AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002729

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002729 MtrunA17_Chr1g0177251 94.539 293 11 1 1 293 1 288 0.0 552
MsaG002729 MtrunA17_Chr3g0126201 54.610 141 38 4 3 142 41 156 1.24e-41 146
MsaG002729 MtrunA17_Chr2g0326001 63.441 93 28 2 13 105 41 127 4.92e-32 120
MsaG002729 MtrunA17_Chr3g0127201 87.037 54 7 0 13 66 28 81 1.80e-29 113
MsaG002729 MtrunA17_Chr8g0346551 87.037 54 7 0 13 66 25 78 2.51e-29 112
MsaG002729 MtrunA17_Chr4g0047001 58.416 101 28 3 14 105 57 152 8.33e-29 113
MsaG002729 MtrunA17_Chr8g0374251 81.034 58 11 0 8 65 64 121 8.78e-29 112
MsaG002729 MtrunA17_Chr4g0030051 90.196 51 5 0 14 64 43 93 2.75e-28 110
MsaG002729 MtrunA17_Chr4g0031411 75.862 58 14 0 14 71 77 134 3.12e-28 110
MsaG002729 MtrunA17_Chr1g0188851 75.410 61 15 0 6 66 37 97 4.20e-28 109
MsaG002729 MtrunA17_Chr7g0237921 81.132 53 10 0 14 66 78 130 1.01e-27 109
MsaG002729 MtrunA17_Chr8g0367161 75.862 58 14 0 9 66 29 86 1.82e-27 108
MsaG002729 MtrunA17_Chr2g0328021 77.358 53 12 0 14 66 64 116 2.45e-27 107
MsaG002729 MtrunA17_Chr7g0223311 79.310 58 9 1 14 68 79 136 2.91e-27 108
MsaG002729 MtrunA17_Chr5g0411951 87.755 49 6 0 14 62 45 93 1.39e-26 106
MsaG002729 MtrunA17_Chr3g0117601 81.132 53 10 0 10 62 59 111 2.59e-26 105
MsaG002729 MtrunA17_Chr2g0282441 84.000 50 8 0 14 63 27 76 3.01e-26 105
MsaG002729 MtrunA17_Chr4g0010151 79.245 53 11 0 14 66 84 136 3.57e-26 105
MsaG002729 MtrunA17_Chr4g0061761 85.714 49 7 0 14 62 42 90 2.30e-25 102
MsaG002729 MtrunA17_Chr8g0341671 80.000 50 10 0 14 63 22 71 1.01e-24 99.0
MsaG002729 MtrunA17_Chr2g0308011 78.431 51 11 0 10 60 35 85 2.45e-24 97.8
MsaG002729 MtrunA17_Chr2g0282511 85.106 47 7 0 14 60 47 93 2.84e-24 99.8
MsaG002729 MtrunA17_Chr3g0092111 66.129 62 20 1 14 75 138 198 2.95e-24 101
MsaG002729 MtrunA17_Chr8g0374111 73.585 53 14 0 14 66 31 83 3.35e-24 97.8
MsaG002729 MtrunA17_Chr4g0047761 75.926 54 12 1 13 66 73 125 3.54e-24 99.8
MsaG002729 MtrunA17_Chr2g0282051 74.074 54 13 1 13 66 47 99 5.20e-24 98.6
MsaG002729 MtrunA17_Chr4g0042481 46.789 109 56 2 6 114 117 223 1.75e-23 99.8
MsaG002729 MtrunA17_Chr6g0453321 50.000 100 41 4 6 99 131 227 3.54e-23 99.0
MsaG002729 MtrunA17_Chr7g0217581 51.064 94 42 3 6 99 227 316 4.35e-23 99.0
