AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003470


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003470 MtrunA17_Chr1g0185911 97.297 148 2 1 1 148 1 146 1.94e-104 295
MsaG003470 MtrunA17_Chr7g0263601 81.102 127 20 2 11 137 12 134 2.33e-72 214
MsaG003470 MtrunA17_Chr5g0446491 68.939 132 35 1 1 132 1 126 5.37e-62 188
MsaG003470 MtrunA17_Chr3g0102351 67.883 137 39 2 1 134 1 135 3.00e-61 187
MsaG003470 MtrunA17_Chr2g0290491 65.693 137 35 2 9 145 3 127 2.23e-60 184
MsaG003470 MtrunA17_Chr8g0382931 68.644 118 29 1 17 126 8 125 4.54e-55 171
MsaG003470 MtrunA17_Chr4g0076321 73.148 108 27 1 22 127 10 117 5.84e-54 166
MsaG003470 MtrunA17_Chr8g0384451 72.632 95 26 0 28 122 39 133 4.29e-52 164
MsaG003470 MtrunA17_Chr2g0296321 71.579 95 27 0 28 122 65 159 5.53e-49 157
MsaG003470 MtrunA17_Chr4g0076381 63.063 111 37 1 16 122 41 151 1.00e-48 156
MsaG003470 MtrunA17_Chr1g0195851 69.474 95 29 0 28 122 35 129 1.87e-48 154
MsaG003470 MtrunA17_Chr4g0067091 70.968 93 27 0 28 120 21 113 1.43e-47 153
MsaG003470 MtrunA17_Chr1g0165041 61.386 101 38 1 28 128 5 104 1.78e-44 144
MsaG003470 MtrunA17_Chr1g0191981 58.696 92 38 0 29 120 4 95 7.06e-38 125
MsaG003470 MtrunA17_Chr1g0159271 50.602 83 41 0 43 125 1 83 8.35e-25 91.7
MsaG003470 MtrunA17_Chr5g0446601 44.330 97 54 0 22 118 17 113 2.85e-23 90.1
MsaG003470 MtrunA17_Chr1g0158951 59.649 57 23 0 64 120 24 80 9.89e-20 79.0
MsaG003470 MtrunA17_Chr1g0159291 40.789 76 45 0 34 109 7 82 1.04e-19 78.2
MsaG003470 MtrunA17_Chr2g0307551 35.780 109 68 1 26 134 8 114 4.18e-19 78.6
MsaG003470 MtrunA17_Chr4g0062271 41.176 85 48 1 30 114 12 94 8.24e-18 75.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003470 AT2G37060.2 70.946 148 40 2 2 149 6 150 3.18e-72 214
MsaG003470 AT2G37060.3 70.946 148 40 2 2 149 6 150 3.18e-72 214
MsaG003470 AT2G37060.1 70.946 148 40 2 2 149 6 150 3.18e-72 214
MsaG003470 AT2G38880.3 71.333 150 32 3 1 149 1 140 4.80e-70 207
MsaG003470 AT2G38880.2 72.603 146 29 3 1 145 1 136 1.32e-69 206
MsaG003470 AT2G38880.1 72.603 146 29 3 1 145 1 136 1.32e-69 206
MsaG003470 AT2G38880.5 72.603 146 29 3 1 145 1 136 1.32e-69 206
MsaG003470 AT3G53340.5 75.188 133 28 2 17 149 19 146 4.12e-68 204
MsaG003470 AT3G53340.1 75.188 133 28 2 17 149 19 146 4.12e-68 204
MsaG003470 AT2G38880.7 71.233 146 29 4 1 145 1 134 2.70e-66 198
MsaG003470 AT2G38880.11 62.722 169 29 4 1 145 1 159 5.66e-64 193
MsaG003470 AT2G38880.8 62.722 169 29 4 1 145 1 159 5.66e-64 193
MsaG003470 AT4G14540.1 68.182 132 33 3 1 131 1 124 3.86e-61 186
MsaG003470 AT5G47640.1 75.630 119 21 2 28 146 26 136 1.89e-60 185
MsaG003470 AT2G38880.4 75.000 120 20 2 1 119 1 111 2.39e-60 182
MsaG003470 AT3G53340.3 83.654 104 15 1 17 120 19 120 5.68e-60 182
MsaG003470 AT3G53340.2 83.654 104 15 1 17 120 19 120 5.68e-60 182
MsaG003470 AT3G53340.4 83.495 103 15 1 17 119 19 119 7.38e-60 181
MsaG003470 AT2G38880.9 75.630 119 21 2 1 119 1 111 1.69e-59 181
MsaG003470 AT2G38880.10 75.630 119 21 2 1 119 1 111 1.69e-59 181
MsaG003470 AT2G38880.6 75.630 119 21 2 1 119 1 111 1.69e-59 181
MsaG003470 AT2G13570.1 62.791 129 39 2 9 128 7 135 1.17e-53 169
MsaG003470 AT2G47810.1 67.677 99 32 0 24 122 46 144 9.24e-48 152
MsaG003470 AT5G47670.2 61.818 110 37 1 28 132 28 137 1.27e-47 153
MsaG003470 AT5G47670.1 61.818 110 37 1 28 132 57 166 2.94e-47 153
MsaG003470 AT5G47670.3 61.818 110 37 1 28 132 57 166 2.94e-47 153
MsaG003470 AT1G21970.1 55.172 116 51 1 26 141 56 170 5.13e-46 150
MsaG003470 AT1G09030.1 57.609 92 39 0 29 120 3 94 1.92e-39 130
MsaG003470 AT5G08190.2 36.538 104 66 0 29 132 11 114 8.12e-20 80.9
MsaG003470 AT5G08190.1 38.462 104 63 1 30 132 12 115 2.18e-19 79.7
MsaG003470 AT5G23090.4 34.615 104 68 0 30 133 12 115 8.97e-19 78.2
MsaG003470 AT5G23090.5 36.190 105 66 1 30 133 12 116 2.30e-18 77.0
MsaG003470 AT5G23090.2 36.190 105 66 1 30 133 12 116 2.30e-18 77.0
MsaG003470 AT5G23090.1 36.190 105 66 1 30 133 12 116 2.30e-18 77.0
MsaG003470 AT5G23090.3 35.955 89 56 1 46 133 15 103 7.20e-14 65.1

