AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036017

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036017 MtrunA17_Chr7g0267601 83.206 524 67 4 1 524 1 503 0.0 830
MsaG036017 MtrunA17_Chr4g0008701 82.824 524 85 2 1 524 1 519 0.0 822
MsaG036017 MtrunA17_Chr3g0128721 43.986 582 256 11 1 524 1 570 2.70e-130 391
MsaG036017 MtrunA17_Chr8g0361741 52.734 256 117 1 13 268 13 264 1.87e-71 229
MsaG036017 MtrunA17_Chr3g0107381 33.939 165 105 2 1 164 1 162 2.43e-24 101
MsaG036017 MtrunA17_Chr5g0432691 32.692 156 105 0 7 162 4 159 1.25e-22 94.7
MsaG036017 MtrunA17_Chr8g0351751 38.168 131 79 1 4 132 1 131 3.75e-22 95.9
MsaG036017 MtrunA17_Chr3g0107331 34.667 150 97 1 6 154 2 151 1.37e-21 91.7
MsaG036017 MtrunA17_Chr4g0014321 36.066 122 78 0 6 127 3 124 2.09e-21 93.2
MsaG036017 MtrunA17_Chr4g0013041 38.095 126 76 1 7 132 4 127 2.06e-20 89.7
MsaG036017 MtrunA17_Chr3g0107351 32.026 153 103 1 6 157 2 154 2.14e-20 88.2
MsaG036017 MtrunA17_Chr3g0107361 32.680 153 102 1 6 157 2 154 2.78e-20 87.8
MsaG036017 MtrunA17_Chr3g0107341 31.373 153 104 1 6 157 2 154 1.23e-19 86.3
MsaG036017 MtrunA17_Chr4g0014031 37.805 164 89 3 1 160 1 155 2.36e-19 87.0
MsaG036017 MtrunA17_Chr2g0283941 31.034 145 99 1 7 150 4 148 5.44e-19 86.7
MsaG036017 MtrunA17_Chr3g0110131 39.316 117 71 0 6 122 3 119 2.80e-18 84.3
MsaG036017 MtrunA17_Chr1g0197321 33.043 115 76 1 6 120 3 116 1.19e-17 80.1
MsaG036017 MtrunA17_Chr2g0296831 37.600 125 75 1 1 125 1 122 5.27e-17 77.4
MsaG036017 MtrunA17_Chr5g0420351 35.652 115 73 1 6 120 3 116 8.40e-17 77.8
MsaG036017 MtrunA17_Chr4g0014121 40.625 96 57 0 37 132 62 157 9.85e-17 78.6
MsaG036017 MtrunA17_Chr1g0197461 28.276 145 103 1 6 150 2 145 1.12e-15 74.7
MsaG036017 MtrunA17_Chr4g0014131 31.875 160 82 4 37 175 34 187 1.81e-15 75.9
MsaG036017 MtrunA17_Chr1g0188681 33.913 115 75 1 6 120 3 116 3.10e-15 73.2
MsaG036017 MtrunA17_Chr1g0197261 29.655 145 101 1 6 150 3 146 4.45e-15 72.8
MsaG036017 MtrunA17_Chr4g0012761 35.374 147 91 2 6 149 3 148 6.75e-14 69.7
MsaG036017 MtrunA17_Chr1g0193311 38.017 121 70 2 4 120 1 120 1.19e-13 68.9
MsaG036017 MtrunA17_Chr7g0218151 33.333 147 94 2 6 149 3 148 4.95e-13 67.0
MsaG036017 MtrunA17_Chr1g0188661 32.653 147 95 2 6 149 3 148 6.30e-13 66.6
MsaG036017 MtrunA17_Chr1g0188651 34.400 125 77 2 6 126 3 126 1.46e-12 65.9
MsaG036017 MtrunA17_Chr3g0107461 25.000 156 113 2 6 157 3 158 3.41e-12 64.7