MsaG002729 MtrunA17_Chr2g0283811 64.516 62 21 1 4 65 40 100 3.09e-22 90.9
MsaG002729 MtrunA17_Chr5g0417571 61.667 60 22 1 6 65 133 191 1.32e-21 92.8
MsaG002729 MtrunA17_Chr7g0254161 50.562 89 37 2 14 102 103 184 1.47e-21 94.0
MsaG002729 MtrunA17_Chr8g0355261 59.016 61 24 1 6 66 113 172 2.72e-21 93.2
MsaG002729 MtrunA17_Chr5g0417601 60.938 64 24 1 2 65 131 193 1.90e-20 90.1
MsaG002729 MtrunA17_Chr6g0460721 62.264 53 20 0 14 66 91 143 3.12e-20 89.0
MsaG002729 MtrunA17_Chr6g0460731 65.385 52 18 0 14 65 98 149 4.14e-20 89.4
MsaG002729 MtrunA17_Chr5g0417551 58.462 65 26 1 1 65 117 180 7.07e-20 88.6
MsaG002729 MtrunA17_Chr5g0417561 65.385 52 18 0 14 65 121 172 3.12e-19 86.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002729 AT3G52440.2 35.880 301 115 7 5 293 32 266 4.97e-46 156
MsaG002729 AT3G52440.1 35.880 301 115 7 5 293 13 247 5.68e-46 155
MsaG002729 AT1G21340.1 39.409 203 91 6 11 213 37 207 9.42e-34 124
MsaG002729 AT5G60200.1 43.293 164 63 4 9 170 52 187 3.72e-31 117
MsaG002729 AT3G61850.2 77.273 66 15 0 1 66 51 116 4.59e-31 117
MsaG002729 AT3G61850.3 77.273 66 15 0 1 66 51 116 4.59e-31 117
MsaG002729 AT3G61850.1 77.273 66 15 0 1 66 63 128 6.61e-31 117
MsaG002729 AT3G61850.5 77.273 66 15 0 1 66 51 116 6.66e-31 118
MsaG002729 AT3G61850.4 77.273 66 15 0 1 66 63 128 9.49e-31 117
MsaG002729 AT4G24060.1 88.889 54 6 0 13 66 54 107 5.63e-30 116
MsaG002729 AT2G28510.1 66.667 75 25 0 13 87 49 123 1.52e-29 114
MsaG002729 AT1G07640.2 80.000 60 11 1 14 72 79 138 2.47e-29 114
MsaG002729 AT1G07640.1 80.000 60 11 1 14 72 23 82 2.91e-29 112
MsaG002729 AT1G07640.3 80.000 60 11 1 14 72 87 146 3.37e-29 114
MsaG002729 AT2G37590.1 84.906 53 8 0 14 66 91 143 2.70e-28 111
MsaG002729 AT4G00940.1 85.185 54 8 0 13 66 69 122 1.10e-27 108
MsaG002729 AT4G00940.3 85.185 54 8 0 13 66 69 122 1.10e-27 108
MsaG002729 AT4G00940.2 85.185 54 8 0 13 66 69 122 1.10e-27 108
MsaG002729 AT3G55370.1 76.271 59 14 0 13 71 77 135 1.12e-27 109
MsaG002729 AT3G55370.3 76.271 59 14 0 13 71 122 180 1.24e-27 110
MsaG002729 AT3G55370.2 76.271 59 14 0 13 71 77 135 1.37e-27 110
MsaG002729 AT5G60850.1 68.056 72 23 0 11 82 50 121 1.48e-27 108
MsaG002729 AT3G45610.1 44.444 135 48 5 14 145 42 152 3.30e-27 106
