AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005488

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005488 MtrunA17_Chr7g0252101 53.211 218 89 7 1 213 1 210 2.53e-61 199
MsaG005488 MtrunA17_Chr4g0075861 56.061 198 80 2 14 205 175 371 5.28e-60 194
MsaG005488 MtrunA17_Chr4g0075971 56.061 198 80 2 14 205 175 371 2.03e-58 195
MsaG005488 MtrunA17_Chr6g0488101 41.810 232 115 5 4 218 1 229 3.86e-53 178
MsaG005488 MtrunA17_Chr6g0488271 45.833 192 91 4 37 218 1 189 1.14e-48 166
MsaG005488 MtrunA17_Chr3g0093911 65.000 120 41 1 87 205 1 120 3.66e-45 155
MsaG005488 MtrunA17_Chr1g0196231 64.228 123 39 3 84 205 224 342 1.47e-43 151
MsaG005488 MtrunA17_Chr1g0207351 57.971 138 51 4 91 222 16 152 3.78e-43 150
MsaG005488 MtrunA17_Chr1g0206951 60.177 113 44 1 90 201 2 114 1.62e-42 141
MsaG005488 MtrunA17_Chr3g0077901 51.799 139 65 1 83 221 17 153 1.96e-41 145
MsaG005488 MtrunA17_Chr3g0077801 57.143 119 51 0 87 205 1 119 7.75e-40 141
MsaG005488 MtrunA17_Chr1g0209061 58.730 126 33 4 1 126 1 107 6.64e-39 131
MsaG005488 MtrunA17_Chr3g0122991 50.769 130 60 3 89 218 2 127 4.80e-36 129
MsaG005488 MtrunA17_Chr3g0077851 49.580 119 58 1 103 221 1 117 2.42e-31 118
MsaG005488 MtrunA17_Chr3g0112311 47.407 135 69 1 87 221 1 133 1.33e-30 117
MsaG005488 MtrunA17_Chr7g0243331 52.632 114 53 1 92 205 6 118 2.10e-26 105
MsaG005488 MtrunA17_Chr7g0243391 45.000 120 64 1 83 202 14 131 2.31e-23 95.1
MsaG005488 MtrunA17_Chr5g0415031 50.000 86 39 2 9 91 42 126 4.54e-16 77.8
MsaG005488 MtrunA17_Chr6g0452001 52.055 73 34 1 9 81 62 133 2.03e-15 75.9
MsaG005488 MtrunA17_Chr1g0206781 51.515 66 32 0 14 79 14 79 1.10e-14 68.9
MsaG005488 MtrunA17_Chr8g0364231 39.474 114 53 3 9 122 41 138 2.50e-14 72.8
MsaG005488 MtrunA17_Chr8g0364021 47.945 73 37 1 8 80 42 113 4.25e-14 70.1
MsaG005488 MtrunA17_Chr1g0206771 50.000 66 33 0 14 79 98 163 2.74e-13 66.6
MsaG005488 MtrunA17_Chr1g0206771 47.692 65 34 0 10 74 15 79 4.78e-12 63.2
MsaG005488 MtrunA17_Chr1g0209201 42.169 83 41 2 2 78 1 82 7.59e-13 64.3
MsaG005488 MtrunA17_Chr6g0452021 38.596 114 50 3 10 122 43 137 1.30e-12 67.0
MsaG005488 MtrunA17_Chr1g0205811 40.860 93 48 1 14 99 17 109 4.37e-12 61.6
MsaG005488 MtrunA17_Chr1g0205861 40.909 88 48 1 14 101 19 102 6.91e-12 61.2
MsaG005488 MtrunA17_Chr6g0452641 45.000 80 44 0 130 209 26 105 1.02e-11 64.3
MsaG005488 MtrunA17_Chr3g0077861 46.667 90 36 3 2 80 72 160 1.69e-11 61.2
MsaG005488 MtrunA17_Chr3g0077911 54.167 72 31 2 10 80 90 160 2.67e-11 60.5
