AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036083

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036083 MtrunA17_Chr7g0267601 83.588 524 65 4 1 524 1 503 0.0 834
MsaG036083 MtrunA17_Chr4g0008701 83.206 524 83 2 1 524 1 519 0.0 826
MsaG036083 MtrunA17_Chr3g0128721 43.986 582 256 11 1 524 1 570 4.26e-131 393
MsaG036083 MtrunA17_Chr8g0361741 51.953 256 119 1 13 268 13 264 1.69e-69 224
MsaG036083 MtrunA17_Chr3g0107381 33.939 165 105 2 1 164 1 162 2.53e-24 101
MsaG036083 MtrunA17_Chr5g0432691 32.051 156 106 0 7 162 4 159 3.20e-22 93.6
MsaG036083 MtrunA17_Chr8g0351751 38.168 131 79 1 4 132 1 131 3.75e-22 95.9
MsaG036083 MtrunA17_Chr3g0107331 34.667 150 97 1 6 154 2 151 1.19e-21 91.7
MsaG036083 MtrunA17_Chr4g0014321 36.066 122 78 0 6 127 3 124 2.22e-21 93.2
MsaG036083 MtrunA17_Chr3g0107351 32.026 153 103 1 6 157 2 154 1.86e-20 88.6
MsaG036083 MtrunA17_Chr3g0107361 32.680 153 102 1 6 157 2 154 2.14e-20 88.2
MsaG036083 MtrunA17_Chr4g0013041 38.095 126 76 1 7 132 4 127 2.47e-20 89.4
MsaG036083 MtrunA17_Chr3g0107341 31.373 153 104 1 6 157 2 154 1.11e-19 86.3
MsaG036083 MtrunA17_Chr4g0014031 37.805 164 89 3 1 160 1 155 2.27e-19 87.4
MsaG036083 MtrunA17_Chr2g0283941 31.034 145 99 1 7 150 4 148 4.63e-19 86.7
MsaG036083 MtrunA17_Chr3g0110131 39.316 117 71 0 6 122 3 119 3.11e-18 84.3
MsaG036083 MtrunA17_Chr1g0197321 33.043 115 76 1 6 120 3 116 1.29e-17 80.1
MsaG036083 MtrunA17_Chr2g0296831 37.600 125 75 1 1 125 1 122 6.79e-17 77.0
MsaG036083 MtrunA17_Chr5g0420351 35.652 115 73 1 6 120 3 116 8.57e-17 77.8
MsaG036083 MtrunA17_Chr4g0014121 40.625 96 57 0 37 132 62 157 1.15e-16 78.2
MsaG036083 MtrunA17_Chr1g0197461 28.276 145 103 1 6 150 2 145 1.32e-15 74.3
MsaG036083 MtrunA17_Chr4g0014131 31.875 160 82 4 37 175 34 187 1.51e-15 76.3
MsaG036083 MtrunA17_Chr1g0188681 33.913 115 75 1 6 120 3 116 3.19e-15 73.2
MsaG036083 MtrunA17_Chr1g0197261 29.655 145 101 1 6 150 3 146 4.24e-15 72.8
MsaG036083 MtrunA17_Chr4g0012761 35.374 147 91 2 6 149 3 148 7.22e-14 69.3
MsaG036083 MtrunA17_Chr1g0193311 38.017 121 70 2 4 120 1 120 1.29e-13 68.6
MsaG036083 MtrunA17_Chr7g0218151 32.886 149 96 2 4 149 1 148 5.61e-13 67.0
MsaG036083 MtrunA17_Chr1g0188661 32.215 149 97 2 4 149 1 148 7.00e-13 66.6
MsaG036083 MtrunA17_Chr1g0188651 34.400 125 77 2 6 126 3 126 1.45e-12 65.9
MsaG036083 MtrunA17_Chr3g0107461 25.000 156 113 2 6 157 3 158 3.68e-12 64.7