MsaG002729 AT5G02460.1 81.132 53 10 0 14 66 97 149 3.56e-27 109
MsaG002729 AT5G65590.1 79.245 53 11 0 14 66 43 95 3.69e-27 108
MsaG002729 AT2G46590.1 82.759 58 9 1 3 59 58 115 5.43e-27 108
MsaG002729 AT2G46590.2 93.617 47 3 0 13 59 81 127 5.93e-27 108
MsaG002729 AT2G28810.2 82.000 50 9 0 14 63 79 128 6.93e-27 107
MsaG002729 AT2G28810.1 82.000 50 9 0 14 63 96 145 1.07e-26 107
MsaG002729 AT1G28310.1 81.132 53 10 0 14 66 29 81 2.33e-26 105
MsaG002729 AT1G28310.2 81.132 53 10 0 14 66 53 105 3.08e-26 105
MsaG002729 AT1G51700.1 79.630 54 10 1 14 66 35 88 7.06e-26 101
MsaG002729 AT3G21270.1 84.314 51 8 0 14 64 31 81 7.61e-26 102
MsaG002729 AT5G62940.1 85.714 49 7 0 14 62 75 123 7.73e-26 105
MsaG002729 AT4G21050.1 77.358 53 12 0 14 66 26 78 1.09e-25 101
MsaG002729 AT1G64620.1 87.755 49 6 0 13 61 50 98 2.66e-25 103
MsaG002729 AT3G50410.1 75.472 53 13 0 14 66 32 84 2.57e-24 99.0
MsaG002729 AT4G38000.1 71.429 56 16 0 7 62 36 91 1.35e-23 97.1
MsaG002729 AT1G29160.1 61.538 65 24 1 1 65 52 115 2.56e-23 94.4
MsaG002729 AT1G69570.1 75.000 52 13 0 14 65 134 185 4.04e-23 98.2
MsaG002729 AT3G47500.1 66.667 60 19 1 6 65 105 163 1.36e-22 97.4
MsaG002729 AT5G62430.1 45.455 99 50 2 6 104 49 143 1.41e-22 95.5
MsaG002729 AT5G66940.1 68.519 54 17 0 13 66 33 86 1.47e-22 93.6
MsaG002729 AT2G34140.1 71.154 52 15 0 14 65 60 111 1.49e-22 92.4
MsaG002729 AT4G21040.1 75.000 52 13 0 14 65 27 78 1.75e-22 93.6
MsaG002729 AT4G21080.1 57.333 75 31 1 14 87 27 101 2.23e-22 94.0
MsaG002729 AT1G47655.1 78.723 47 10 0 14 60 31 77 2.80e-22 92.4
MsaG002729 AT1G26790.1 65.000 60 20 1 6 65 106 164 4.44e-22 95.1
MsaG002729 AT5G39660.3 66.667 60 19 1 6 65 133 191 7.28e-22 95.5
MsaG002729 AT5G39660.1 66.667 60 19 1 6 65 133 191 7.28e-22 95.5
MsaG002729 AT5G39660.2 66.667 60 19 1 6 65 133 191 7.28e-22 95.5
MsaG002729 AT4G21030.1 60.000 50 20 0 14 63 23 72 5.08e-14 69.7

Find 51 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACCTCCACCACCATTTCT+TGG 0.233577 1:+46303218 MsaT002729.1:CDS
GAACCACATCTTGGACAATT+TGG 0.236842 1:-46302465 None:intergenic
CAGACTTGTTAATCGGTAAT+TGG 0.248583 1:+46303261 MsaT002729.1:CDS
TCTAAAGAAGTGTGAGAATT+AGG 0.294412 1:-46302690 None:intergenic
GTTGTGGATGGTAATTGTTC+TGG 0.295167 1:-46302996 None:intergenic