MsaG005488 MtrunA17_Chr1g0205821 38.272 81 50 0 9 89 97 177 4.40e-11 60.5
MsaG005488 MtrunA17_Chr3g0077941 50.746 67 32 1 14 79 101 167 4.61e-11 60.1
MsaG005488 MtrunA17_Chr3g0077811 43.662 71 40 0 10 80 13 83 8.44e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005488 AT1G24190.3 54.795 73 32 1 9 81 13 84 1.80e-16 79.3
MsaG005488 AT1G24190.2 54.795 73 32 1 9 81 13 84 1.85e-16 79.3
MsaG005488 AT1G24190.1 54.795 73 32 1 9 81 13 84 1.91e-16 79.3
MsaG005488 AT3G01320.1 39.844 128 58 5 9 135 56 165 1.28e-15 77.0
MsaG005488 AT3G01320.2 39.844 128 58 5 9 135 56 165 1.40e-15 77.0
MsaG005488 AT5G15020.2 49.425 87 40 2 9 92 51 136 3.33e-15 75.9
MsaG005488 AT5G15020.1 49.425 87 40 2 9 92 51 136 3.59e-15 75.5
MsaG005488 AT1G70060.2 55.556 72 31 1 9 80 13 83 6.27e-15 75.1
MsaG005488 AT1G70060.1 55.556 72 31 1 9 80 13 83 6.27e-15 75.1
MsaG005488 AT1G59890.1 48.750 80 40 1 10 89 45 123 4.92e-14 72.4
MsaG005488 AT1G59890.4 48.750 80 40 1 10 89 45 123 5.05e-14 72.0
MsaG005488 AT1G59890.3 48.750 80 40 1 10 89 45 123 5.10e-14 72.0
MsaG005488 AT1G59890.2 48.750 80 40 1 10 89 45 123 5.11e-14 72.0
MsaG005488 AT5G15025.1 49.315 73 36 1 9 81 46 117 1.03e-12 63.9
MsaG005488 AT1G10450.3 49.296 71 35 1 10 80 84 153 9.81e-12 65.5
MsaG005488 AT1G10450.2 49.296 71 35 1 10 80 33 102 1.15e-11 65.1
MsaG005488 AT1G10450.1 49.296 71 35 1 10 80 33 102 1.15e-11 65.1
MsaG005488 AT1G70030.3 45.070 71 38 1 10 80 22 91 1.51e-11 60.8
MsaG005488 AT1G70030.2 45.070 71 38 1 10 80 22 91 3.35e-11 60.1
MsaG005488 AT4G12020.11 47.887 71 35 2 10 80 308 376 3.59e-11 63.5
MsaG005488 AT4G12020.1 47.887 71 35 2 10 80 308 376 3.97e-11 63.5
MsaG005488 AT4G12020.9 47.887 71 35 2 10 80 308 376 3.97e-11 63.5
MsaG005488 AT4G12020.7 47.887 71 35 2 10 80 308 376 4.11e-11 63.5
MsaG005488 AT4G12020.2 47.887 71 35 2 10 80 308 376 4.18e-11 63.5
MsaG005488 AT4G12020.5 47.887 71 35 2 10 80 241 309 4.20e-11 63.5
MsaG005488 AT4G12020.6 47.887 71 35 2 10 80 308 376 4.22e-11 63.5
MsaG005488 AT4G12020.8 47.887 71 35 2 10 80 308 376 4.22e-11 63.5
MsaG005488 AT4G12020.10 47.887 71 35 2 10 80 308 376 4.37e-11 63.5
MsaG005488 AT4G12020.4 47.887 71 35 2 10 80 308 376 4.37e-11 63.5
MsaG005488 AT4G12020.3 47.887 71 35 2 10 80 308 376 4.53e-11 63.5
MsaG005488 AT1G70030.1 45.070 71 38 1 10 80 11 80 5.71e-11 60.1

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGGCATAATCACTTAATTT+TGG 0.093727 1:+81922669 MsaT005488.1:CDS
ACCTTCTTTATTCTTGTAAA+TGG 0.131332 1:-81924789 None:intergenic
