AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036021

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036021 MtrunA17_Chr7g0267601 83.015 524 68 4 1 524 1 503 0.0 826
MsaG036021 MtrunA17_Chr4g0008701 82.824 524 85 2 1 524 1 519 0.0 822
MsaG036021 MtrunA17_Chr3g0128721 44.158 582 255 12 1 524 1 570 4.96e-131 392
MsaG036021 MtrunA17_Chr8g0361741 51.562 256 120 1 13 268 13 264 3.53e-67 218
MsaG036021 MtrunA17_Chr3g0107381 33.939 165 105 2 1 164 1 162 5.16e-24 100
MsaG036021 MtrunA17_Chr3g0107331 34.667 150 97 1 6 154 2 151 1.39e-21 91.7
MsaG036021 MtrunA17_Chr5g0432691 32.051 156 106 0 7 162 4 159 6.19e-21 89.7
MsaG036021 MtrunA17_Chr8g0351751 37.405 131 80 1 4 132 1 131 8.59e-21 91.7
MsaG036021 MtrunA17_Chr3g0107351 32.026 153 103 1 6 157 2 154 2.31e-20 88.2
MsaG036021 MtrunA17_Chr3g0107361 32.680 153 102 1 6 157 2 154 2.52e-20 88.2
MsaG036021 MtrunA17_Chr4g0014321 35.246 122 79 0 6 127 3 124 4.91e-20 89.4
MsaG036021 MtrunA17_Chr3g0107341 31.373 153 104 1 6 157 2 154 1.45e-19 85.9
MsaG036021 MtrunA17_Chr4g0013041 37.302 126 77 1 7 132 4 127 1.27e-18 84.3
MsaG036021 MtrunA17_Chr2g0283941 31.034 145 99 1 7 150 4 148 1.58e-18 85.1
MsaG036021 MtrunA17_Chr4g0014031 37.195 164 90 3 1 160 1 155 1.46e-17 82.0
MsaG036021 MtrunA17_Chr3g0110131 37.815 119 74 0 4 122 1 119 4.99e-17 80.9
MsaG036021 MtrunA17_Chr1g0197321 31.624 117 79 1 4 120 1 116 1.68e-16 77.0
MsaG036021 MtrunA17_Chr5g0420351 34.188 117 76 1 4 120 1 116 1.11e-15 74.7
MsaG036021 MtrunA17_Chr2g0296831 35.246 122 79 0 4 125 1 122 2.33e-15 72.8
MsaG036021 MtrunA17_Chr4g0014121 39.583 96 58 0 37 132 62 157 6.32e-15 73.2
MsaG036021 MtrunA17_Chr1g0197461 27.586 145 104 1 6 150 2 145 1.68e-14 71.2
MsaG036021 MtrunA17_Chr1g0188681 33.043 115 76 1 6 120 3 116 4.74e-14 70.1
MsaG036021 MtrunA17_Chr1g0197261 28.571 147 104 1 4 150 1 146 6.01e-14 69.7
MsaG036021 MtrunA17_Chr4g0014131 31.250 160 83 4 37 175 34 187 6.15e-14 71.6
MsaG036021 MtrunA17_Chr4g0012761 34.228 149 94 2 4 149 1 148 9.35e-13 66.2
MsaG036021 MtrunA17_Chr1g0193311 37.190 121 71 2 4 120 1 120 1.56e-12 65.5
MsaG036021 MtrunA17_Chr7g0218151 32.215 149 97 2 4 149 1 148 6.22e-12 63.9
MsaG036021 MtrunA17_Chr1g0188661 31.544 149 98 2 4 149 1 148 6.91e-12 63.9
MsaG036021 MtrunA17_Chr3g0107461 24.684 158 115 2 4 157 1 158 7.56e-12 63.5
MsaG036021 MtrunA17_Chr1g0188651 33.600 125 78 2 6 126 3 126 2.10e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036021 AT1G65300.1 27.612 268 165 7 6 264 2 249 1.21e-18 86.7
