AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG041920


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041920 MtrunA17_Chr8g0346551 96.283 269 7 2 1 266 1 269 0.0 525
MsaG041920 MtrunA17_Chr3g0127201 45.918 294 127 11 1 266 1 290 4.50e-69 215
MsaG041920 MtrunA17_Chr1g0188851 44.689 273 99 14 4 257 21 260 1.00e-49 165
MsaG041920 MtrunA17_Chr2g0326001 75.000 72 16 1 9 78 23 94 6.30e-34 124
MsaG041920 MtrunA17_Chr3g0117601 52.000 125 45 4 10 130 45 158 6.32e-31 117
MsaG041920 MtrunA17_Chr8g0374251 54.808 104 41 2 21 124 65 162 1.40e-30 116
MsaG041920 MtrunA17_Chr4g0031411 72.059 68 19 0 11 78 62 129 2.08e-30 116
MsaG041920 MtrunA17_Chr4g0010151 34.694 245 125 6 11 244 69 289 4.66e-30 115
MsaG041920 MtrunA17_Chr8g0367161 66.250 80 24 2 15 92 21 99 8.56e-30 114
MsaG041920 MtrunA17_Chr4g0030051 69.014 71 20 1 8 76 23 93 1.36e-29 112
MsaG041920 MtrunA17_Chr3g0126201 76.562 64 13 1 17 78 42 105 1.61e-29 113
MsaG041920 MtrunA17_Chr4g0047001 73.529 68 14 1 26 93 57 120 2.53e-29 114
MsaG041920 MtrunA17_Chr1g0177251 87.037 54 7 0 25 78 13 66 4.24e-29 111
MsaG041920 MtrunA17_Chr8g0374111 48.214 112 48 2 11 116 10 117 5.17e-29 109
MsaG041920 MtrunA17_Chr2g0328021 63.636 77 28 0 21 97 59 135 7.77e-29 110
MsaG041920 MtrunA17_Chr2g0282441 77.966 59 12 1 17 75 19 76 3.86e-28 110
MsaG041920 MtrunA17_Chr5g0411951 78.182 55 12 0 20 74 39 93 5.53e-28 109
MsaG041920 MtrunA17_Chr8g0341671 72.131 61 17 0 21 81 17 77 1.25e-27 105
MsaG041920 MtrunA17_Chr7g0223311 83.019 53 9 0 26 78 79 131 3.96e-27 107
MsaG041920 MtrunA17_Chr7g0237921 79.245 53 11 0 26 78 78 130 4.98e-27 107
MsaG041920 MtrunA17_Chr2g0282051 58.108 74 30 1 6 79 28 100 7.57e-27 105
MsaG041920 MtrunA17_Chr4g0047761 74.138 58 14 1 22 79 70 126 3.67e-26 104
MsaG041920 MtrunA17_Chr3g0092111 69.492 59 18 0 19 77 131 189 4.00e-26 106
MsaG041920 MtrunA17_Chr4g0042481 64.062 64 23 0 19 82 117 180 1.66e-25 104
MsaG041920 MtrunA17_Chr4g0061761 77.358 53 12 0 22 74 38 90 2.88e-25 102
MsaG041920 MtrunA17_Chr2g0308011 81.633 49 9 0 24 72 37 85 4.07e-25 99.4
MsaG041920 MtrunA17_Chr7g0217581 58.974 78 25 1 19 89 227 304 4.28e-25 103
MsaG041920 MtrunA17_Chr7g0254161 61.905 63 24 0 19 81 96 158 4.97e-25 102
MsaG041920 MtrunA17_Chr6g0460721 60.317 63 25 0 19 81 84 146 5.52e-25 101
MsaG041920 MtrunA17_Chr2g0283811 63.636 66 22 1 12 77 37 100 1.21e-24 96.7