MsaG036083 MtrunA17_Chr3g0106501 30.682 88 61 0 35 122 4 91 2.79e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036083 AT1G65300.1 27.985 268 164 7 6 264 2 249 3.89e-20 90.9
MsaG036083 AT2G40210.1 29.518 166 114 2 4 169 1 163 3.94e-20 92.8
MsaG036083 AT3G05860.1 30.657 137 91 2 1 136 1 134 2.56e-16 79.3
MsaG036083 AT3G05860.3 30.657 137 91 2 1 136 1 134 2.61e-16 79.3
MsaG036083 AT5G26650.1 31.579 114 78 0 7 120 2 115 5.36e-16 80.1
MsaG036083 AT3G05860.2 30.657 137 91 2 1 136 1 134 5.80e-16 77.4
MsaG036083 AT5G27960.1 31.579 114 78 0 7 120 2 115 1.34e-15 78.2
MsaG036083 AT1G31630.1 31.304 115 78 1 6 120 2 115 6.50e-15 76.6
MsaG036083 AT1G65330.1 31.858 113 77 0 8 120 4 116 1.14e-14 75.1
MsaG036083 AT1G22590.2 29.358 109 74 1 6 114 3 108 1.21e-14 72.4
MsaG036083 AT5G06500.1 28.472 144 102 1 6 149 3 145 1.21e-14 74.3
MsaG036083 AT2G15660.1 28.351 194 118 7 5 194 3 179 1.43e-14 73.9
MsaG036083 AT5G48670.1 36.752 117 74 0 6 122 3 119 1.61e-14 75.1
MsaG036083 AT1G31640.1 30.435 115 79 1 6 120 2 115 3.27e-14 75.5
MsaG036083 AT5G26630.1 33.708 178 109 5 1 177 1 170 3.85e-14 72.0
MsaG036083 AT2G28700.1 29.060 117 83 0 4 120 1 117 7.42e-14 73.2

Find 99 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGCTTCCTCAAGAAAATTT+TGG 0.151803 7:-27048269 MsaT036083.1:CDS
TTGACTCATACTTGGTTATT+AGG 0.193064 7:+27049281 None:intergenic
TTGCCTCCTCAAGGATATTT+TGG 0.199048 7:-27048491 MsaT036083.1:CDS
AGTATTATTCTCAATCAATT+TGG 0.203967 7:+27049456 None:intergenic
TTGGCTAATCAAGCCGATTT+TGG 0.211096 7:-27048770 MsaT036083.1:CDS
AACAATATAGGTAGCAATAT+TGG 0.211965 7:-27048554 MsaT036083.1:CDS
GATTGTCACCTGCTCCATTT+TGG 0.265823 7:+27049390 None:intergenic
GAAAGGGTTGTTCACCAAAA+TGG 0.296295 7:-27049404 MsaT036083.1:CDS
AGAAAATGAAGAGACTTTAA+TGG 0.303503 7:-27049161 MsaT036083.1:CDS
CCAACAACCCTTGTTAGATT+TGG 0.312296 7:-27048894 MsaT036083.1:CDS
GATGGTGGTGGGGTACAATC+TGG 0.325759 7:-27048944 MsaT036083.1:CDS
GAGGCATGTGCGATTGTGTT+TGG 0.338129 7:-27049355 MsaT036083.1:CDS
TGTTTCTTCCTCGTGGAAAT+CGG 0.350712 7:-27048589 MsaT036083.1:CDS
TATTGAAACCACTGGTCATT+TGG 0.376977 7:+27048858 None:intergenic
ACTTTGTTGACAATAATTAC+AGG 0.379077 7:-27047968 MsaT036083.1:CDS
ATTTATTCTGAAGGAAATCC+AGG 0.379085 7:+27047933 None:intergenic
GTTATCAAAATCGCCAAAAT+CGG 0.379836 7:+27048757 None:intergenic
ACAATATAGGTAGCAATATT+GGG 0.381596 7:-27048553 MsaT036083.1:CDS
GTTTCTTCCTCGTGGAAATC+GGG 0.382019 7:-27048588 MsaT036083.1:CDS
CAAAATCTTCAAAGTTAAAT+CGG 0.384532 7:+27048243 None:intergenic
GTGATACAAAACCATCAATA+TGG 0.392745 7:-27049327 MsaT036083.1:CDS