MsaG036021 AT2G40210.1 28.313 166 116 2 4 169 1 163 9.37e-18 85.5
MsaG036021 AT3G05860.1 29.927 137 92 2 1 136 1 134 2.96e-15 76.3
MsaG036021 AT3G05860.3 29.927 137 92 2 1 136 1 134 3.18e-15 75.9
MsaG036021 AT5G26650.1 30.702 114 79 0 7 120 2 115 8.31e-15 76.6
MsaG036021 AT1G22590.2 29.358 109 74 1 6 114 3 108 9.92e-15 72.4
MsaG036021 AT5G06500.1 28.082 146 104 1 4 149 1 145 1.02e-14 74.3
MsaG036021 AT3G05860.2 29.927 137 92 2 1 136 1 134 1.02e-14 73.6
MsaG036021 AT5G27960.1 30.702 114 79 0 7 120 2 115 2.58e-14 74.3
MsaG036021 AT1G31630.1 30.435 115 79 1 6 120 2 115 8.11e-14 73.2
MsaG036021 AT1G31640.1 30.508 118 78 2 3 120 2 115 2.32e-13 72.8
MsaG036021 AT5G48670.1 35.294 119 77 0 4 122 1 119 2.55e-13 71.6
MsaG036021 AT1G65330.1 30.973 113 78 0 8 120 4 116 2.84e-13 70.9
MsaG036021 AT5G26630.1 33.146 178 110 5 1 177 1 170 1.10e-12 67.8
MsaG036021 AT2G28700.1 28.205 117 84 0 4 120 1 117 1.19e-12 69.7
MsaG036021 AT2G15660.1 28.846 156 104 5 40 194 30 179 1.22e-12 68.6

Find 101 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGCTTCCTCAAGAAAATTT+TGG 0.166377 7:-26150383 MsaT036021.1:CDS
TTGACTCATACTTGGTTATT+AGG 0.193064 7:+26151395 None:intergenic
TTGCCTCCTCAAGGATATTT+TGG 0.199048 7:-26150605 MsaT036021.1:CDS
AGTATTATTCTCAATCAATT+TGG 0.203967 7:+26151570 None:intergenic
AACTTTGGCGGCAATATTAA+TGG 0.210065 7:-26150131 MsaT036021.1:CDS
TTGGCTAATCAAGCCGATTT+TGG 0.211096 7:-26150884 MsaT036021.1:CDS
AACAATATAGGTAGCAATAT+TGG 0.211965 7:-26150668 MsaT036021.1:CDS
GATTGTCACCTGCTCCATTT+TGG 0.265823 7:+26151504 None:intergenic
CAAAATCTTCAAAGTGAAAT+TGG 0.267716 7:+26150357 None:intergenic
GAAAGGGTTGTTCACCAAAA+TGG 0.296295 7:-26151518 MsaT036021.1:CDS
AGAAAATGAAGAGACTTTAA+TGG 0.303503 7:-26151275 MsaT036021.1:CDS
CCAACAACCCTTGTTAGATT+TGG 0.312296 7:-26151008 MsaT036021.1:CDS
GATGGTGGTGGGGTACAATC+TGG 0.325759 7:-26151058 MsaT036021.1:CDS
GAGGCATGTGCGATTGTGTT+TGG 0.338129 7:-26151469 MsaT036021.1:CDS
TGTTTCTTCCTCGTGGAAAT+CGG 0.350712 7:-26150703 MsaT036021.1:CDS
TTTGAAGTTCACAGAAACTT+TGG 0.364250 7:-26150248 MsaT036021.1:CDS
TATTGAAACCACTGGTCATT+TGG 0.376977 7:+26150972 None:intergenic
ACTTTGTTGACAATAATTAC+AGG 0.379077 7:-26150082 MsaT036021.1:CDS
GTTATCAAAATCGCCAAAAT+CGG 0.379836 7:+26150871 None:intergenic
ACAATATAGGTAGCAATATT+GGG 0.381596 7:-26150667 MsaT036021.1:CDS
GTTTCTTCCTCGTGGAAATC+GGG 0.382019 7:-26150702 MsaT036021.1:CDS
GTGATACAAAACCATCAATA+TGG 0.384286 7:-26151441 MsaT036021.1:CDS
TTTGAAGATCAAGAAAACTT+TGG 0.393915 7:-26150473 MsaT036021.1:CDS
