AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG042389


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042389 MtrunA17_Chr8g0351751 86.454 251 28 2 1 249 1 247 8.50e-151 420
MsaG042389 MtrunA17_Chr4g0014321 59.438 249 83 2 1 249 1 231 1.65e-104 302
MsaG042389 MtrunA17_Chr4g0014031 57.831 249 85 4 1 249 1 229 1.55e-88 261
MsaG042389 MtrunA17_Chr4g0013041 56.881 218 64 2 1 218 1 188 4.60e-83 247
MsaG042389 MtrunA17_Chr4g0014131 56.078 255 82 5 1 249 1 231 1.20e-79 239
MsaG042389 MtrunA17_Chr3g0110131 57.490 247 95 5 1 246 1 238 1.99e-78 236
MsaG042389 MtrunA17_Chr3g0107381 52.157 255 78 9 1 245 1 221 2.34e-75 228
MsaG042389 MtrunA17_Chr4g0014121 69.872 156 47 0 1 156 29 184 1.73e-65 201
MsaG042389 MtrunA17_Chr2g0296831 76.230 122 29 0 1 122 1 122 2.05e-59 184
MsaG042389 MtrunA17_Chr3g0107331 49.686 159 79 1 3 161 2 159 4.11e-53 169
MsaG042389 MtrunA17_Chr3g0107351 46.203 158 84 1 3 160 2 158 1.96e-47 154
MsaG042389 MtrunA17_Chr3g0107361 46.835 158 83 1 3 160 2 158 2.85e-46 151
MsaG042389 MtrunA17_Chr3g0107341 45.570 158 85 1 3 160 2 158 1.40e-45 150
MsaG042389 MtrunA17_Chr2g0283941 44.643 168 89 1 1 168 1 164 1.83e-44 149
MsaG042389 MtrunA17_Chr3g0107461 42.675 157 90 0 1 157 1 157 4.53e-44 146
MsaG042389 MtrunA17_Chr5g0420351 45.223 157 84 2 1 157 1 155 6.77e-43 143
MsaG042389 MtrunA17_Chr5g0432691 40.260 154 91 1 1 154 1 153 7.89e-40 135
MsaG042389 MtrunA17_Chr1g0197261 37.975 158 96 2 1 158 1 156 2.14e-36 126
MsaG042389 MtrunA17_Chr1g0188681 39.490 157 93 2 1 157 1 155 7.53e-36 125
MsaG042389 MtrunA17_Chr1g0197461 39.744 156 92 2 3 158 2 155 1.24e-35 124
MsaG042389 MtrunA17_Chr1g0197321 36.709 158 99 1 1 158 1 157 1.38e-35 124
MsaG042389 MtrunA17_Chr7g0218151 43.949 157 86 2 1 157 1 155 6.78e-35 122
MsaG042389 MtrunA17_Chr1g0193311 43.312 157 87 2 1 157 1 155 1.98e-34 121
MsaG042389 MtrunA17_Chr4g0031421 41.135 141 83 0 29 169 1 141 3.05e-34 120
MsaG042389 MtrunA17_Chr1g0188661 42.038 157 89 2 1 157 1 155 1.55e-32 116
MsaG042389 MtrunA17_Chr4g0012761 42.038 157 89 2 1 157 1 155 3.93e-32 115
MsaG042389 MtrunA17_Chr3g0105791 42.063 126 73 0 29 154 1 126 2.30e-31 112
MsaG042389 MtrunA17_Chr1g0188651 43.312 157 85 2 1 157 1 153 2.06e-30 110