TTTGAAGATCAAGAAAACTT+TGG 0.393915 7:-27048359 MsaT036083.1:CDS
TCTTCTAAAGTAAAAGATAT+TGG 0.398866 7:+27048965 None:intergenic
AGGCATGTGCGATTGTGTTT+GGG 0.407804 7:-27049354 MsaT036083.1:CDS
GTAGGAGATGGCCATATTGA+TGG 0.410732 7:+27049316 None:intergenic
CAATGACATTGACTCATACT+TGG 0.420310 7:+27049273 None:intergenic
GGCGGCAATATTAATGGAGA+TGG 0.429163 7:-27048011 MsaT036083.1:CDS
GAAAATGAAGAGACTTTAAT+GGG 0.430958 7:-27049160 MsaT036083.1:CDS
CAAGTATGAGTCAATGTCAT+TGG 0.431413 7:-27049272 MsaT036083.1:CDS
CAATCTGGGGTTAACATGTA+TGG 0.436691 7:-27048929 MsaT036083.1:CDS
TTTGATAACAAATTTGATGA+TGG 0.436904 7:-27048743 MsaT036083.1:CDS
GTTGGAGAAGGATTATTAAG+AGG 0.452115 7:+27048995 None:intergenic
ATATCAACACCACCATTGCT+TGG 0.469029 7:+27048059 None:intergenic
ATGGTGGTGGGGTACAATCT+GGG 0.479496 7:-27048943 MsaT036083.1:CDS
TACAGGAACAACTTCAACCC+TGG 0.480219 7:-27047951 MsaT036083.1:CDS
GAAGATCAAGAAAACTTTGG+AGG 0.480766 7:-27048356 MsaT036083.1:CDS
GGAGGTCAAAGCAACATTCA+AGG 0.485994 7:-27048470 MsaT036083.1:CDS
CCAAATCTAACAAGGGTTGT+TGG 0.489048 7:+27048894 None:intergenic
GATGTCTAGGCATTTAGAAA+AGG 0.494516 7:-27049026 MsaT036083.1:CDS
ATCAATATGGCCATCTCCTA+CGG 0.501169 7:-27049314 MsaT036083.1:CDS
TGTGCGATTGTGTTTGGGCC+AGG 0.504658 7:-27049349 MsaT036083.1:CDS
ATGGTTGTTATTGAAACCAC+TGG 0.506528 7:+27048850 None:intergenic
TTTACTTTAGAAGATGGTGG+TGG 0.508226 7:-27048956 MsaT036083.1:CDS
GTATCTTCATGCTACTTCCA+TGG 0.509071 7:+27048831 None:intergenic
TAATAATCCTTCTCCAACGT+TGG 0.514500 7:-27048990 MsaT036083.1:CDS
TGAGAATAATACTCAAAGAA+AGG 0.521008 7:-27049446 MsaT036083.1:CDS
ATACCACCACATACAAATCA+TGG 0.521732 7:-27048194 MsaT036083.1:CDS
GACAATCTTATGTGGAATTG+AGG 0.522788 7:-27049374 MsaT036083.1:CDS
TTACTTTAGAAGATGGTGGT+GGG 0.531437 7:-27048955 MsaT036083.1:CDS
CCTCCACTAACAGATCTTAG+TGG 0.531606 7:-27048809 MsaT036083.1:CDS
ATTGGTGCCAACGTTGGAGA+AGG 0.535543 7:+27048983 None:intergenic
CTAACAGATCTTAGTGGTGG+TGG 0.538898 7:-27048803 MsaT036083.1:CDS
GTTATAAGAAAAGATTGAAA+GGG 0.540577 7:-27049420 MsaT036083.1:CDS
TACTTTAGAAGATGGTGGTG+GGG 0.541086 7:-27048954 MsaT036083.1:CDS
TAACAAATTTGATGATGGCA+TGG 0.546398 7:-27048738 MsaT036083.1:CDS
CATGATATGTTTCTTCCTCG+TGG 0.547514 7:-27048596 MsaT036083.1:CDS
ATATTAATGGAGATGGGATG+CGG 0.549478 7:-27048004 MsaT036083.1:CDS
CGTTATAAGAAAAGATTGAA+AGG 0.551031 7:-27049421 MsaT036083.1:CDS
GCGGCAATATTAATGGAGAT+GGG 0.556348 7:-27048010 MsaT036083.1:CDS
GTTGTTCACCAAAATGGAGC+AGG 0.556851 7:-27049398 MsaT036083.1:CDS