TCTTCTAAAGTAAAAGATAT+TGG 0.398866 7:+26151079 None:intergenic
AGGCATGTGCGATTGTGTTT+GGG 0.407804 7:-26151468 MsaT036021.1:CDS
GTAGGAGATGGCCATATTGA+TGG 0.410732 7:+26151430 None:intergenic
CAATGACATTGACTCATACT+TGG 0.420310 7:+26151387 None:intergenic
GAAAATGAAGAGACTTTAAT+GGG 0.430958 7:-26151274 MsaT036021.1:CDS
CAAGTATGAGTCAATGTCAT+TGG 0.431413 7:-26151386 MsaT036021.1:CDS
CAATCTGGGGTTAACATGTA+TGG 0.436691 7:-26151043 MsaT036021.1:CDS
TTTGATAACAAATTTGATGA+TGG 0.436904 7:-26150857 MsaT036021.1:CDS
GGCGGCAATATTAATGGAGA+TGG 0.442349 7:-26150125 MsaT036021.1:CDS
GTTGGAGAAGGATTATTAAG+AGG 0.452115 7:+26151109 None:intergenic
GGAGGTCAAAGCAACTTTCA+AGG 0.462180 7:-26150584 MsaT036021.1:CDS
ATATCAACACCACCATTGCT+TGG 0.469029 7:+26150173 None:intergenic
ATGGTGGTGGGGTACAATCT+GGG 0.479496 7:-26151057 MsaT036021.1:CDS
TACAGGAACAACTTCAACCC+TGG 0.480219 7:-26150065 MsaT036021.1:CDS
GAAGATCAAGAAAACTTTGG+AGG 0.480766 7:-26150470 MsaT036021.1:CDS
TTTCATCAAAACAACTTTGG+CGG 0.485753 7:-26150143 MsaT036021.1:CDS
CCAAATCTAACAAGGGTTGT+TGG 0.489048 7:+26151008 None:intergenic
GATGTCTAGGCATTTAGAAA+AGG 0.494516 7:-26151140 MsaT036021.1:CDS
ATCAATATGGCCATCTCCTA+CGG 0.501169 7:-26151428 MsaT036021.1:CDS
ATGGTTGTTATTGAAACCAC+TGG 0.506528 7:+26150964 None:intergenic
TTTACTTTAGAAGATGGTGG+TGG 0.508226 7:-26151070 MsaT036021.1:CDS
GTATCTTCATGCTACTTCCA+TGG 0.509071 7:+26150945 None:intergenic
TAATAATCCTTCTCCAACGT+TGG 0.514500 7:-26151104 MsaT036021.1:CDS
TGAGAATAATACTCAAAGAA+AGG 0.521008 7:-26151560 MsaT036021.1:CDS
ATACCACCACATACAAATCA+TGG 0.521732 7:-26150308 MsaT036021.1:CDS
GACAATCTTATGTGGAATTG+AGG 0.522788 7:-26151488 MsaT036021.1:CDS
TTACTTTAGAAGATGGTGGT+GGG 0.531437 7:-26151069 MsaT036021.1:CDS
CCTCCACTAACAGATCTTAG+TGG 0.531606 7:-26150923 MsaT036021.1:CDS
ATTGGTGCCAACGTTGGAGA+AGG 0.535543 7:+26151097 None:intergenic
CTAACAGATCTTAGTGGTGG+TGG 0.538898 7:-26150917 MsaT036021.1:CDS
GTTATAAGAAAAGATTGAAA+GGG 0.540577 7:-26151534 MsaT036021.1:CDS
TACTTTAGAAGATGGTGGTG+GGG 0.541086 7:-26151068 MsaT036021.1:CDS
TAACAAATTTGATGATGGCA+TGG 0.546398 7:-26150852 MsaT036021.1:CDS
CATGATATGTTTCTTCCTCG+TGG 0.547514 7:-26150710 MsaT036021.1:CDS
ATATTAATGGAGATGGGATG+CGG 0.549478 7:-26150118 MsaT036021.1:CDS
CGTTATAAGAAAAGATTGAA+AGG 0.551031 7:-26151535 MsaT036021.1:CDS
GAAGTTCACAGAAACTTTGG+AGG 0.552988 7:-26150245 MsaT036021.1:CDS
GCGGCAATATTAATGGAGAT+GGG 0.556348 7:-26150124 MsaT036021.1:CDS
GTTGTTCACCAAAATGGAGC+AGG 0.556851 7:-26151512 MsaT036021.1:CDS
