AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003721


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003721 MtrunA17_Chr1g0188851 94.757 267 8 5 1 266 11 272 0.0 506
MsaG003721 MtrunA17_Chr3g0127201 44.828 290 103 14 21 266 14 290 2.47e-59 190
MsaG003721 MtrunA17_Chr8g0346551 44.211 285 110 14 12 266 4 269 2.66e-58 186
MsaG003721 MtrunA17_Chr2g0326001 73.611 72 19 0 17 88 23 94 6.53e-35 127
MsaG003721 MtrunA17_Chr3g0117601 34.333 300 135 15 16 265 41 328 2.62e-34 126
MsaG003721 MtrunA17_Chr4g0030051 46.715 137 66 2 16 145 23 159 1.36e-32 120
MsaG003721 MtrunA17_Chr8g0341671 67.089 79 22 2 16 94 5 79 1.43e-29 110
MsaG003721 MtrunA17_Chr8g0367161 66.667 72 24 0 23 94 21 92 1.58e-29 114
MsaG003721 MtrunA17_Chr4g0031411 66.667 72 18 1 31 96 72 143 4.83e-29 112
MsaG003721 MtrunA17_Chr1g0177251 57.292 96 31 2 28 115 6 99 6.65e-29 111
MsaG003721 MtrunA17_Chr3g0126201 60.976 82 24 1 14 95 39 112 7.52e-29 112
MsaG003721 MtrunA17_Chr8g0374111 54.444 90 36 1 19 103 14 103 7.56e-29 109
MsaG003721 MtrunA17_Chr3g0092111 49.524 105 49 2 36 136 138 242 9.76e-29 113
MsaG003721 MtrunA17_Chr2g0328021 53.261 92 43 0 34 125 62 153 1.04e-28 110
MsaG003721 MtrunA17_Chr7g0223311 74.194 62 16 0 33 94 76 137 1.21e-28 112
MsaG003721 MtrunA17_Chr8g0374251 61.972 71 27 0 29 99 63 133 5.25e-28 109
MsaG003721 MtrunA17_Chr2g0282441 67.692 65 16 1 21 85 17 76 1.04e-27 108
MsaG003721 MtrunA17_Chr4g0047001 59.756 82 28 1 36 112 57 138 1.67e-27 108
MsaG003721 MtrunA17_Chr4g0010151 70.690 58 17 0 31 88 79 136 2.98e-27 108
MsaG003721 MtrunA17_Chr5g0411951 74.074 54 14 0 31 84 40 93 2.57e-26 105
MsaG003721 MtrunA17_Chr4g0061761 75.472 53 13 0 32 84 38 90 6.07e-26 103
MsaG003721 MtrunA17_Chr2g0308011 78.000 50 11 0 33 82 36 85 9.67e-26 100
MsaG003721 MtrunA17_Chr2g0282051 57.971 69 28 1 20 88 32 99 2.33e-25 101
MsaG003721 MtrunA17_Chr2g0282511 76.000 50 12 0 33 82 44 93 1.68e-24 99.8
MsaG003721 MtrunA17_Chr4g0042481 57.971 69 29 0 18 86 106 174 2.12e-24 101
MsaG003721 MtrunA17_Chr6g0453321 48.913 92 44 3 28 119 130 218 2.73e-24 101
MsaG003721 MtrunA17_Chr7g0217581 58.824 68 24 1 24 91 226 289 5.17e-24 100
MsaG003721 MtrunA17_Chr7g0254161 44.248 113 53 4 14 124 85 189 5.17e-24 100
MsaG003721 MtrunA17_Chr2g0283811 63.636 55 20 0 31 85 44 98 1.51e-23 93.6