MsaG036017 MtrunA17_Chr3g0106501 30.682 88 61 0 35 122 4 91 1.84e-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
MsaG036017 AT1G65300.1 27.985 268 164 7 6 264 2 249 4.04e-20 90.9
MsaG036017 AT2G40210.1 28.916 166 115 2 4 169 1 163 2.53e-19 90.1
MsaG036017 AT3G05860.3 30.657 137 91 2 1 136 1 134 1.35e-16 80.1
MsaG036017 AT3G05860.1 30.657 137 91 2 1 136 1 134 1.47e-16 80.1
MsaG036017 AT3G05860.2 30.657 137 91 2 1 136 1 134 3.21e-16 77.8
MsaG036017 AT5G26650.1 31.579 114 78 0 7 120 2 115 3.90e-16 80.5
MsaG036017 AT5G27960.1 31.579 114 78 0 7 120 2 115 1.08e-15 78.6
MsaG036017 AT1G31630.1 31.304 115 78 1 6 120 2 115 6.56e-15 76.6
MsaG036017 AT1G22590.2 29.358 109 74 1 6 114 3 108 6.88e-15 72.8
MsaG036017 AT2G15660.1 28.351 194 118 7 5 194 3 179 9.46e-15 74.7
MsaG036017 AT5G06500.1 28.472 144 102 1 6 149 3 145 9.78e-15 74.3
MsaG036017 AT1G65330.1 31.858 113 77 0 8 120 4 116 1.14e-14 75.1
MsaG036017 AT5G48670.1 36.752 117 74 0 6 122 3 119 1.29e-14 75.5
MsaG036017 AT1G31640.1 30.435 115 79 1 6 120 2 115 2.84e-14 75.5
MsaG036017 AT5G26630.1 33.708 178 109 5 1 177 1 170 3.64e-14 72.4
MsaG036017 AT2G28700.1 29.060 117 83 0 4 120 1 117 4.53e-14 73.9

Find 97 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:-26027314 MsaT036017.1:CDS
TTGACTCATACTTGGTTATT+AGG 0.193064 7:+26028326 None:intergenic
TTGCCTCCTCAAGGATATTT+TGG 0.199048 7:-26027536 MsaT036017.1:CDS
AGTATTATTCTCAATCAATT+TGG 0.203967 7:+26028501 None:intergenic
TTGGCTAATCAAGCCGATTT+TGG 0.211096 7:-26027815 MsaT036017.1:CDS
AACAATATAGGTAGCAATAT+TGG 0.211965 7:-26027599 MsaT036017.1:CDS
GATTGTCACCTGCTCCATTT+TGG 0.265823 7:+26028435 None:intergenic
GAAAGGGTTGTTCACCAAAA+TGG 0.296295 7:-26028449 MsaT036017.1:CDS
AGAAAATGAAGAGACTTTAA+TGG 0.303503 7:-26028206 MsaT036017.1:CDS
CCAACAACCCTTGTTAGATT+TGG 0.312296 7:-26027939 MsaT036017.1:CDS
GATGGTGGTGGGGTACAATC+TGG 0.325759 7:-26027989 MsaT036017.1:CDS
GAGGCATGTGCGATTGTGTT+TGG 0.338129 7:-26028400 MsaT036017.1:CDS
TGTTTCTTCCTCGTGGAAAT+CGG 0.350712 7:-26027634 MsaT036017.1:CDS
TATTGAAACCACTGGTCATT+TGG 0.376977 7:+26027903 None:intergenic
ACTTTGTTGACAATAATTAC+AGG 0.379077 7:-26027013 MsaT036017.1:CDS
ATTTATTCTGAAGGAAATCC+AGG 0.379085 7:+26026978 None:intergenic
GTTATCAAAATCGCCAAAAT+CGG 0.379836 7:+26027802 None:intergenic
ACAATATAGGTAGCAATATT+GGG 0.381596 7:-26027598 MsaT036017.1:CDS
GTTTCTTCCTCGTGGAAATC+GGG 0.382019 7:-26027633 MsaT036017.1:CDS
CAAAATCTTCAAAGTTAAAT+CGG 0.384532 7:+26027288 None:intergenic
GTGATACAAAACCATCAATA+TGG 0.392745 7:-26028372 MsaT036017.1:CDS