CCAATGCATCGTCGCGGTTT+TGG 0.138304 1:-81922507 None:intergenic
TAAGAAACTTGAAGAATTAA+TGG 0.203806 1:-81924612 None:intergenic
CTTGAAGAATTAATGGTTCT+TGG 0.235810 1:-81924605 None:intergenic
TATTAAAGTGATAAACTCTT+TGG 0.304173 1:-81924674 None:intergenic
CAAGTTTCTTATGATGGTAT+TGG 0.307141 1:+81924624 MsaT005488.1:CDS
AGTTCATCGGAGAAGTTTCT+TGG 0.320045 1:+81924578 MsaT005488.1:CDS
AGAGTCAAGCAGCTGCTTAA+AGG 0.323406 1:+81922649 MsaT005488.1:CDS
ACGGAGGAGATGAGCATTCT+TGG 0.346518 1:+81926000 MsaT005488.1:CDS
TTGAAGAATTAATGGTTCTT+GGG 0.366917 1:-81924604 None:intergenic
CCGTCCAACTTCTTCGAAAC+GGG 0.372783 1:-81925981 None:intergenic
ACACACCAGCAAACTGAAAA+AGG 0.377200 1:-81924530 None:intergenic
ATTCTTCAAGTTTCTTATGA+TGG 0.397160 1:+81924618 MsaT005488.1:CDS
TCTTCGAAACGGGTTGTAGA+TGG 0.406617 1:-81925971 None:intergenic
AGTGTAATTTGATGTTCCTT+TGG 0.407139 1:-81922709 None:intergenic
GTTGTGATCTAAAGGGAAAA+AGG 0.417556 1:+81924431 MsaT005488.1:intron
GAGTCAAGCAGCTGCTTAAA+GGG 0.418662 1:+81922650 MsaT005488.1:CDS
TCCGTCCAACTTCTTCGAAA+CGG 0.421575 1:-81925982 None:intergenic
TTGCTGGTGTGTGCAAGAAT+TGG 0.439926 1:+81924541 MsaT005488.1:CDS
AAGAGAACCGTGAACTTCCC+TGG 0.441498 1:+81924466 MsaT005488.1:CDS
TAATTTGATGTTCCTTTGGC+AGG 0.455833 1:-81922705 None:intergenic
TGCATTGGCAGCGTTTCATA+AGG 0.456199 1:+81922522 MsaT005488.1:CDS
AAGTGATAAACTCTTTGGTC+GGG 0.461299 1:-81924669 None:intergenic
AAGCTGCGTTTCAAGATAAG+AGG 0.471098 1:+81922551 MsaT005488.1:CDS
CTGGTGTGTGCAAGAATTGG+AGG 0.479937 1:+81924544 MsaT005488.1:CDS
CCAAAACCGCGACGATGCAT+TGG 0.481999 1:+81922507 MsaT005488.1:CDS
TCCATTTACAAGAATAAAGA+AGG 0.500617 1:+81924788 MsaT005488.1:CDS
ACAACCCGTTTCGAAGAAGT+TGG 0.507578 1:+81925977 MsaT005488.1:CDS
TTGGTCGGGTATGCTGATAA+AGG 0.524234 1:-81924655 None:intergenic
AAAGTGATAAACTCTTTGGT+CGG 0.532827 1:-81924670 None:intergenic
AATGATATCAAGCACATCCC+AGG 0.534424 1:-81924484 None:intergenic
TTGATGTTCCTTTGGCAGGA+AGG 0.538933 1:-81922701 None:intergenic
AAAACTCCTAAAAGATGTCA+AGG 0.541090 1:+81922594 MsaT005488.1:CDS
CAAATTACACTTGAGACCAC+TGG 0.549130 1:+81922721 MsaT005488.1:CDS
GCACATCCCAGGGAAGTTCA+CGG 0.568166 1:-81924473 None:intergenic
TGAGCATTCTTGGTAAATCG+TGG 0.572324 1:+81926010 MsaT005488.1:CDS
AGCTGCGTTTCAAGATAAGA+GGG 0.579749 1:+81922552 MsaT005488.1:CDS
AGAGAACCGTGAACTTCCCT+GGG 0.583323 1:+81924467 MsaT005488.1:CDS
GAGCATTCTTGGTAAATCGT+GGG 0.586164 1:+81926011 MsaT005488.1:CDS
ATAAGTAATCAATTGCTCAC+AGG 0.595200 1:-81926037 None:intergenic