MsaG003721 MtrunA17_Chr4g0047761 66.667 57 18 1 32 88 70 125 1.75e-23 97.1
MsaG003721 MtrunA17_Chr8g0355261 56.061 66 25 1 24 89 112 173 3.18e-23 97.8
MsaG003721 MtrunA17_Chr5g0417571 52.703 74 35 0 21 94 125 198 5.28e-23 95.9
MsaG003721 MtrunA17_Chr6g0460721 50.000 80 35 1 12 86 62 141 8.79e-23 95.5
MsaG003721 MtrunA17_Chr6g0460731 47.561 82 37 2 5 86 73 148 1.05e-22 95.9
MsaG003721 MtrunA17_Chr5g0417601 55.072 69 31 0 21 89 127 195 3.99e-22 94.4
MsaG003721 MtrunA17_Chr5g0417561 66.667 51 17 0 36 86 121 171 2.08e-20 89.4
MsaG003721 MtrunA17_Chr7g0237921 25.939 293 130 10 24 263 65 323 2.20e-20 89.0
MsaG003721 MtrunA17_Chr5g0417551 56.250 64 24 1 23 86 120 179 2.68e-20 89.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003721 AT4G24060.1 37.685 337 133 13 1 266 11 341 1.06e-46 159
MsaG003721 AT3G61850.5 42.909 275 101 15 29 266 57 312 2.23e-46 157
MsaG003721 AT3G61850.2 42.636 258 98 14 29 266 57 284 3.50e-46 156
MsaG003721 AT3G61850.3 42.636 258 98 14 29 266 57 284 3.50e-46 156
MsaG003721 AT3G61850.4 42.909 275 101 15 29 266 69 324 4.46e-46 157
MsaG003721 AT3G61850.1 42.636 258 98 14 29 266 69 296 6.11e-46 156
MsaG003721 AT2G46590.1 39.871 311 112 16 21 266 57 357 2.00e-38 138
MsaG003721 AT2G46590.2 39.871 311 112 16 21 266 69 369 2.21e-38 138
MsaG003721 AT1G64620.1 36.795 337 126 14 1 259 11 338 3.67e-36 132
MsaG003721 AT5G60200.1 52.885 104 47 1 28 129 49 152 3.08e-33 122
MsaG003721 AT1G51700.1 59.756 82 33 0 25 106 24 105 3.24e-31 115
MsaG003721 AT3G55370.1 69.118 68 21 0 31 98 73 140 3.31e-30 115
MsaG003721 AT3G55370.3 59.756 82 31 1 17 98 106 185 4.14e-30 116
MsaG003721 AT3G55370.2 69.118 68 21 0 31 98 73 140 4.20e-30 115
MsaG003721 AT4G00940.1 82.759 58 10 0 31 88 65 122 6.04e-30 114
MsaG003721 AT4G00940.3 82.759 58 10 0 31 88 65 122 6.04e-30 114
MsaG003721 AT4G00940.2 82.759 58 10 0 31 88 65 122 6.04e-30 114
MsaG003721 AT1G21340.1 45.833 144 67 5 30 165 31 171 7.84e-30 113
MsaG003721 AT2G28510.1 50.820 122 50 2 32 145 46 165 1.62e-29 113
MsaG003721 AT3G45610.1 56.322 87 36 2 18 104 25 109 2.27e-29 111
MsaG003721 AT3G52440.1 66.216 74 23 1 25 96 14 87 3.29e-29 111
MsaG003721 AT3G52440.2 66.216 74 23 1 25 96 33 106 4.69e-29 111
MsaG003721 AT5G65590.1 68.657 67 21 0 29 95 36 102 5.86e-29 112
MsaG003721 AT1G07640.1 78.182 55 12 0 34 88 21 75 7.48e-28 108