ACCAATGCAAGATCAATATT+TGG 0.306644 1:-46302801 None:intergenic
GTTAATCATCATTTCAGAAT+TGG 0.308733 1:-46303177 None:intergenic
GAAATATTAGTCCTCAAAAT+AGG 0.320066 1:-46302747 None:intergenic
ATCCTTGTCTAGAAAATTCA+AGG 0.352452 1:+46302892 MsaT002729.1:CDS
CATGATGCAGACTTGTTAAT+CGG 0.365024 1:+46303254 MsaT002729.1:CDS
TGATCGGAACTAAGAGAATC+AGG 0.377500 1:-46302849 None:intergenic
GCAAAGGATGTAGAAGGTAT+TGG 0.381998 1:+46302547 MsaT002729.1:CDS
TTCATCTTCTAGCTCCTCAT+TGG 0.412030 1:+46302767 MsaT002729.1:CDS
GCATCCCTTGGAAAATCAAA+AGG 0.439777 1:-46303287 None:intergenic
ACCAAATATTGATCTTGCAT+TGG 0.456881 1:+46302800 MsaT002729.1:CDS
TGTAGAAGGTATTGGACAAA+AGG 0.461975 1:+46302555 MsaT002729.1:CDS
CTCAGAAATGTTCCTGTTGG+TGG 0.463083 1:+46302585 MsaT002729.1:CDS
GGAGGTTGAGTGACTTGAAA+TGG 0.465039 1:-46303203 None:intergenic
AATTAGAACTTGGTTTCAAA+GGG 0.465903 1:+46302958 MsaT002729.1:CDS
TTTCTGCAGCCACCACCAAC+AGG 0.485924 1:-46302597 None:intergenic
AATTTGTCTGAATTAGAACT+TGG 0.496339 1:+46302948 MsaT002729.1:CDS
TCTGCATCATGAATTTGATC+AGG 0.499238 1:-46303242 None:intergenic
GTGTTTGAAGAACCACATCT+TGG 0.501582 1:-46302474 None:intergenic
AGAAATGTTCCTGTTGGTGG+TGG 0.504532 1:+46302588 MsaT002729.1:CDS
TTTGAAAGTGAGGGAGTCAA+AGG 0.507069 1:-46302661 None:intergenic
ATTTGATCAGGACCAAGAAA+TGG 0.507530 1:-46303230 None:intergenic
GAATCCTCTTCACCTGGTAA+AGG 0.513411 1:-46303128 None:intergenic
GAATTAGAACTTGGTTTCAA+AGG 0.520155 1:+46302957 MsaT002729.1:CDS
ACTAAAATGTGTTACTGTTG+TGG 0.520461 1:-46303012 None:intergenic
AGAATCAATTAAGCATCCCT+TGG 0.523237 1:-46303299 None:intergenic
TTTGAGCTACCACCTTTACC+AGG 0.542560 1:+46303116 MsaT002729.1:CDS
GGACCAAGAAATGGTGGTGG+AGG 0.554806 1:-46303221 None:intergenic
CATCCCTTGGAAAATCAAAA+GGG 0.555636 1:-46303286 None:intergenic
ACCACCTTTACCAGGTGAAG+AGG 0.557951 1:+46303124 MsaT002729.1:CDS
TCAAGGCTATCGATTGTTGA+AGG 0.562523 1:+46302909 MsaT002729.1:CDS
TCCTCTTCACCTGGTAAAGG+TGG 0.570460 1:-46303125 None:intergenic
CACCAACAGGAACATTTCTG+AGG 0.582266 1:-46302584 None:intergenic
AGAAGGTATTGGACAAAAGG+TGG 0.588429 1:+46302558 MsaT002729.1:CDS
ATGCAGACATGGAGAGTGAG+TGG 0.591147 1:+46302424 None:intergenic
TCCCTCAGAAATGTTCCTGT+TGG 0.593993 1:+46302582 MsaT002729.1:CDS