MsaG042389 MtrunA17_Chr2g0296861 41.026 156 91 1 1 156 1 155 3.81e-30 110
MsaG042389 MtrunA17_Chr3g0106421 41.085 129 76 0 29 157 1 129 4.55e-30 111
MsaG042389 MtrunA17_Chr2g0296851 59.406 101 38 1 74 174 1 98 1.33e-27 101
MsaG042389 MtrunA17_Chr3g0106501 37.313 134 84 0 29 162 1 134 4.30e-25 97.1
MsaG042389 MtrunA17_Chr4g0008701 39.007 141 77 2 1 138 1 135 9.43e-25 102
MsaG042389 MtrunA17_Chr7g0267601 37.589 141 79 2 1 138 1 135 1.54e-24 101
MsaG042389 MtrunA17_Chr3g0128721 32.867 143 96 0 3 145 6 148 5.08e-23 97.4
MsaG042389 MtrunA17_Chr6g0457851 27.607 163 103 6 1 157 11 164 3.72e-14 71.2
MsaG042389 MtrunA17_Chr1g0212151 28.319 113 74 3 1 107 1 112 1.27e-12 66.6
MsaG042389 MtrunA17_Chr6g0449861 31.858 113 70 4 1 107 9 120 1.95e-12 66.2
MsaG042389 MtrunA17_Chr6g0449851 32.743 113 69 4 1 107 1 112 9.36e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042389 AT5G48670.1 53.409 176 80 2 1 175 1 175 6.84e-57 184
MsaG042389 AT1G65300.1 43.558 163 91 1 3 165 2 163 8.50e-43 147
MsaG042389 AT5G26650.1 42.767 159 90 1 4 162 2 159 1.00e-40 144
MsaG042389 AT3G05860.2 43.902 164 91 1 1 164 1 163 2.50e-40 138
MsaG042389 AT5G26630.1 46.067 178 95 1 1 178 1 177 3.29e-40 138
MsaG042389 AT3G05860.3 40.000 200 110 3 1 199 1 191 3.49e-40 139
MsaG042389 AT5G27960.1 42.138 159 91 1 4 162 2 159 6.43e-40 140
MsaG042389 AT3G05860.1 43.902 164 91 1 1 164 1 163 6.54e-40 139
MsaG042389 AT1G65330.1 40.805 174 100 2 3 174 2 174 8.88e-39 136
MsaG042389 AT5G27810.1 58.065 93 39 0 29 121 1 93 2.33e-35 122
MsaG042389 AT1G31630.1 36.196 163 102 2 3 165 2 162 4.53e-35 128
MsaG042389 AT1G31640.1 37.423 163 100 2 3 165 2 162 3.12e-34 128
MsaG042389 AT2G28700.1 37.037 162 97 2 1 160 1 159 5.89e-34 125
MsaG042389 AT1G22590.2 33.129 163 105 1 1 163 1 159 1.25e-27 104
MsaG042389 AT5G26580.1 36.025 161 88 2 1 161 1 146 1.34e-27 108
MsaG042389 AT2G40210.1 40.152 132 79 0 1 132 1 132 9.34e-22 93.2
MsaG042389 AT5G06500.1 29.870 154 106 1 1 154 1 152 5.12e-20 86.3
MsaG042389 AT5G58890.1 41.071 112 57 4 1 105 1 110 1.06e-14 72.4
MsaG042389 AT5G55690.1 34.677 124 72 3 1 115 1 124 5.58e-14 70.1
MsaG042389 AT5G55690.2 34.677 124 72 3 1 115 1 124 5.58e-14 70.1
MsaG042389 AT2G15660.1 25.000 164 105 4 38 201 31 176 3.32e-12 64.7