Find 32 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGTCTTTCTCTTCTCTTTC+TGG 0.035702 1:+57372564 None:intergenic
GAGAAGAGAAAGACCATTAA+TGG 0.272230 1:-57372557 MsaT003470.1:CDS
TAACAAATCATCTCCATTAA+TGG 0.277036 1:+57372544 None:intergenic
TTATGGGCTATGGCTACTTT+AGG 0.294228 1:-57372524 MsaT003470.1:CDS
CATTAGCAGAATCATGAAAA+AGG 0.328217 1:-57373190 MsaT003470.1:CDS
TAATGGAGATGATTTGTTAT+GGG 0.363879 1:-57372540 MsaT003470.1:CDS
TTAATGGAGATGATTTGTTA+TGG 0.386568 1:-57372541 MsaT003470.1:CDS
TCTCATGGCTTTCTTCGCAT+TGG 0.422060 1:+57373286 None:intergenic
TGGCTTTCTTCGCATTGGTT+CGG 0.429184 1:+57373291 None:intergenic
GACCTGGAGGACCGCCAACT+TGG 0.437143 1:+57372086 None:intergenic
CTTGCTAGGTACACCTTAAG+TGG 0.449127 1:+57372482 None:intergenic
GACCAAGTTGGCGGTCCTCC+AGG 0.458458 1:-57372088 MsaT003470.1:CDS
ATTCTGCTAATGTTAGCTAT+AGG 0.459912 1:+57373201 None:intergenic
GTTAGAAACGGTGATGGATC+TGG 0.482572 1:-57372118 MsaT003470.1:CDS
AGACTATATAGAACCACTTA+AGG 0.485870 1:-57372495 MsaT003470.1:CDS
AAAAGGCTTTACCTTCAAAT+GGG 0.495925 1:-57373173 MsaT003470.1:CDS
AGATGATTTGTTATGGGCTA+TGG 0.505790 1:-57372534 MsaT003470.1:CDS
TCCTCCAGGTCAAAATGCTC+AGG 0.507423 1:-57372074 MsaT003470.1:CDS
TCTGTTCACCACCACTCTCA+TGG 0.515126 1:+57373271 None:intergenic
TTGGTTCGGTGCATCTGCCA+TGG 0.526473 1:+57373305 None:intergenic
TTACCTCTCTGAACCTTGCT+AGG 0.526654 1:+57372468 None:intergenic
AGTAAAGGATCTGTTAGAAA+CGG 0.549907 1:-57372130 MsaT003470.1:CDS
TTCTGATAGGGTGATAGTAA+AGG 0.555051 1:-57372145 MsaT003470.1:intron
CACTTAAGGTGTACCTAGCA+AGG 0.580922 1:-57372481 MsaT003470.1:CDS
GGATCTGTTAGAAACGGTGA+TGG 0.585242 1:-57372124 MsaT003470.1:CDS
GGTAGACGAGACCAAGTTGG+CGG 0.631551 1:-57372097 MsaT003470.1:CDS
TCTGGTAGACGAGACCAAGT+TGG 0.636481 1:-57372100 MsaT003470.1:CDS
TGCGAAGAAAGCCATGAGAG+TGG 0.653441 1:-57373282 MsaT003470.1:CDS
GGTGGTGAACAGAGTCCACG+TGG 0.738315 1:-57373261 MsaT003470.1:CDS
GAAGAAAGCCATGAGAGTGG+TGG 0.750494 1:-57373279 MsaT003470.1:CDS
GAAGCAGAAGAAGAGCCACG+TGG 0.770183 1:+57373246 None:intergenic
GTACCTAGCAAGGTTCAGAG+AGG 0.773002 1:-57372471 MsaT003470.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 57372069 57373325 57372069 ID=MsaG003470
Chr1 mRNA 57372069 57373325 57372069 ID=MsaT003470.1;Parent=MsaG003470
Chr1 exon 57372069 57372158 57372069 ID=MsaT003470.1.exon4;Parent=MsaT003470.1
Chr1 CDS 57372069 57372158 57372069 ID=cds.MsaT003470.1;Parent=MsaT003470.1
Chr1 exon 57372261 57372266 57372261 ID=MsaT003470.1.exon3;Parent=MsaT003470.1
Chr1 CDS 57372261 57372266 57372261 ID=cds.MsaT003470.1;Parent=MsaT003470.1
Chr1 exon 57372472 57372601 57372472 ID=MsaT003470.1.exon2;Parent=MsaT003470.1
Chr1 CDS 57372472 57372601 57372472 ID=cds.MsaT003470.1;Parent=MsaT003470.1
Chr1 exon 57373102 57373325 57373102 ID=MsaT003470.1.exon1;Parent=MsaT003470.1
Chr1 CDS 57373102 57373325 57373102 ID=cds.MsaT003470.1;Parent=MsaT003470.1
Gene Sequence