TGGTCTATCATTCACCAATG+AGG 0.596861 1:-46302781 None:intergenic
GTTGAGTGACTTGAAATGGA+AGG 0.605356 1:-46303199 None:intergenic
CATCACAAGATCATGTATTG+TGG 0.612487 1:+46303153 MsaT002729.1:CDS
TCAGGACCAAGAAATGGTGG+TGG 0.616492 1:-46303224 None:intergenic
ACCAACAGGAACATTTCTGA+GGG 0.622749 1:-46302583 None:intergenic
TCACCAAATTGTCCAAGATG+TGG 0.624013 1:+46302462 MsaT002729.1:CDS
TGATCAGGACCAAGAAATGG+TGG 0.649067 1:-46303227 None:intergenic
AAATGTGTTACTGTTGTGGA+TGG 0.658240 1:-46303008 None:intergenic
GATGATGAATCCTCTTCACC+TGG 0.665791 1:-46303134 None:intergenic
ACTACAGCTTAACTCAACCA+AGG 0.682302 1:+46302517 MsaT002729.1:CDS
AGGCTATCGATTGTTGAAGG+CGG 0.697199 1:+46302912 MsaT002729.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 46302432 46303313 46302432 ID=MsaG002729
Chr1 mRNA 46302432 46303313 46302432 ID=MsaT002729.1;Parent=MsaG002729
Chr1 exon 46302432 46303313 46302432 ID=MsaT002729.1.exon1;Parent=MsaT002729.1
Chr1 CDS 46302432 46303313 46302432 ID=cds.MsaT002729.1;Parent=MsaT002729.1
Gene Sequence

>MsaT002729.1

ATGGAGAGTGAGTGGAAAGCTAATCAGATATCACCAAATTGTCCAAGATGTGGTTCTTCAAACACAAAATTTTGCTACTACAATAACTACAGCTTAACTCAACCAAGGTATTTTTGCAAAGGATGTAGAAGGTATTGGACAAAAGGTGGATCCCTCAGAAATGTTCCTGTTGGTGGTGGCTGCAGAAAAAACAGAAGAGGTAACAACAAAACATTAGTAAGACATAGATCCTTTGACTCCCTCACTTTCAAAAATTCACCTAATTCTCACACTTCTTTAGATAACAATAACTCAATTTCTCATCATTCTTATGATCCTATTTTGAGGACTAATATTTCATCTTCTAGCTCCTCATTGGTGAATGATAGACCAAATATTGATCTTGCATTGGTTTATGCAAATTTCCTCAATCAAAAGCCTGATTCTCTTAGTTCCGATCAAATGCGAAAAACAAATTTTGATCCTTGTCTAGAAAATTCAAGGCTATCGATTGTTGAAGGCGGTACGAGTAGTTTAAATTTGTCTGAATTAGAACTTGGTTTCAAAGGGTGTTTGAATCTTAATCCAGAACAATTACCATCCACAACAGTAACACATTTTAGTGAGTTCAATTCTATGCAAACCCTTCAAAAAGATAGAATTGATCATTGTAGTAATATTCATGATGATGCTGTGAATGTGAATTTTGAGCTACCACCTTTACCAGGTGAAGAGGATTCATCATCACAAGATCATGTATTGTGGTCCAATTCTGAAATGATGATTAACCTTCCATTTCAAGTCACTCAACCTCCACCACCATTTCTTGGTCCTGATCAAATTCATGATGCAGACTTGTTAATCGGTAATTGGAGCCCTTTTGATTTTCCAAGGGATGCTTAA
Protein sequence

>MsaT002729.1

MESEWKANQISPNCPRCGSSNTKFCYYNNYSLTQPRYFCKGCRRYWTKGGSLRNVPVGGGCRKNRRGNNKTLVRHRSFDSLTFKNSPNSHTSLDNNNSISHHSYDPILRTNISSSSSSLVNDRPNIDLALVYANFLNQKPDSLSSDQMRKTNFDPCLENSRLSIVEGGTSSLNLSELELGFKGCLNLNPEQLPSTTVTHFSEFNSMQTLQKDRIDHCSNIHDDAVNVNFELPPLPGEEDSSSQDHVLWSNSEMMINLPFQVTQPPPPFLGPDQIHDADLLIGNWSPFDFPRDA*