TCTTCAGCCACCGTAGGAGA+TGG 0.560949 7:+27049304 None:intergenic
CCACCACTAAGATCTGTTAG+TGG 0.562274 7:+27048806 None:intergenic
TGGTGGTGGTTGTGATAACT+TGG 0.567708 7:-27048789 MsaT036083.1:CDS
ACATTACAGGTAGCAATACA+AGG 0.567975 7:-27048439 MsaT036083.1:CDS
AGATCACTAGAAAGATGTCT+AGG 0.570407 7:-27049039 MsaT036083.1:CDS
TTTCTCGACCAAATCTAACA+AGG 0.571412 7:+27048886 None:intergenic
AATATGGCCATCTCCTACGG+TGG 0.571701 7:-27049311 MsaT036083.1:CDS
AAAGATATTGGTGCCAACGT+TGG 0.577514 7:+27048977 None:intergenic
GTAGGTGTGTTGCCTCCTCA+AGG 0.582180 7:-27048500 MsaT036083.1:CDS
CCAACACCATGATTTGTATG+TGG 0.583138 7:+27048188 None:intergenic
GAGCAGGTGACAATCTTATG+TGG 0.583955 7:-27049382 MsaT036083.1:CDS
TTTCTTCCTCGTGGAAATCG+GGG 0.589231 7:-27048587 MsaT036083.1:CDS
AACAAATTTGATGATGGCAT+GGG 0.594149 7:-27048737 MsaT036083.1:CDS
TTTATTCTGAAGGAAATCCA+GGG 0.595152 7:+27047934 None:intergenic
TGGTGGTGGGGTACAATCTG+GGG 0.599552 7:-27048942 MsaT036083.1:CDS
TTCTCGACCAAATCTAACAA+GGG 0.605573 7:+27048887 None:intergenic
CATGAAAATCCAAGCAATGG+TGG 0.610991 7:-27048068 MsaT036083.1:CDS
CCACATGAAAATCCAAGCAA+TGG 0.614633 7:-27048071 MsaT036083.1:CDS
TCACCTGAAAATTCTAGTGG+TGG 0.615267 7:-27048707 MsaT036083.1:CDS
CCACATACAAATCATGGTGT+TGG 0.616507 7:-27048188 MsaT036083.1:CDS
ATTAGGTCTTCAGCCACCGT+AGG 0.620414 7:+27049298 None:intergenic
ACATCACATGAAAATCATAG+TGG 0.625105 7:-27048626 MsaT036083.1:CDS
CCATCACCTGAAAATTCTAG+TGG 0.626301 7:-27048710 MsaT036083.1:CDS
GAAAATCCTAGTGGTGGTGT+AGG 0.627650 7:-27048518 MsaT036083.1:CDS
TTCTTCCTCGTGGAAATCGG+GGG 0.632479 7:-27048586 MsaT036083.1:CDS
ATGCATCAAATTGAAAACGA+AGG 0.641960 7:-27049130 MsaT036083.1:CDS
AGTGGTTTCAATAACAACCA+TGG 0.647385 7:-27048848 MsaT036083.1:CDS
TTCTCATTCAGATTTGCATG+TGG 0.650408 7:+27048410 None:intergenic
AACACACCTACACCACCACT+AGG 0.650603 7:+27048512 None:intergenic
CCTCCAAAATATCCTTGAGG+AGG 0.656666 7:+27048488 None:intergenic
ATGATACATGTAGCAACATG+TGG 0.657144 7:-27048100 MsaT036083.1:CDS
TGACCTCCAAAATATCCTTG+AGG 0.660910 7:+27048485 None:intergenic
AAAGTTGACCAAATGACCAG+TGG 0.671225 7:-27048866 MsaT036083.1:CDS
CCACTAAGATCTGTTAGTGG+AGG 0.673960 7:+27048809 None:intergenic
TCACATGAAAATCCTAGTGG+TGG 0.674534 7:-27048524 MsaT036083.1:CDS
CAATCACATGAAAATCCTAG+TGG 0.684612 7:-27048527 MsaT036083.1:CDS
ACAACATAGATAGCAACATG+TGG 0.691102 7:-27048325 MsaT036083.1:CDS
CCACTAACAGATCTTAGTGG+TGG 0.700550 7:-27048806 MsaT036083.1:CDS
ACACCATGATTTGTATGTGG+TGG 0.720749 7:+27048191 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 27047935 27049509 27047935 ID=MsaG036083