MsaG041920 MtrunA17_Chr2g0282511 79.592 49 10 0 24 72 45 93 1.21e-24 100
MsaG041920 MtrunA17_Chr8g0355261 61.290 62 24 0 19 80 113 174 1.86e-24 101
MsaG041920 MtrunA17_Chr6g0453321 66.102 59 20 0 19 77 131 189 2.62e-24 101
MsaG041920 MtrunA17_Chr6g0460731 53.947 76 35 0 19 94 91 166 2.85e-24 100
MsaG041920 MtrunA17_Chr5g0417571 62.712 59 22 0 19 77 133 191 1.87e-23 97.1
MsaG041920 MtrunA17_Chr5g0417601 66.667 54 18 0 24 77 140 193 2.62e-21 92.0
MsaG041920 MtrunA17_Chr5g0417551 56.250 64 28 0 14 77 117 180 8.76e-21 90.5
MsaG041920 MtrunA17_Chr5g0417561 56.250 64 28 0 14 77 109 172 9.07e-21 90.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041920 AT3G61850.5 52.158 278 87 19 16 266 54 312 3.36e-67 211
MsaG041920 AT3G61850.4 51.625 277 90 18 16 266 66 324 4.41e-67 211
MsaG041920 AT3G61850.2 49.813 267 82 16 16 266 54 284 6.89e-65 204
MsaG041920 AT3G61850.3 49.813 267 82 16 16 266 54 284 6.89e-65 204
MsaG041920 AT3G61850.1 49.813 267 82 16 16 266 66 296 8.63e-65 204
MsaG041920 AT2G46590.1 43.408 311 105 13 15 266 59 357 1.28e-56 185
MsaG041920 AT2G46590.2 43.408 311 105 13 15 266 71 369 1.71e-56 185
MsaG041920 AT4G24060.1 39.145 304 133 13 13 266 40 341 2.25e-44 153
MsaG041920 AT4G00940.1 37.945 253 118 8 18 261 62 284 2.85e-40 141
MsaG041920 AT4G00940.3 37.945 253 118 8 18 261 62 284 2.85e-40 141
MsaG041920 AT4G00940.2 37.945 253 118 8 18 261 62 284 2.85e-40 141
MsaG041920 AT1G64620.1 37.143 315 126 11 10 261 33 338 5.44e-39 139
MsaG041920 AT5G60200.1 48.780 123 57 2 10 130 41 159 5.39e-33 121
MsaG041920 AT3G55370.1 73.529 68 18 0 11 78 63 130 1.02e-31 119
MsaG041920 AT3G55370.3 73.529 68 18 0 11 78 108 175 1.33e-31 120
MsaG041920 AT3G55370.2 73.529 68 18 0 11 78 63 130 1.44e-31 120
MsaG041920 AT2G28510.1 55.357 112 46 2 22 130 46 156 1.97e-31 118
MsaG041920 AT3G45610.1 60.494 81 30 1 16 96 32 110 6.55e-30 113
MsaG041920 AT2G37590.1 75.410 61 15 0 18 78 83 143 7.00e-30 115
MsaG041920 AT1G51700.1 75.862 58 14 0 21 78 30 87 1.65e-29 110
MsaG041920 AT5G65590.1 64.935 77 23 1 18 94 35 107 1.70e-29 113
MsaG041920 AT3G52440.1 82.456 57 10 0 26 82 27 83 1.84e-28 109
MsaG041920 AT5G66940.1 74.138 58 15 0 21 78 29 86 1.90e-28 108
MsaG041920 AT3G52440.2 82.456 57 10 0 26 82 46 102 2.07e-28 109
MsaG041920 AT5G02460.1 67.647 68 22 0 11 78 82 149 2.49e-28 112
MsaG041920 AT3G50410.1 74.138 58 15 0 21 78 27 84 2.88e-28 108