TTTGAAGATCAAGAAAACTT+TGG 0.393915 7:-26027404 MsaT036017.1:CDS
TCTTCTAAAGTAAAAGATAT+TGG 0.398866 7:+26028010 None:intergenic
AGGCATGTGCGATTGTGTTT+GGG 0.407804 7:-26028399 MsaT036017.1:CDS
GTAGGAGATGGCCATATTGA+TGG 0.410732 7:+26028361 None:intergenic
CAATGACATTGACTCATACT+TGG 0.420310 7:+26028318 None:intergenic
GAAAATGAAGAGACTTTAAT+GGG 0.430958 7:-26028205 MsaT036017.1:CDS
CAAGTATGAGTCAATGTCAT+TGG 0.431413 7:-26028317 MsaT036017.1:CDS
CAATCTGGGGTTAACATGTA+TGG 0.436691 7:-26027974 MsaT036017.1:CDS
TTTGATAACAAATTTGATGA+TGG 0.436904 7:-26027788 MsaT036017.1:CDS
AGTGGCAATATTAATGGAGA+TGG 0.440123 7:-26027056 MsaT036017.1:CDS
GTTGGAGAAGGATTATTAAG+AGG 0.452115 7:+26028040 None:intergenic
GGAGGTCAAAGCAACTTTCA+AGG 0.462180 7:-26027515 MsaT036017.1:CDS
ATGGTGGTGGGGTACAATCT+GGG 0.479496 7:-26027988 MsaT036017.1:CDS
TACAGGAACAACTTCAACCC+TGG 0.480219 7:-26026996 MsaT036017.1:CDS
GAAGATCAAGAAAACTTTGG+AGG 0.480766 7:-26027401 MsaT036017.1:CDS
ATATCAGCACCACCATTGCT+TGG 0.488322 7:+26027104 None:intergenic
CCAAATCTAACAAGGGTTGT+TGG 0.489048 7:+26027939 None:intergenic
GATGTCTAGGCATTTAGAAA+AGG 0.494516 7:-26028071 MsaT036017.1:CDS
ATCAATATGGCCATCTCCTA+CGG 0.501169 7:-26028359 MsaT036017.1:CDS
TGTGCGATTGTGTTTGGGCC+AGG 0.504658 7:-26028394 MsaT036017.1:CDS
ATGGTTGTTATTGAAACCAC+TGG 0.506528 7:+26027895 None:intergenic
GTGGCAATATTAATGGAGAT+GGG 0.506626 7:-26027055 MsaT036017.1:CDS
TTTACTTTAGAAGATGGTGG+TGG 0.508226 7:-26028001 MsaT036017.1:CDS
GTATCTTCATGCTACTTCCA+TGG 0.509071 7:+26027876 None:intergenic
TAATAATCCTTCTCCAACGT+TGG 0.514500 7:-26028035 MsaT036017.1:CDS
TGAGAATAATACTCAAAGAA+AGG 0.521008 7:-26028491 MsaT036017.1:CDS
ATACCACCACATACAAATCA+TGG 0.521732 7:-26027239 MsaT036017.1:CDS
GACAATCTTATGTGGAATTG+AGG 0.522788 7:-26028419 MsaT036017.1:CDS
TTACTTTAGAAGATGGTGGT+GGG 0.531437 7:-26028000 MsaT036017.1:CDS
CCTCCACTAACAGATCTTAG+TGG 0.531606 7:-26027854 MsaT036017.1:CDS
ATTGGTGCCAACGTTGGAGA+AGG 0.535543 7:+26028028 None:intergenic
CTAACAGATCTTAGTGGTGG+TGG 0.538898 7:-26027848 MsaT036017.1:CDS
GTTATAAGAAAAGATTGAAA+GGG 0.540577 7:-26028465 MsaT036017.1:CDS
TACTTTAGAAGATGGTGGTG+GGG 0.541086 7:-26027999 MsaT036017.1:CDS
TAACAAATTTGATGATGGCA+TGG 0.546398 7:-26027783 MsaT036017.1:CDS
CATGATATGTTTCTTCCTCG+TGG 0.547514 7:-26027641 MsaT036017.1:CDS
ATATTAATGGAGATGGGATG+CGG 0.549478 7:-26027049 MsaT036017.1:CDS
CGTTATAAGAAAAGATTGAA+AGG 0.551031 7:-26028466 MsaT036017.1:CDS