TCTTCAGCCACCGTAGGAGA+TGG 0.560949 7:+26151418 None:intergenic
CCACCACTAAGATCTGTTAG+TGG 0.562274 7:+26150920 None:intergenic
TGGTGGTGGTTGTGATAACT+TGG 0.567708 7:-26150903 MsaT036021.1:CDS
ACATTACAGGTAGCAATACA+AGG 0.567975 7:-26150553 MsaT036021.1:CDS
AGATCACTAGAAAGATGTCT+AGG 0.570407 7:-26151153 MsaT036021.1:CDS
TTTCTCGACCAAATCTAACA+AGG 0.571412 7:+26151000 None:intergenic
AATATGGCCATCTCCTACGG+TGG 0.571701 7:-26151425 MsaT036021.1:CDS
AAAGATATTGGTGCCAACGT+TGG 0.577514 7:+26151091 None:intergenic
GTAGGTGTGTTGCCTCCTCA+AGG 0.582180 7:-26150614 MsaT036021.1:CDS
CCAACACCATGATTTGTATG+TGG 0.583138 7:+26150302 None:intergenic
GAGCAGGTGACAATCTTATG+TGG 0.583955 7:-26151496 MsaT036021.1:CDS
TTTCTTCCTCGTGGAAATCG+GGG 0.589231 7:-26150701 MsaT036021.1:CDS
AACAAATTTGATGATGGCAT+GGG 0.594149 7:-26150851 MsaT036021.1:CDS
TTTATTCTGAAGGAAATCCA+GGG 0.595152 7:+26150048 None:intergenic
TGGTGGTGGGGTACAATCTG+GGG 0.599552 7:-26151056 MsaT036021.1:CDS
TTCTCGACCAAATCTAACAA+GGG 0.605573 7:+26151001 None:intergenic
CATGAAAATCCAAGCAATGG+TGG 0.610991 7:-26150182 MsaT036021.1:CDS
CCACATGAAAATCCAAGCAA+TGG 0.614633 7:-26150185 MsaT036021.1:CDS
TCACCTGAAAATTCTAGTGG+TGG 0.615267 7:-26150821 MsaT036021.1:CDS
CCACATACAAATCATGGTGT+TGG 0.616507 7:-26150302 MsaT036021.1:CDS
ATTAGGTCTTCAGCCACCGT+AGG 0.620414 7:+26151412 None:intergenic
ACATCACATGAAAATCATAG+TGG 0.625105 7:-26150740 MsaT036021.1:CDS
CCATCACCTGAAAATTCTAG+TGG 0.626301 7:-26150824 MsaT036021.1:CDS
GAAAATCCTAGTGGTGGTGT+AGG 0.627650 7:-26150632 MsaT036021.1:CDS
TTCTTCCTCGTGGAAATCGG+GGG 0.632479 7:-26150700 MsaT036021.1:CDS
ATGCATCAAATTGAAAACGA+AGG 0.641960 7:-26151244 MsaT036021.1:CDS
AGTGGTTTCAATAACAACCA+TGG 0.647385 7:-26150962 MsaT036021.1:CDS
TTCTCATTCAGATTTGCATG+TGG 0.650408 7:+26150524 None:intergenic
AACACACCTACACCACCACT+AGG 0.650603 7:+26150626 None:intergenic
CCTCCAAAATATCCTTGAGG+AGG 0.656666 7:+26150602 None:intergenic
ATGATACATGTAGCAACATG+TGG 0.657144 7:-26150214 MsaT036021.1:CDS
TGACCTCCAAAATATCCTTG+AGG 0.660910 7:+26150599 None:intergenic
ACATCATAGATAGCAGCATG+TGG 0.662980 7:-26150439 MsaT036021.1:CDS
AAAGTTGACCAAATGACCAG+TGG 0.671225 7:-26150980 MsaT036021.1:CDS
CCACTAAGATCTGTTAGTGG+AGG 0.673960 7:+26150923 None:intergenic
TCACATGAAAATCCTAGTGG+TGG 0.674534 7:-26150638 MsaT036021.1:CDS
CAATCACATGAAAATCCTAG+TGG 0.684612 7:-26150641 MsaT036021.1:CDS
CCACTAACAGATCTTAGTGG+TGG 0.700550 7:-26150920 MsaT036021.1:CDS