TGGTGTGTGCAAGAATTGGA+GGG 0.606132 1:+81924545 MsaT005488.1:CDS
CAGCTGCTTGACTCTTGCCG+CGG 0.614341 1:-81922641 None:intergenic
CCCGTTTCGAAGAAGTTGGA+CGG 0.616088 1:+81925981 MsaT005488.1:CDS
ATTCAACACCTTCCTGCCAA+AGG 0.618562 1:+81922693 MsaT005488.1:CDS
TAGATGGCTCGAAATTGACT+CGG 0.627708 1:-81925955 None:intergenic
ATGATATCAAGCACATCCCA+GGG 0.640240 1:-81924483 None:intergenic
AATTTACACAAGAGATGCCG+CGG 0.661466 1:+81922624 MsaT005488.1:CDS
ACATATGCTACGTCTTCTAG+CGG 0.696930 1:+81924720 MsaT005488.1:CDS
GTTTCGAAGAAGTTGGACGG+AGG 0.709693 1:+81925984 MsaT005488.1:CDS
GCTGCGTTTCAAGATAAGAG+GGG 0.729457 1:+81922553 MsaT005488.1:CDS
ACGCTGCCAATGCATCGTCG+CGG 0.755650 1:-81922513 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 81922493 81926116 81922493 ID=MsaG005488
Chr1 mRNA 81922493 81926116 81922493 ID=MsaT005488.1;Parent=MsaG005488
Chr1 exon 81922493 81922742 81922493 ID=MsaT005488.1.exon1;Parent=MsaT005488.1
Chr1 CDS 81922493 81922742 81922493 ID=cds.MsaT005488.1;Parent=MsaT005488.1
Chr1 exon 81924445 81924809 81924445 ID=MsaT005488.1.exon2;Parent=MsaT005488.1
Chr1 CDS 81924445 81924809 81924445 ID=cds.MsaT005488.1;Parent=MsaT005488.1
Chr1 exon 81925940 81926116 81925940 ID=MsaT005488.1.exon3;Parent=MsaT005488.1
Chr1 CDS 81925940 81926116 81925940 ID=cds.MsaT005488.1;Parent=MsaT005488.1
Gene Sequence

>MsaT005488.1

ATGATGAAGATCCCCCAAAACCGCGACGATGCATTGGCAGCGTTTCATAAGGCTGTACAAGCTGCGTTTCAAGATAAGAGGGGAGATTACAATGAGCTTTTAAAACTCCTAAAAGATGTCAAGGATCAAACAATTTACACAAGAGATGCCGCGGCAAGAGTCAAGCAGCTGCTTAAAGGGCATAATCACTTAATTTTGGGATTCAACACCTTCCTGCCAAAGGAACATCAAATTACACTTGAGACCACTGGGAAAAAGGTGAAGAAGGTAGAAGAGAACCGTGAACTTCCCTGGGATGTGCTTGATATCATTTCTCAAACACTAGATTTTGACGACCTTTTTCAGTTTGCTGGTGTGTGCAAGAATTGGAGGGTTTTTCATAAAGTTCATCGGAGAAGTTTCTTGGCATCCCAAGAACCATTAATTCTTCAAGTTTCTTATGATGGTATTGGATCTCTTGCCTTTATCAGCATACCCGACCAAAGAGTTTATCACTTTAATATAGACGAGTGCTTCTCGAAATATACATATGCTACGTCTTCTAGCGGATATTTTATCTTGGTGGGGAGAAATAATTCAGTTTTGCTACTCAATCCATTTACAAGAATAAAGAAGAAATGCAAGAACAAACCGAGTCAATTTCGAGCCATCTACAACCCGTTTCGAAGAAGTTGGACGGAGGAGATGAGCATTCTTGGTAAATCGTGGGTTGCCTGTGAGCAATTGATTACTTATCCAACCTCTTCTTTTTTAAGCAAATGGGGTGCAGAAAGATCTGCAACACCTAAGTAG
Protein sequence

>MsaT005488.1

MMKIPQNRDDALAAFHKAVQAAFQDKRGDYNELLKLLKDVKDQTIYTRDAAARVKQLLKGHNHLILGFNTFLPKEHQITLETTGKKVKKVEENRELPWDVLDIISQTLDFDDLFQFAGVCKNWRVFHKVHRRSFLASQEPLILQVSYDGIGSLAFISIPDQRVYHFNIDECFSKYTYATSSSGYFILVGRNNSVLLLNPFTRIKKKCKNKPSQFRAIYNPFRRSWTEEMSILGKSWVACEQLITYPTSSFLSKWGAERSATPK*