GTTGTTCACCAAAATGGAGC+AGG 0.556851 7:-26028443 MsaT036017.1:CDS
TCTTCAGCCACCGTAGGAGA+TGG 0.560949 7:+26028349 None:intergenic
CCACCACTAAGATCTGTTAG+TGG 0.562274 7:+26027851 None:intergenic
TGGTGGTGGTTGTGATAACT+TGG 0.567708 7:-26027834 MsaT036017.1:CDS
AGATCACTAGAAAGATGTCT+AGG 0.570407 7:-26028084 MsaT036017.1:CDS
TTTCTCGACCAAATCTAACA+AGG 0.571412 7:+26027931 None:intergenic
AATATGGCCATCTCCTACGG+TGG 0.571701 7:-26028356 MsaT036017.1:CDS
AAAGATATTGGTGCCAACGT+TGG 0.577514 7:+26028022 None:intergenic
GTAGGTGTGTTGCCTCCTCA+AGG 0.582180 7:-26027545 MsaT036017.1:CDS
CCAACACCATGATTTGTATG+TGG 0.583138 7:+26027233 None:intergenic
GAGCAGGTGACAATCTTATG+TGG 0.583955 7:-26028427 MsaT036017.1:CDS
TTTCTTCCTCGTGGAAATCG+GGG 0.589231 7:-26027632 MsaT036017.1:CDS
AACAAATTTGATGATGGCAT+GGG 0.594149 7:-26027782 MsaT036017.1:CDS
TTTATTCTGAAGGAAATCCA+GGG 0.595152 7:+26026979 None:intergenic
TGGTGGTGGGGTACAATCTG+GGG 0.599552 7:-26027987 MsaT036017.1:CDS
TTCTCGACCAAATCTAACAA+GGG 0.605573 7:+26027932 None:intergenic
CCACATGAAAATCCAAGCAA+TGG 0.614633 7:-26027116 MsaT036017.1:CDS
CCACATACAAATCATGGTGT+TGG 0.616507 7:-26027233 MsaT036017.1:CDS
CATGAAAATCCAAGCAATGG+TGG 0.616842 7:-26027113 MsaT036017.1:CDS
ATTAGGTCTTCAGCCACCGT+AGG 0.620414 7:+26028343 None:intergenic
ACATCACATGAAAATCATAG+TGG 0.625105 7:-26027671 MsaT036017.1:CDS
GAAAATCCTAGTGGTGGTGT+AGG 0.627650 7:-26027563 MsaT036017.1:CDS
TTCTTCCTCGTGGAAATCGG+GGG 0.632479 7:-26027631 MsaT036017.1:CDS
ATGCATCAAATTGAAAACGA+AGG 0.641960 7:-26028175 MsaT036017.1:CDS
AGTGGTTTCAATAACAACCA+TGG 0.647385 7:-26027893 MsaT036017.1:CDS
TTCTCATTCAGATTTGCATG+TGG 0.650408 7:+26027455 None:intergenic
AACACACCTACACCACCACT+AGG 0.650603 7:+26027557 None:intergenic
CCTCCAAAATATCCTTGAGG+AGG 0.656666 7:+26027533 None:intergenic
ATGATACATGTAGCAACATG+TGG 0.657144 7:-26027145 MsaT036017.1:CDS
TGACCTCCAAAATATCCTTG+AGG 0.660910 7:+26027530 None:intergenic
ACATTACAGATAGCAATACA+AGG 0.662811 7:-26027484 MsaT036017.1:CDS
AAAGTTGACCAAATGACCAG+TGG 0.671225 7:-26027911 MsaT036017.1:CDS
CCACTAAGATCTGTTAGTGG+AGG 0.673960 7:+26027854 None:intergenic
TCACATGAAAATCCTAGTGG+TGG 0.674534 7:-26027569 MsaT036017.1:CDS
CAATCACATGAAAATCCTAG+TGG 0.684612 7:-26027572 MsaT036017.1:CDS
ACAACATAGATAGCAACATG+TGG 0.691102 7:-26027370 MsaT036017.1:CDS
CCACTAACAGATCTTAGTGG+TGG 0.700550 7:-26027851 MsaT036017.1:CDS
ACACCATGATTTGTATGTGG+TGG 0.720749 7:+26027236 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 26026980 26028554 26026980 ID=MsaG036017