ACACCATGATTTGTATGTGG+TGG 0.720749 7:+26150305 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 26150049 26151623 26150049 ID=MsaG036021
Chr7 mRNA 26150049 26151623 26150049 ID=MsaT036021.1;Parent=MsaG036021
Chr7 exon 26150049 26151623 26150049 ID=MsaT036021.1.exon1;Parent=MsaT036021.1
Chr7 CDS 26150049 26151623 26150049 ID=cds.MsaT036021.1;Parent=MsaT036021.1
Gene Sequence

>MsaT036021.1

ATGACTAGAATCAAAAAAAAGAAGATCACATCCAAATTGATTGAGAATAATACTCAAAGAAAGGCGCGTTATAAGAAAAGATTGAAAGGGTTGTTCACCAAAATGGAGCAGGTGACAATCTTATGTGGAATTGAGGCATGTGCGATTGTGTTTGGGCTGTGTGATACAAAACCATCAATATGGCCATCTCCTACGGTGGCTGAAGACCTAATAACCAAGTATGAGTCAATGTCATTGGATGTACAATCGAAAAATAAGACTGACCAATTGACTTTTTTGAAGGATAAGGGCAAAAAACTTGAAGCAAGCCTTGCAAAGATTGAAAAAGAAAATGAAGAGACTTTAATGGGAGCTTATATGCATCAAATTGAAAACGAAGGTAAGTCTTTAGATGATTTTGATCATGATGTGCTGAATCGTTTGATTGCTTTTACACTTGAAAAAATTAAGATCACTAGAAAGATGTCTAGGCATTTAGAAAAGGAGATCTTGCCTCTTAATAATCCTTCTCCAACGTTGGCACCAATATCTTTTACTTTAGAAGATGGTGGTGGGGTACAATCTGGGGTTAACATGTATGGACATGTTTTGAACCAACAACCCTTGTTAGATTTGGTCGAGAAAGTTGACCAAATGACCAGTGGTTTCAATAACAACCATGGAAGTAGCATGAAGATACCTCCACTAACAGATCTTAGTGGTGGTGGTTGTGATAACTTGGCTAATCAAGCCGATTTTGGCGATTTTGATAACAAATTTGATGATGGCATGGGAATACCATCACCTGAAAATTCTAGTGGTGGTTTTTATGCAGCGTTTTTTCAAGATAATTTGCAAGATTTTGATAGTATCATGGAGATAACATCACATGAAAATCATAGTGGTAGTGTTCATGATATGTTTCTTCCTCGTGGAAATCGGGGGAATTTTATTAACAATATAGGTAGCAATATTGGGATACAATCACATGAAAATCCTAGTGGTGGTGTAGGTGTGTTGCCTCCTCAAGGATATTTTGGAGGTCAAAGCAACTTTCAAGGTTTTGATGACATTACAGGTAGCAATACAAGGATACTACCACATGCAAATCTGAATGAGAATGTTGATTTGTTGCCTCCTCAAGAAAATTTTGAAGATCAAGAAAACTTTGGAGGTTTTGATGACATCATAGATAGCAGCATGTGGATACAACATGCAAATTTTAGTGGTGGTGATACATTGCTTCCTCAAGAAAATTTTGGAGACCAATTTCACTTTGAAGATTTTGATAACAACACAGGTAGCAACATGTTGATACCACCACATACAAATCATGGTGTTGGTAATGTTGATGTTTTGTCTCATCAAAGAAATTTTGAAGTTCACAGAAACTTTGGAGGTTTTGATGATGATACATGTAGCAACATGTGGAAACCTCCACATGAAAATCCAAGCAATGGTGGTGTTGATATGATGACTTTTCATCAAAACAACTTTGGCGGCAATATTAATGGAGATGGGATGCGGAGTTTTAATGCGAACTTTGTTGACAATAATTACAGGAACAACTTCAACCCTGGATTTCCTTCAGAATAA
Protein sequence

>MsaT036021.1

MTRIKKKKITSKLIENNTQRKARYKKRLKGLFTKMEQVTILCGIEACAIVFGLCDTKPSIWPSPTVAEDLITKYESMSLDVQSKNKTDQLTFLKDKGKKLEASLAKIEKENEETLMGAYMHQIENEGKSLDDFDHDVLNRLIAFTLEKIKITRKMSRHLEKEILPLNNPSPTLAPISFTLEDGGGVQSGVNMYGHVLNQQPLLDLVEKVDQMTSGFNNNHGSSMKIPPLTDLSGGGCDNLANQADFGDFDNKFDDGMGIPSPENSSGGFYAAFFQDNLQDFDSIMEITSHENHSGSVHDMFLPRGNRGNFINNIGSNIGIQSHENPSGGVGVLPPQGYFGGQSNFQGFDDITGSNTRILPHANLNENVDLLPPQENFEDQENFGGFDDIIDSSMWIQHANFSGGDTLLPQENFGDQFHFEDFDNNTGSNMLIPPHTNHGVGNVDVLSHQRNFEVHRNFGGFDDDTCSNMWKPPHENPSNGGVDMMTFHQNNFGGNINGDGMRSFNANFVDNNYRNNFNPGFPSE*