MsaG003721 AT4G38000.1 61.538 65 25 0 24 88 31 95 7.84e-28 107
MsaG003721 AT1G07640.2 78.182 55 12 0 34 88 77 131 9.10e-28 109
MsaG003721 AT2G37590.1 70.000 60 18 0 31 90 86 145 9.52e-28 109
MsaG003721 AT1G07640.3 78.182 55 12 0 34 88 85 139 1.25e-27 108
MsaG003721 AT5G60850.1 58.108 74 31 0 32 105 49 122 1.38e-27 108
MsaG003721 AT3G21270.1 73.684 57 15 0 34 90 29 85 1.69e-27 105
MsaG003721 AT1G28310.1 48.624 109 56 0 34 142 27 135 2.12e-27 107
MsaG003721 AT5G66940.1 65.152 66 23 0 30 95 28 93 2.59e-27 105
MsaG003721 AT1G28310.2 48.624 109 56 0 34 142 51 159 3.17e-27 107
MsaG003721 AT3G50410.1 61.429 70 27 0 19 88 15 84 3.24e-27 106
MsaG003721 AT2G28810.2 67.213 61 20 0 25 85 68 128 9.55e-27 106
MsaG003721 AT2G28810.1 67.213 61 20 0 25 85 85 145 1.46e-26 106
MsaG003721 AT5G62940.1 72.131 61 14 1 24 84 66 123 6.43e-26 105
MsaG003721 AT5G02460.1 68.966 58 18 0 31 88 92 149 7.92e-26 105
MsaG003721 AT1G47655.1 61.538 65 25 0 19 83 14 78 1.71e-25 100
MsaG003721 AT2G34140.1 48.810 84 39 1 4 87 32 111 9.51e-25 97.4
MsaG003721 AT1G69570.1 60.526 76 26 1 18 93 120 191 1.50e-24 101
MsaG003721 AT4G21050.1 68.333 60 19 0 36 95 26 85 1.56e-24 97.8
MsaG003721 AT5G62430.1 53.947 76 31 1 14 89 38 109 7.51e-24 98.2
MsaG003721 AT1G29160.1 50.667 75 37 0 13 87 41 115 9.32e-24 95.1
MsaG003721 AT5G39660.3 43.878 98 51 1 28 125 132 225 1.03e-23 99.8
MsaG003721 AT5G39660.1 43.878 98 51 1 28 125 132 225 1.03e-23 99.8
MsaG003721 AT5G39660.2 43.878 98 51 1 28 125 132 225 1.03e-23 99.8
MsaG003721 AT3G47500.1 63.793 58 21 0 34 91 110 167 2.59e-23 98.6
MsaG003721 AT1G26790.1 54.545 77 31 1 10 86 91 163 4.50e-23 97.1
MsaG003721 AT4G21040.1 75.510 49 12 0 36 84 27 75 1.04e-22 93.6
MsaG003721 AT4G21080.1 75.510 49 12 0 36 84 27 75 5.71e-22 92.0
MsaG003721 AT4G21030.1 53.333 60 28 0 36 95 23 82 1.65e-13 67.8

Find 57 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAATATTGCCTTCTATTAA+TGG 0.125175 1:-61086271 None:intergenic
GAAGGCCAAGATCTAAATTT+AGG 0.134252 1:+61086622 MsaT003721.1:CDS
CTTCTTCATGATGGATCTTA+TGG 0.177246 1:-61086603 None:intergenic
CATGATGGATCTTATGGTTT+TGG 0.189658 1:-61086597 None:intergenic
CCCTCACATATCTGATCATT+TGG 0.252769 1:+61086648 MsaT003721.1:CDS
TGACGGATTTGAAACAAAAT+TGG 0.261701 1:-61086545 None:intergenic
GCTTCTTGTTTCTGTTGATT+TGG 0.268462 1:-61086337 None:intergenic