MsaG041920 AT5G60850.1 58.333 84 30 1 22 105 49 127 1.02e-27 108
MsaG041920 AT3G21270.1 53.125 96 24 1 24 98 29 124 1.04e-27 106
MsaG041920 AT2G28810.2 68.182 66 20 1 11 75 63 128 1.27e-27 108
MsaG041920 AT2G28810.1 68.182 66 20 1 11 75 80 145 1.80e-27 108
MsaG041920 AT4G38000.1 64.474 76 24 2 10 83 25 99 1.97e-27 106
MsaG041920 AT1G07640.1 78.182 55 12 0 24 78 21 75 1.99e-27 107
MsaG041920 AT1G07640.2 78.182 55 12 0 24 78 77 131 2.16e-27 108
MsaG041920 AT1G07640.3 78.182 55 12 0 24 78 85 139 2.59e-27 108
MsaG041920 AT1G28310.1 75.000 56 14 0 24 79 27 82 3.34e-27 107
MsaG041920 AT1G21340.1 71.212 66 16 1 16 78 27 92 3.64e-27 106
MsaG041920 AT1G28310.2 75.000 56 14 0 24 79 51 106 4.98e-27 107
MsaG041920 AT1G69570.1 70.312 64 19 0 19 82 127 190 1.63e-26 107
MsaG041920 AT5G62940.1 85.714 49 7 0 26 74 75 123 4.47e-26 105
MsaG041920 AT4G21050.1 68.852 61 19 0 19 79 19 79 7.94e-26 101
MsaG041920 AT1G29160.1 61.765 68 26 0 10 77 48 115 9.55e-26 100
MsaG041920 AT2G34140.1 58.108 74 31 0 4 77 38 111 1.08e-25 99.8
MsaG041920 AT1G47655.1 76.923 52 12 0 22 73 27 78 2.51e-25 100
MsaG041920 AT5G39660.3 61.972 71 25 1 7 77 123 191 5.53e-25 103
MsaG041920 AT5G39660.1 61.972 71 25 1 7 77 123 191 5.53e-25 103
MsaG041920 AT5G39660.2 61.972 71 25 1 7 77 123 191 5.53e-25 103
MsaG041920 AT3G47500.1 66.102 59 20 0 19 77 105 163 3.06e-24 101
MsaG041920 AT5G62430.1 64.407 59 21 0 19 77 49 107 3.70e-24 99.0
MsaG041920 AT1G26790.1 66.102 59 20 0 19 77 106 164 6.36e-24 99.8
MsaG041920 AT4G21040.1 75.000 52 13 0 26 77 27 78 1.10e-23 96.3
MsaG041920 AT4G21080.1 71.154 52 15 0 26 77 27 78 1.36e-22 93.6
MsaG041920 AT4G21030.1 58.000 50 21 0 26 75 23 72 2.74e-13 67.4

Find 62 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTGCCTTGGACATGAATT+AGG 0.219906 8:+14001259 None:intergenic
AAGGAAATTCAACTGGATAT+TGG 0.307009 8:-14000526 MsaT041920.1:CDS
TCAAATGCTATTTATCCATC+TGG 0.339522 8:-14000740 MsaT041920.1:CDS
TTCTTCTCTAATCCTTGCCT+TGG 0.373577 8:+14001247 None:intergenic
GAATTATTGTTATTAGCATA+AGG 0.380378 8:+14000776 None:intergenic
CATGTCTTGCAAAAGTATCT+TGG 0.386535 8:+14001136 None:intergenic
GCAAGACATGTAGAAGGTAT+TGG 0.389030 8:-14001123 MsaT041920.1:CDS
ATGAAAGATGTGAAACTTGT+AGG 0.415991 8:+14000975 None:intergenic
AATTATTGTTATTAGCATAA+GGG 0.416837 8:+14000777 None:intergenic
CTTCAGCTCTTGACCTACTT+AGG 0.419947 8:-14000826 MsaT041920.1:CDS