Chr7 mRNA 27047935 27049509 27047935 ID=MsaT036083.1;Parent=MsaG036083
Chr7 exon 27047935 27049509 27047935 ID=MsaT036083.1.exon1;Parent=MsaT036083.1
Chr7 CDS 27047935 27049509 27047935 ID=cds.MsaT036083.1;Parent=MsaT036083.1
Gene Sequence

>MsaT036083.1

ATGACTAGAATCAGAAAAAAGAAGATCACATCCAAATTGATTGAGAATAATACTCAAAGAAAGGCGCGTTATAAGAAAAGATTGAAAGGGTTGTTCACCAAAATGGAGCAGGTGACAATCTTATGTGGAATTGAGGCATGTGCGATTGTGTTTGGGCCAGGTGATACAAAACCATCAATATGGCCATCTCCTACGGTGGCTGAAGACCTAATAACCAAGTATGAGTCAATGTCATTGGATGTACAATCGAAAAATAAGACTGACCAATTGACTTTTTTGAAGGATAAGGGCAAAAAATTTGAAGCAAGCCTTGCAAAGATTGAAAAAGAAAATGAAGAGACTTTAATGGGAGCTTATATGCATCAAATTGAAAACGAAGGTAAGTCTTTAGATGATTTTGATCATGATGTGCTGAATCGTTTGATTGCTTTTACACTTGAAAAAATTAAGATCACTAGAAAGATGTCTAGGCATTTAGAAAAGGAGATCTTGCCTCTTAATAATCCTTCTCCAACGTTGGCACCAATATCTTTTACTTTAGAAGATGGTGGTGGGGTACAATCTGGGGTTAACATGTATGGACATGTTTTGAACCAACAACCCTTGTTAGATTTGGTCGAGAAAGTTGACCAAATGACCAGTGGTTTCAATAACAACCATGGAAGTAGCATGAAGATACCTCCACTAACAGATCTTAGTGGTGGTGGTTGTGATAACTTGGCTAATCAAGCCGATTTTGGCGATTTTGATAACAAATTTGATGATGGCATGGGAATACCATCACCTGAAAATTCTAGTGGTGGTTTTTATGCAGCGTTTTTTCAAGATAATTTGCAAGATTTTGATAGTATCATGGAGATAACATCACATGAAAATCATAGTGGTAGTGTTCATGATATGTTTCTTCCTCGTGGAAATCGGGGGAATTTTATTAACAATATAGGTAGCAATATTGGGATACAATCACATGAAAATCCTAGTGGTGGTGTAGGTGTGTTGCCTCCTCAAGGATATTTTGGAGGTCAAAGCAACATTCAAGGTTTTGATGACATTACAGGTAGCAATACAAGGATACTACCACATGCAAATCTGAATGAGAATGTTGATTTGTTGCCTCCTCAAGAAAATTTTGAAGATCAAGAAAACTTTGGAGGTTTTGATGACAACATAGATAGCAACATGTGGATACAACATGCAAATTTTAGTGGTGGTGATACCTTGCTTCCTCAAGAAAATTTTGGAGACCGATTTAACTTTGAAGATTTTGATAACAACACAGGTAGCAACATGTTGATACCACCACATACAAATCATGGTGTTGGTAATGTTGATGTTTTGTCTCATCAAAGAAATTTTGAAGTTCAGAAAAACTTTGGAGGTTTTGATGATGATACATGTAGCAACATGTGGAAACCTCCACATGAAAATCCAAGCAATGGTGGTGTTGATATGATGACTTTTCATCAAAACAATTTTGGCGGCAATATTAATGGAGATGGGATGCGGAGTTTTAATGCGAACTTTGTTGACAATAATTACAGGAACAACTTCAACCCTGGATTTCCTTCAGAATAA
Protein sequence

>MsaT036083.1

MTRIRKKKITSKLIENNTQRKARYKKRLKGLFTKMEQVTILCGIEACAIVFGPGDTKPSIWPSPTVAEDLITKYESMSLDVQSKNKTDQLTFLKDKGKKFEASLAKIEKENEETLMGAYMHQIENEGKSLDDFDHDVLNRLIAFTLEKIKITRKMSRHLEKEILPLNNPSPTLAPISFTLEDGGGVQSGVNMYGHVLNQQPLLDLVEKVDQMTSGFNNNHGSSMKIPPLTDLSGGGCDNLANQADFGDFDNKFDDGMGIPSPENSSGGFYAAFFQDNLQDFDSIMEITSHENHSGSVHDMFLPRGNRGNFINNIGSNIGIQSHENPSGGVGVLPPQGYFGGQSNIQGFDDITGSNTRILPHANLNENVDLLPPQENFEDQENFGGFDDNIDSNMWIQHANFSGGDTLLPQENFGDRFNFEDFDNNTGSNMLIPPHTNHGVGNVDVLSHQRNFEVQKNFGGFDDDTCSNMWKPPHENPSNGGVDMMTFHQNNFGGNINGDGMRSFNANFVDNNYRNNFNPGFPSE*