Find 55 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTGCTTTGTTCCATTTC+AGG 0.136228 8:-21169104 None:intergenic
TCCCAATGTCCTTCAAATTT+TGG 0.150964 8:-21169313 None:intergenic
GAAGCTTGTGCTATAATTTA+CGG 0.231910 8:+21169005 MsaT042389.1:CDS
GACTAATCATGATTTGATTC+TGG 0.234615 8:-21169376 None:intergenic
ATGATGAGTCGTGACCATTT+TGG 0.256307 8:+21169464 MsaT042389.1:CDS
CTAGTCTTCAAAGTGGATTT+TGG 0.257802 8:+21169591 MsaT042389.1:CDS
TTTGGGATAGTTATGAATAA+TGG 0.321482 8:+21169482 MsaT042389.1:CDS
TCAGACATTGAAACATTAGA+AGG 0.343484 8:-21169223 None:intergenic
ATGAACCACAACCTGAGATT+TGG 0.352882 8:+21169033 MsaT042389.1:CDS
CTTTAGCCTTCATCACCCTT+TGG 0.360586 8:-21169154 None:intergenic
ACCAAAATTTGAAGGACATT+GGG 0.367874 8:+21169312 MsaT042389.1:CDS
ATTCAAGACAATGCCTGAAA+TGG 0.391921 8:+21169091 MsaT042389.1:CDS
TGAGATTTGGCCATCCCCTT+GGG 0.393251 8:+21169046 MsaT042389.1:CDS
ATCTCAGGTTGTGGTTCATA+AGG 0.415912 8:-21169029 None:intergenic
GCATCATGGGGATGACCAAA+TGG 0.423297 8:-21169569 None:intergenic
TATTCATAACTATCCCAAAA+TGG 0.424398 8:-21169478 None:intergenic
GACCAAAATTTGAAGGACAT+TGG 0.425243 8:+21169311 MsaT042389.1:CDS
GGAAAGCAACATACAAGAAA+AGG 0.431751 8:+21168931 MsaT042389.1:CDS
CTCATTCAAGGTAGTAGATT+AGG 0.433236 8:-21169614 None:intergenic
CATGTGATGGTGGTGCCATT+TGG 0.434827 8:-21169421 None:intergenic
AATTTGATGATGAATGATAA+TGG 0.435040 8:+21169533 MsaT042389.1:CDS
GTTGATTGACCAAAATTTGA+AGG 0.435105 8:+21169304 MsaT042389.1:CDS
CAAGGGGATGGCCAAATCTC+AGG 0.453389 8:-21169044 None:intergenic
AATTGAACTTCTCTCTGAGT+TGG 0.458967 8:-21169398 None:intergenic
CTGAGATTTGGCCATCCCCT+TGG 0.462588 8:+21169045 MsaT042389.1:CDS
TTTCACCTTTCTTCTAGTCA+TGG 0.469195 8:-21168880 None:intergenic
CACTTTGAAGACTAGCATCA+TGG 0.470308 8:-21169583 None:intergenic
GAAGGACATTGGGAGAAGGT+TGG 0.475154 8:+21169322 MsaT042389.1:CDS
TTGGAAGCAGTGGACAATAA+TGG 0.490759 8:+21169341 MsaT042389.1:CDS
AACATACAAGAAAAGGAAGA+AGG 0.492306 8:+21168938 MsaT042389.1:CDS
GGAGATGAGAAAGTCCCATT+TGG 0.495533 8:+21169554 MsaT042389.1:CDS
ATGTTTCAATGTCTGAATGC+AGG 0.499753 8:+21169230 MsaT042389.1:CDS
TCTTCATTCTTGACATGTGA+TGG 0.500207 8:-21169434 None:intergenic
TTGATGTGAATCATCTTACT+TGG 0.506323 8:+21169282 MsaT042389.1:CDS
CATGAACCAAAGGGTGATGA+AGG 0.509359 8:+21169148 MsaT042389.1:CDS
CATCATGGGGATGACCAAAT+GGG 0.512412 8:-21169568 None:intergenic
TGGGAGAAGGTTGGAAGCAG+TGG 0.521549 8:+21169331 MsaT042389.1:CDS
GAGAGAAGTTCAATTCCAAA+TGG 0.524320 8:+21169406 MsaT042389.1:CDS
CAAAACCATGACTAGAAGAA+AGG 0.529842 8:+21168875 None:intergenic
TGTTTCAATGTCTGAATGCA+GGG 0.544428 8:+21169231 MsaT042389.1:CDS
ACTTTGAAGACTAGCATCAT+GGG 0.548657 8:-21169582 None:intergenic
ATTTGAAGGACATTGGGAGA+AGG 0.551499 8:+21169318 MsaT042389.1:CDS
TGCAGCGTCATTGACAATGA+AGG 0.552900 8:-21168907 None:intergenic
AAGAGACTTTCATGAACCAA+AGG 0.569196 8:+21169138 MsaT042389.1:CDS
GATGGCCAAATCTCAGGTTG+TGG 0.572435 8:-21169038 None:intergenic
GGTGATGAAGGCTAAAGAGC+AGG 0.574380 8:+21169160 MsaT042389.1:CDS
TCATTCTTGACATGTGATGG+TGG 0.582023 8:-21169431 None:intergenic
GAGATTTGGCCATCCCCTTG+GGG 0.591825 8:+21169047 MsaT042389.1:CDS
AGAGACTTTCATGAACCAAA+GGG 0.592104 8:+21169139 MsaT042389.1:CDS
ACATACAAGAAAAGGAAGAA+GGG 0.593121 8:+21168939 MsaT042389.1:CDS
TCATTGTCAATGACGCTGCA+AGG 0.601167 8:+21168910 MsaT042389.1:CDS
CAGACATTGAAACATTAGAA+GGG 0.603894 8:-21169222 None:intergenic
CATGATGCTAGTCTTCAAAG+TGG 0.611355 8:+21169584 MsaT042389.1:CDS
CTTTGAAGACTAGCATCATG+GGG 0.694150 8:-21169581 None:intergenic
TGTGCAGAACAATATGTCAG+TGG 0.716818 8:+21169259 MsaT042389.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 21168882 21169631 21168882 ID=MsaG042389
Chr8 mRNA 21168882 21169631 21168882 ID=MsaT042389.1;Parent=MsaG042389
Chr8 exon 21168882 21169631 21168882 ID=MsaT042389.1.exon1;Parent=MsaT042389.1
Chr8 CDS 21168882 21169631 21168882 ID=cds.MsaT042389.1;Parent=MsaT042389.1
Gene Sequence