CTTGTAGGGTTGGTGGATTT+AGG 0.422116 8:+14000990 None:intergenic
AGGGTTGGTGGATTTAGGTC+AGG 0.429516 8:+14000995 None:intergenic
GATCAACAAGGAAATTCAAC+TGG 0.430255 8:-14000533 MsaT041920.1:CDS
GGACAATTTATTTGCTCTTG+TGG 0.430301 8:+14001217 None:intergenic
TTTCTTGAACCACCTCCAAC+AGG 0.434621 8:+14001073 None:intergenic
CAAGAAGGTGGTGGTGGTGG+TGG 0.441828 8:-14000632 MsaT041920.1:CDS
GAAAAGCTAGGTTAAGATCT+TGG 0.443847 8:+14000927 None:intergenic
CAAGAAGTTAAACCTAGTCT+TGG 0.453651 8:-14000707 MsaT041920.1:CDS
TATTATTAACATCTCCAAAT+GGG 0.464550 8:+14000597 None:intergenic
TTATTATTAACATCTCCAAA+TGG 0.464816 8:+14000596 None:intergenic
CTAAGAAATGTTCCTGTTGG+AGG 0.487652 8:-14001085 MsaT041920.1:CDS
GTTATGCATCTCAACATATG+AGG 0.495564 8:+14000865 None:intergenic
GTTCAAGAAGGTGGTGGTGG+TGG 0.497320 8:-14000635 MsaT041920.1:CDS
GAAAACTATCATCATAATCA+TGG 0.499028 8:-14000896 MsaT041920.1:CDS
TGTGAAACTTGTAGGGTTGG+TGG 0.499794 8:+14000983 None:intergenic
TGGATATTGGAATGGAATGA+TGG 0.500493 8:-14000513 MsaT041920.1:CDS
TCTCTAAGAAATGTTCCTGT+TGG 0.507663 8:-14001088 MsaT041920.1:CDS
TTCTACAAGTGGTGTTGAAG+TGG 0.514078 8:-14000567 MsaT041920.1:CDS
AGAAATGTTCCTGTTGGAGG+TGG 0.521904 8:-14001082 MsaT041920.1:CDS
ACTAGGTTTAACTTCTTGCA+TGG 0.527857 8:+14000712 None:intergenic
TGATGAACTATTATTAGGTG+TGG 0.533433 8:+14001024 None:intergenic
TGTAGAAGGTATTGGACTGA+AGG 0.537478 8:-14001115 MsaT041920.1:CDS
AATTCAACTGGATATTGGAA+TGG 0.543811 8:-14000521 MsaT041920.1:CDS
TTAGGTGTGGCTAATGATGA+AGG 0.550310 8:+14001037 None:intergenic
TATAGGTATATACTCATGGA+AGG 0.550898 8:-14001289 None:intergenic
AATAAACAGCTTTCTACAAG+TGG 0.552575 8:-14000578 MsaT041920.1:CDS
GAATGATGGGTGAAGGATCA+TGG 0.555879 8:-14000499 MsaT041920.1:CDS
TTTCCATAGATGGAAAAGCT+AGG 0.562893 8:+14000915 None:intergenic
ATGCCATGCTTGACCTAAGT+AGG 0.567095 8:+14000813 None:intergenic
TCAATTGAAAATCCAAGACT+AGG 0.576773 8:+14000695 None:intergenic
TCTTGCATGGTGAATCCAGA+TGG 0.582527 8:+14000725 None:intergenic
CAAGTTCAAGAAGGTGGTGG+TGG 0.585887 8:-14000638 MsaT041920.1:CDS
AGATGTGAAACTTGTAGGGT+TGG 0.588666 8:+14000980 None:intergenic
TGAAAGATGTGAAACTTGTA+GGG 0.592727 8:+14000976 None:intergenic
TGCATCTCAACATATGAGGA+TGG 0.597529 8:+14000869 None:intergenic
TCTCAAAACCCTAAAATACA+AGG 0.599552 8:-14000953 MsaT041920.1:CDS
TGGAATGGAATGATGGGTGA+AGG 0.602503 8:-14000506 MsaT041920.1:CDS
GGATATTGGAATGGAATGAT+GGG 0.607936 8:-14000512 MsaT041920.1:CDS