TAACCCAACAATATTGGATT+TGG 0.276934 1:+61086954 MsaT003721.1:CDS
TACAAATAACCCAACAATAT+TGG 0.279491 1:+61086948 MsaT003721.1:CDS
TTCCTGTTGGTGGTGGTTCT+AGG 0.290051 1:+61086491 MsaT003721.1:CDS
CCAATGAATTTCTGTTTAGA+TGG 0.293399 1:+61086820 MsaT003721.1:CDS
TTCATGCCTGCTCAAGTTCA+AGG 0.318142 1:+61086763 MsaT003721.1:CDS
TTCTTCTACTTCTTCAGCAT+TGG 0.346624 1:+61086693 MsaT003721.1:CDS
TTTGGATCAGAATAATAATA+AGG 0.356949 1:+61086972 MsaT003721.1:CDS
GGAACCCTAAATTTAGATCT+TGG 0.357337 1:-61086627 None:intergenic
AAGGCCAAGATCTAAATTTA+GGG 0.366987 1:+61086623 MsaT003721.1:CDS
GATCCAAATCCAATATTGTT+GGG 0.402423 1:-61086957 None:intergenic
GCAAAACATGTAGAAGGTAT+TGG 0.410442 1:+61086443 MsaT003721.1:CDS
GATCTTGGCCTTCTTCATGA+TGG 0.411783 1:-61086612 None:intergenic
CAGGTTTGAGTTCAAGTTCA+AGG 0.413495 1:+61086728 MsaT003721.1:CDS
TTCTGTTTAGATGGGATCTC+AGG 0.420885 1:+61086829 MsaT003721.1:CDS
ACCAACAGGAATGTTTCTAA+TGG 0.426405 1:-61086479 None:intergenic
GGGATTTGGACTGGAATGTT+GGG 0.441281 1:+61087018 MsaT003721.1:CDS
TTTGGCTTCCTTTCCAACAT+AGG 0.441634 1:-61086319 None:intergenic
CCTGCTCAAGTTCAAGGTTG+TGG 0.443611 1:+61086769 MsaT003721.1:CDS
TTCCTAGAACCACCACCAAC+AGG 0.444902 1:-61086493 None:intergenic
CCATCTAAACAGAAATTCAT+TGG 0.447886 1:-61086820 None:intergenic
ACTGGAATGTTGGGAGGAGG+AGG 0.456613 1:+61087027 MsaT003721.1:CDS
ATTTCTGCAAAACATGTAGA+AGG 0.460389 1:+61086437 MsaT003721.1:CDS
GCATTGGAGCTTCTTACTGC+AGG 0.462786 1:+61086709 MsaT003721.1:CDS
TGATCCAAATCCAATATTGT+TGG 0.463007 1:-61086958 None:intergenic
AGGGATTTGGACTGGAATGT+TGG 0.470831 1:+61087017 MsaT003721.1:CDS
CAATGAATTTCTGTTTAGAT+GGG 0.475119 1:+61086821 MsaT003721.1:CDS
TGGACTGGAATGTTGGGAGG+AGG 0.475312 1:+61087024 MsaT003721.1:CDS
GGAATGTTGGGAGGAGGAGG+AGG 0.484270 1:+61087030 MsaT003721.1:CDS
ACATGTTTCAAATCCTCAAA+AGG 0.498889 1:-61086919 None:intergenic
CATAAGATCCATCATGAAGA+AGG 0.500791 1:+61086604 MsaT003721.1:CDS
AGAAACATTCCTGTTGGTGG+TGG 0.512070 1:+61086484 MsaT003721.1:CDS
AAGAGACAATTAGTGAAGGA+AGG 0.513089 1:+61086887 MsaT003721.1:CDS
ATTAGAAACATTCCTGTTGG+TGG 0.530061 1:+61086481 MsaT003721.1:CDS
AGAGACAATTAGTGAAGGAA+GGG 0.538775 1:+61086888 MsaT003721.1:CDS
CCACAACCTTGAACTTGAGC+AGG 0.540402 1:-61086769 None:intergenic
AGGTTTGAGTTCAAGTTCAA+GGG 0.544319 1:+61086729 MsaT003721.1:CDS
TCCATTAGAAACATTCCTGT+TGG 0.554777 1:+61086478 MsaT003721.1:CDS
