intergenic
CCTCCAATTCTTGCACACAC+CGG 0.651110 1:-81938432 None:intergenic
TTGAGCAACCCGAATAAGTG+GGG 0.684144 1:+81939199 MsaT005489.1:CDS
GCTGGGTTTCAAGATAAGAG+GGG 0.722942 1:+81934038 MsaT005489.1:CDS
TCGCTGCCAACGCATCATCG+CGG 0.747815 1:-81934007 None:intergenic
AAAATGTAGTGTGTATTCCG+GGG 0.780507 1:+81939267 MsaT005489.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 81933990 81939405 81933990 ID=MsaG005489
Chr1 mRNA 81933990 81939405 81933990 ID=MsaT005489.1;Parent=MsaG005489
Chr1 exon 81933990 81934227 81933990 ID=MsaT005489.1.exon1;Parent=MsaT005489.1
Chr1 CDS 81933990 81934227 81933990 ID=cds.MsaT005489.1;Parent=MsaT005489.1
Chr1 exon 81938333 81939405 81938333 ID=MsaT005489.1.exon2;Parent=MsaT005489.1
Chr1 CDS 81938333 81939405 81938333 ID=cds.MsaT005489.1;Parent=MsaT005489.1
Gene Sequence

>MsaT005489.1

ATGGAGATCCCAAAAAACCGCGATGATGCGTTGGCAGCGATTGTACAAGCTGGGTTTCAAGATAAGAGGGGAGATTACAATGAGCTTTTAAAACTCCTAAAAGATGTCAAGGATCAAACAATTTATACAAGACGTTCTGCGGCAAGAGTCAAGCAGCTGCTTAAAGGGCATACTGATTTAATTTTGGGATTCAACACCTTCCTGCCAAAGGAACATCAAATCAAACTTGAGACCACTGGGAAAAAGGTGAAGAATGTACAAGAGAACCGTGAACTTCCCTGTGATGTGCTTGATATCATTTACCAAACATTAGATTTTGATGACTTTTTTCAGTTTGCCGGTGTGTGCAAGAATTGGAGGGCTTTTCATAAAATTCACCGGAGAAATTTTTTGGCATCGCAAGAACCATTAATTCTTCAAGTTTCTTATGTTATTCGATCACTTTCCTTTATCAGCATACCCGACCAAAAAGTTAATTATCGCTTAAACATAGATGAGTGCTTCTGGAATTATACCTATGTTACGTCTTCTAACGGATATTTTATCTCGGTTGGGAGAAATAATTCAGTTTTGCTACTCAATCCATTTACAAGAATAAAGAAGGTAATCAATACATGTCCCTCTGAAATCAAGCCTTATATGGATCTTAACCGTGCTTGGCTTGCTTTTGACAAATGCTCTGAGGAATTTGTCTTGATGGTTTTGTGCTATTTTCCTGAGATCTTGCATGTCTATCAATCTCGAAATTGTGGTTGGGTTACTTATTCGACAATGGGAAATAAAGTAAGAGTTGTTGACGCTGTGGTTTTGCATAATATAATATATGTTGTCACTTTCGAGGGCAACATAGGGGTAATTAGCTTGAATTCATCAAAAATTAAATTTCTAACACTAAAGAATACTCCCAATGAAATACCCTCAACCTTTAGGTTGGTTAATTGTAATGAACAACTTGTAGTGCTTGATTTTAGGTACAATAAAATAAGGGATGTGTACAGGATAAGGGATGTGTACAAGATAGACTTCTCAACCATGAGTTATGTCAAACTGGAAACTTTGGGCGACATTGCGTTATTTCATGCTTCAGAAAGAAATTCTTATGCATTGAGCAACCCGAATAAGTGGGGATATGAGAGCAACTTTGTGTATGCATTGAACGACATTAAATCTGCAAAATGTAGTGTGTATTCCGGGGATGATAAAAAATTGAAAAAATGCATTATGCTTCCAGCTCATGGAGCATATTCCTACACGTTTGATTGGTGTTTTAGACATCAACAATATGAGGTAGATTATTCCCTAGTTGAGTGA
Protein sequence

>MsaT005489.1

MEIPKNRDDALAAIVQAGFQDKRGDYNELLKLLKDVKDQTIYTRRSAARVKQLLKGHTDLILGFNTFLPKEHQIKLETTGKKVKNVQENRELPCDVLDIIYQTLDFDDFFQFAGVCKNWRAFHKIHRRNFLASQEPLILQVSYVIRSLSFISIPDQKVNYRLNIDECFWNYTYVTSSNGYFISVGRNNSVLLLNPFTRIKKVINTCPSEIKPYMDLNRAWLAFDKCSEEFVLMVLCYFPEILHVYQSRNCGWVTYSTMGNKVRVVDAVVLHNIIYVVTFEGNIGVISLNSSKIKFLTLKNTPNEIPSTFRLVNCNEQLVVLDFRYNKIRDVYRIRDVYKIDFSTMSYVKLETLGDIALFHASERNSYALSNPNKWGYESNFVYALNDIKSAKCSVYSGDDKKLKKCIMLPAHGAYSYTFDWCFRHQQYEVDYSLVE*