AAGAGCAAATAAATTGTCCA+AGG 0.610950 8:-14001213 MsaT041920.1:CDS
GATCATGTTCAAGTTCAAGA+AGG 0.611680 8:-14000647 MsaT041920.1:CDS
TAGCTCCTAATTCATGTCCA+AGG 0.613211 8:-14001264 MsaT041920.1:CDS
CCTAATTCATGTCCAAGGCA+AGG 0.615681 8:-14001259 MsaT041920.1:CDS
AGAAGGTATTGGACTGAAGG+AGG 0.618740 8:-14001112 MsaT041920.1:CDS
GTTCAAGTTCAAGAAGGTGG+TGG 0.620240 8:-14000641 MsaT041920.1:CDS
AAGGATTAGAGAAGAAAGCA+AGG 0.621824 8:-14001240 MsaT041920.1:CDS
AGGTCAAGCATGGCATCTAG+AGG 0.626491 8:-14000806 MsaT041920.1:CDS
CATGTTCAAGTTCAAGAAGG+TGG 0.629706 8:-14000644 MsaT041920.1:CDS
GTGTTTGTTGAATTGCACCT+TGG 0.631036 8:+14001196 None:intergenic
TGACCTACTTAGGTCAAGCA+TGG 0.637135 8:-14000816 MsaT041920.1:CDS
ATAGGTATATACTCATGGAA+GGG 0.653687 8:-14001288 None:intergenic
CAAAACCCTAAAATACAAGG+AGG 0.720797 8:-14000950 MsaT041920.1:CDS
GAACACAATAAAGATCAACA+AGG 0.746748 8:-14000545 MsaT041920.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 14000496 14001296 14000496 ID=MsaG041920
Chr8 mRNA 14000496 14001296 14000496 ID=MsaT041920.1;Parent=MsaG041920
Chr8 exon 14000496 14001296 14000496 ID=MsaT041920.1.exon1;Parent=MsaT041920.1
Chr8 CDS 14000496 14001296 14000496 ID=cds.MsaT041920.1;Parent=MsaT041920.1
Gene Sequence

>MsaT041920.1

ATGGAAGGGTTAGCTCCTAATTCATGTCCAAGGCAAGGATTAGAGAAGAAAGCAAGGCCACAAGAGCAAATAAATTGTCCAAGGTGCAATTCAACAAACACAAAATTTTGCTATTACAACAACTACAGTCTCACACAACCAAGATACTTTTGCAAGACATGTAGAAGGTATTGGACTGAAGGAGGATCTCTAAGAAATGTTCCTGTTGGAGGTGGTTCAAGAAAGAACAAGAAAATTCCTTCATCATTAGCCACACCTAATAATAGTTCATCAAAAATTCCTGACCTAAATCCACCAACCCTACAAGTTTCACATCTTTCATCTCAAAACCCTAAAATACAAGGAGGCCAAGATCTTAACCTAGCTTTTCCATCTATGGAAAACTATCATCATAATCATGGTATGCCATCCTCATATGTTGAGATGCATAACAATAATGAATCATCTTCTTCAGCTCTTGACCTACTTAGGTCAAGCATGGCATCTAGAGGCATAAACCCTTATGCTAATAACAATAATTCTTTGATGTCAAACTCAAATGCTATTTATCCATCTGGATTCACCATGCAAGAAGTTAAACCTAGTCTTGGATTTTCAATTGATGGAATTAATGGAAATAGATCATATGATCATGTTCAAGTTCAAGAAGGTGGTGGTGGTGGTGGAAGACTTTTGTTCCCATTTGGAGATGTTAATAATAAACAGCTTTCTACAAGTGGTGTTGAAGTGGAACACAATAAAGATCAACAAGGAAATTCAACTGGATATTGGAATGGAATGATGGGTGAAGGATCATGGTAA

Protein sequence

>MsaT041920.1

MEGLAPNSCPRQGLEKKARPQEQINCPRCNSTNTKFCYYNNYSLTQPRYFCKTCRRYWTEGGSLRNVPVGGGSRKNKKIPSSLATPNNSSSKIPDLNPPTLQVSHLSSQNPKIQGGQDLNLAFPSMENYHHNHGMPSSYVEMHNNNESSSSALDLLRSSMASRGINPYANNNNSLMSNSNAIYPSGFTMQEVKPSLGFSIDGINGNRSYDHVQVQEGGGGGGRLLFPFGDVNNKQLSTSGVEVEHNKDQQGNSTGYWNGMMGEGSW*