>MsaT003470.1

ATGGCAGATGCACCGAACCAATGCGAAGAAAGCCATGAGAGTGGTGGTGAACAGAGTCCACGTGGCTCTTCTTCTGCTTCACGTGAACAAGATCGTTTTTTGCCTATAGCTAACATTAGCAGAATCATGAAAAAGGCTTTACCTTCAAATGGGAAAATTGCGAAAGATGCTAAAGATACGATGCAAGAATGTGTTTCTGAATTCATCAGCTTTATTACTAGCGAGGCAAGTGAGAAATGCCAGAAAGAGAAGAGAAAGACCATTAATGGAGATGATTTGTTATGGGCTATGGCTACTTTAGGATTTGAAGACTATATAGAACCACTTAAGGTGTACCTAGCAAGGTTCAGAGAGTTAGAGGGTGATAGTAAAGGATCTGTTAGAAACGGTGATGGATCTGGTAGACGAGACCAAGTTGGCGGTCCTCCAGGTCAAAATGCTCAGGTGTGA

Protein sequence

>MsaT003470.1

MADAPNQCEESHESGGEQSPRGSSSASREQDRFLPIANISRIMKKALPSNGKIAKDAKDTMQECVSEFISFITSEASEKCQKEKRKTINGDDLLWAMATLGFEDYIEPLKVYLARFRELEGDSKGSVRNGDGSGRRDQVGGPPGQNAQV*