>MsaT042389.1

ATGACTAGAAGAAAGGTGAAACTTGCCTTCATTGTCAATGACGCTGCAAGGAAAGCAACATACAAGAAAAGGAAGAAGGGTTTATTGAAGAAGATCGACGAACTAAGCACACTTTGTGAAATTGAAGCTTGTGCTATAATTTACGGTCCTTATGAACCACAACCTGAGATTTGGCCATCCCCTTGGGGAGTCCAAAATGTGCTCTCAAAATTCAAGACAATGCCTGAAATGGAACAAAGCAAGAAAATGATGAATCAAGAGACTTTCATGAACCAAAGGGTGATGAAGGCTAAAGAGCAGGTGAAAAAACAACAAAAAGACAACAAGGAGAAAGAGATGACCCTTCTAATGTTTCAATGTCTGAATGCAGGGAAAATTGTGCAGAACAATATGTCAGTGGTTGATGTGAATCATCTTACTTGGTTGATTGACCAAAATTTGAAGGACATTGGGAGAAGGTTGGAAGCAGTGGACAATAATGGTCAAATTCAAAGCCAGAATCAAATCATGATTAGTCCAACTCAGAGAGAAGTTCAATTCCAAATGGCACCACCATCACATGTCAAGAATGAAGAAATGTCGATGATGAGTCGTGACCATTTTGGGATAGTTATGAATAATGGCGACATCATGCAAAGACAATTCTTTATGAATTTGATGATGAATGATAATGGAGATGAGAAAGTCCCATTTGGTCATCCCCATGATGCTAGTCTTCAAAGTGGATTTTGGCCTAATCTACTACCTTGA

Protein sequence

>MsaT042389.1

MTRRKVKLAFIVNDAARKATYKKRKKGLLKKIDELSTLCEIEACAIIYGPYEPQPEIWPSPWGVQNVLSKFKTMPEMEQSKKMMNQETFMNQRVMKAKEQVKKQQKDNKEKEMTLLMFQCLNAGKIVQNNMSVVDVNHLTWLIDQNLKDIGRRLEAVDNNGQIQSQNQIMISPTQREVQFQMAPPSHVKNEEMSMMSRDHFGIVMNNGDIMQRQFFMNLMMNDNGDEKVPFGHPHDASLQSGFWPNLLP*