AAGAAGCAATTAACTGTCCA+AGG 0.557523 1:+61086353 MsaT003721.1:CDS
TGTAGAAGGTATTGGACTCA+AGG 0.565800 1:+61086451 MsaT003721.1:CDS
ATGGTGAAGCCATTAATAGA+AGG 0.568853 1:+61086262 MsaT003721.1:CDS
TTAGATGGGATCTCAGGAAG+TGG 0.574889 1:+61086835 MsaT003721.1:CDS
TATGCAAGTACTCTTGATCA+TGG 0.590246 1:+61086859 MsaT003721.1:CDS
GTGTTAATTGAATTACACCT+TGG 0.593541 1:-61086370 None:intergenic
ATTTGGACTGGAATGTTGGG+AGG 0.599027 1:+61087021 MsaT003721.1:CDS
ACTTGCTTAAAATCTTGCAA+AGG 0.603902 1:-61086796 None:intergenic
CCAAATGATCAGATATGTGA+GGG 0.610063 1:-61086648 None:intergenic
ACCAAATGATCAGATATGTG+AGG 0.628381 1:-61086649 None:intergenic
GTTCAAGAGACAATTAGTGA+AGG 0.630784 1:+61086883 MsaT003721.1:CDS
AGAAGGTATTGGACTCAAGG+TGG 0.674278 1:+61086454 MsaT003721.1:CDS
AATAATAAGGAAGATCAACA+AGG 0.712044 1:+61086985 MsaT003721.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 61086262 61087062 61086262 ID=MsaG003721
Chr1 mRNA 61086262 61087062 61086262 ID=MsaT003721.1;Parent=MsaG003721
Chr1 exon 61086262 61087062 61086262 ID=MsaT003721.1.exon1;Parent=MsaT003721.1
Chr1 CDS 61086262 61087062 61086262 ID=cds.MsaT003721.1;Parent=MsaT003721.1
Gene Sequence

>MsaT003721.1

ATGGTGAAGCCATTAATAGAAGGCAATATTGTAGTAGCAACAAATACATGTGAAAAACCTATGTTGGAAAGGAAGCCAAATCAACAGAAACAAGAAGCAATTAACTGTCCAAGGTGTAATTCAATTAACACAAAATTCTGTTACTACAACAACTATAGTTTGACACAACCAAGATATTTCTGCAAAACATGTAGAAGGTATTGGACTCAAGGTGGATCCATTAGAAACATTCCTGTTGGTGGTGGTTCTAGGAAAAACAACAAAAATAGATCTTCTAATTCTTCCAATTTTGTTTCAAATCCGTCACCTTCAACAAAAAACATACTTGATGAAAACCAAAACCATAAGATCCATCATGAAGAAGGCCAAGATCTAAATTTAGGGTTCCCTCACATATCTGATCATTTGGTTCAGCAAAATAACAACACTTCTTCTTCTACTTCTTCAGCATTGGAGCTTCTTACTGCAGGTTTGAGTTCAAGTTCAAGGGATTTGCATTCTTTCATGCCTGCTCAAGTTCAAGGTTGTGGATTTCCTTTGCAAGATTTTAAGCAAGTGCCAATGAATTTCTGTTTAGATGGGATCTCAGGAAGTGGTTATGCAAGTACTCTTGATCATGGTGTTCAAGAGACAATTAGTGAAGGAAGGGTTTTGTTTCCTTTTGAGGATTTGAAACATGTTTCTAGTACAAATAACCCAACAATATTGGATTTGGATCAGAATAATAATAAGGAAGATCAACAAGGATTTTCAACAGGGATTTGGACTGGAATGTTGGGAGGAGGAGGAGGATCATGGTAA

Protein sequence

>MsaT003721.1

MVKPLIEGNIVVATNTCEKPMLERKPNQQKQEAINCPRCNSINTKFCYYNNYSLTQPRYFCKTCRRYWTQGGSIRNIPVGGGSRKNNKNRSSNSSNFVSNPSPSTKNILDENQNHKIHHEEGQDLNLGFPHISDHLVQQNNNTSSSTSSALELLTAGLSSSSRDLHSFMPAQVQGCGFPLQDFKQVPMNFCLDGISGSGYASTLDHGVQETISEGRVLFPFEDLKHVSSTNNPTILDLDQNNNKEDQQGFSTGIWTGMLGGGGGSW*