Chr7 mRNA 26026980 26028554 26026980 ID=MsaT036017.1;Parent=MsaG036017
Chr7 exon 26026980 26028554 26026980 ID=MsaT036017.1.exon1;Parent=MsaT036017.1
Chr7 CDS 26026980 26028554 26026980 ID=cds.MsaT036017.1;Parent=MsaT036017.1
Gene Sequence

>MsaT036017.1

ATGACTAGAATCAGAAAAAAGAAGATCACATCCAAATTGATTGAGAATAATACTCAAAGAAAGGCGCGTTATAAGAAAAGATTGAAAGGGTTGTTCACCAAAATGGAGCAGGTGACAATCTTATGTGGAATTGAGGCATGTGCGATTGTGTTTGGGCCAGGTGATACAAAACCATCAATATGGCCATCTCCTACGGTGGCTGAAGACCTAATAACCAAGTATGAGTCAATGTCATTGGATGTACAATCGAAAAATAAGACTGACCAATTGACTTTTTTGAAGGATAAGGGCAAAAAACTTGAAGCAAGCCTTGCAAAGATCGAAAAAGAAAATGAAGAGACTTTAATGGGAGCTTATATGCATCAAATTGAAAACGAAGGTAAGTCTTTAGATGATTTTGATCATGATGTGCTGAATCGTTTGATTGCTTTTACACTTGAAAAAATTAAGATCACTAGAAAGATGTCTAGGCATTTAGAAAAGGAGATCTTGCCTCTTAATAATCCTTCTCCAACGTTGGCACCAATATCTTTTACTTTAGAAGATGGTGGTGGGGTACAATCTGGGGTTAACATGTATGGACATGTTTTGAACCAACAACCCTTGTTAGATTTGGTCGAGAAAGTTGACCAAATGACCAGTGGTTTCAATAACAACCATGGAAGTAGCATGAAGATACCTCCACTAACAGATCTTAGTGGTGGTGGTTGTGATAACTTGGCTAATCAAGCCGATTTTGGCGATTTTGATAACAAATTTGATGATGGCATGGGAATACCATCACCTGAAAATTTTAGTGGTGGTTTTTATGCAGCGTTTTTTCAAGATAATTTGCAAGATTTTGATAGTATCATGGAGATAACATCACATGAAAATCATAGTGGTAGTGTTCATGATATGTTTCTTCCTCGTGGAAATCGGGGGAATTTTATTAACAATATAGGTAGCAATATTGGGATACAATCACATGAAAATCCTAGTGGTGGTGTAGGTGTGTTGCCTCCTCAAGGATATTTTGGAGGTCAAAGCAACTTTCAAGGTTTTGATGACATTACAGATAGCAATACAAGGATACTACCACATGCAAATCTGAATGAGAATGTTGATTTGTTGCCTCCTCAAGAAAATTTTGAAGATCAAGAAAACTTTGGAGGTTTTGATGACAACATAGATAGCAACATGTGGATACAACATGCAAATTTTAGTGGTGGTGATACATTGCTTCCTCAAGAAAATTTTGGAGACCGATTTAACTTTGAAGATTTTGATAACAACACAGGTAGCAACATGTTGATACCACCACATACAAATCATGGTGTTGGTAATGTTGATGTTTTGTCTCATCAAAGAAATTTTGAAGTTCAGAAAAACTTTGGAGGTTTTGATGATGATACATGTAGCAACATGTGGAAACCTCCACATGAAAATCCAAGCAATGGTGGTGCTGATATGATGACTTTTCATCAAAACAATTTTAGTGGCAATATTAATGGAGATGGGATGCGGAGTTTTAATGCGAACTTTGTTGACAATAATTACAGGAACAACTTCAACCCTGGATTTCCTTCAGAATAA
Protein sequence

>MsaT036017.1

MTRIRKKKITSKLIENNTQRKARYKKRLKGLFTKMEQVTILCGIEACAIVFGPGDTKPSIWPSPTVAEDLITKYESMSLDVQSKNKTDQLTFLKDKGKKLEASLAKIEKENEETLMGAYMHQIENEGKSLDDFDHDVLNRLIAFTLEKIKITRKMSRHLEKEILPLNNPSPTLAPISFTLEDGGGVQSGVNMYGHVLNQQPLLDLVEKVDQMTSGFNNNHGSSMKIPPLTDLSGGGCDNLANQADFGDFDNKFDDGMGIPSPENFSGGFYAAFFQDNLQDFDSIMEITSHENHSGSVHDMFLPRGNRGNFINNIGSNIGIQSHENPSGGVGVLPPQGYFGGQSNFQGFDDITDSNTRILPHANLNENVDLLPPQENFEDQENFGGFDDNIDSNMWIQHANFSGGDTLLPQENFGDRFNFEDFDNNTGSNMLIPPHTNHGVGNVDVLSHQRNFEVQKNFGGFDDDTCSNMWKPPHENPSNGGADMMTFHQNNFSGNINGDGMRSFNANFVDNNYRNNFNPGFPSE*