AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036048

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036048 MtrunA17_Chr7g0267601 83.015 524 68 4 1 524 1 503 0.0 824
MsaG036048 MtrunA17_Chr4g0008701 82.634 524 86 2 1 524 1 519 0.0 820
MsaG036048 MtrunA17_Chr3g0128721 44.158 582 255 12 1 524 1 570 3.83e-132 395
MsaG036048 MtrunA17_Chr8g0361741 53.516 256 115 1 13 268 13 264 9.44e-71 228
MsaG036048 MtrunA17_Chr3g0107381 33.333 165 106 2 1 164 1 162 2.71e-24 101
MsaG036048 MtrunA17_Chr5g0432691 32.051 156 106 0 7 162 4 159 1.30e-22 94.7
MsaG036048 MtrunA17_Chr8g0351751 37.405 131 80 1 4 132 1 131 4.45e-22 95.5
MsaG036048 MtrunA17_Chr3g0107331 34.000 150 98 1 6 154 2 151 1.11e-21 92.0
MsaG036048 MtrunA17_Chr4g0014321 35.246 122 79 0 6 127 3 124 3.14e-21 92.8
MsaG036048 MtrunA17_Chr3g0107351 31.373 153 104 1 6 157 2 154 1.92e-20 88.6
MsaG036048 MtrunA17_Chr3g0107361 32.026 153 103 1 6 157 2 154 2.08e-20 88.2
MsaG036048 MtrunA17_Chr4g0013041 37.302 126 77 1 7 132 4 127 3.50e-20 89.0
MsaG036048 MtrunA17_Chr3g0107341 30.719 153 105 1 6 157 2 154 1.04e-19 86.3
MsaG036048 MtrunA17_Chr4g0014031 37.805 164 89 3 1 160 1 155 2.80e-19 87.0
MsaG036048 MtrunA17_Chr2g0283941 30.345 145 100 1 7 150 4 148 8.60e-19 85.9
MsaG036048 MtrunA17_Chr3g0110131 37.815 119 74 0 4 122 1 119 3.14e-18 84.3
MsaG036048 MtrunA17_Chr1g0197321 31.624 117 79 1 4 120 1 116 8.37e-18 80.9
MsaG036048 MtrunA17_Chr5g0420351 34.188 117 76 1 4 120 1 116 5.18e-17 78.6
MsaG036048 MtrunA17_Chr2g0296831 35.246 122 79 0 4 125 1 122 8.66e-17 76.6
MsaG036048 MtrunA17_Chr4g0014121 39.583 96 58 0 37 132 62 157 1.93e-16 77.8
MsaG036048 MtrunA17_Chr4g0014131 31.875 160 82 4 37 175 34 187 2.10e-16 78.6
MsaG036048 MtrunA17_Chr1g0197461 27.586 145 104 1 6 150 2 145 1.07e-15 74.7
MsaG036048 MtrunA17_Chr1g0188681 33.043 115 76 1 6 120 3 116 2.46e-15 73.6
MsaG036048 MtrunA17_Chr1g0197261 28.571 147 104 1 4 150 1 146 3.02e-15 73.2
MsaG036048 MtrunA17_Chr4g0012761 34.228 149 94 2 4 149 1 148 5.62e-14 69.7
MsaG036048 MtrunA17_Chr1g0193311 37.190 121 71 2 4 120 1 120 1.10e-13 68.9
MsaG036048 MtrunA17_Chr7g0218151 32.215 149 97 2 4 149 1 148 4.01e-13 67.4
MsaG036048 MtrunA17_Chr1g0188661 31.544 149 98 2 4 149 1 148 4.29e-13 67.4
MsaG036048 MtrunA17_Chr1g0188651 33.600 125 78 2 6 126 3 126 9.48e-13 66.2
MsaG036048 MtrunA17_Chr3g0107461 24.051 158 116 2 4 157 1 158 3.34e-12 64.7
MsaG036048 MtrunA17_Chr3g0106501 29.545 88 62 0 35 122 4 91 3.48e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036048 AT2G40210.1 27.933 179 124 3 4 182 1 174 4.28e-20 92.4
MsaG036048 AT1G65300.1 36.522 115 73 0 6 120 2 116 5.97e-20 90.5
MsaG036048 AT3G05860.3 31.387 137 90 2 1 136 1 134 7.21e-17 80.9
MsaG036048 AT3G05860.1 31.387 137 90 2 1 136 1 134 7.81e-17 80.9
MsaG036048 AT3G05860.2 31.387 137 90 2 1 136 1 134 1.82e-16 78.6
MsaG036048 AT5G26650.1 31.579 114 78 0 7 120 2 115 3.79e-16 80.5
MsaG036048 AT5G27960.1 31.579 114 78 0 7 120 2 115 1.34e-15 78.2
MsaG036048 AT1G31630.1 32.174 115 77 1 6 120 2 115 3.33e-15 77.4
MsaG036048 AT5G06500.1 28.767 146 103 1 4 149 1 145 5.05e-15 75.1
MsaG036048 AT1G65330.1 32.743 113 76 0 8 120 4 116 5.39e-15 75.9
MsaG036048 AT1G22590.2 28.440 109 75 1 6 114 3 108 1.12e-14 72.4
MsaG036048 AT1G31640.1 32.203 118 76 2 3 120 2 115 1.39e-14 76.6
MsaG036048 AT5G48670.1 35.294 119 77 0 4 122 1 119 1.43e-14 75.1
MsaG036048 AT2G28700.1 29.915 117 82 0 4 120 1 117 2.08e-14 74.7
MsaG036048 AT2G15660.1 31.852 135 85 5 40 171 30 160 4.03e-14 72.8
MsaG036048 AT5G26630.1 32.212 208 121 6 1 199 1 197 8.07e-14 71.2

Find 105 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:+26553718 MsaT036048.1:CDS
TTGACTCATACTTGGTTATT+AGG 0.193064 7:-26552706 None:intergenic
TTGCCTCCTCAAGGATATTT+TGG 0.199048 7:+26553496 MsaT036048.1:CDS
AGTATTATTCTCAATCAATT+TGG 0.203967 7:-26552531 None:intergenic
AACAATATAGGTAGCAATAT+TGG 0.211965 7:+26553433 MsaT036048.1:CDS
AACTTTAGCGGCAATATTAA+TGG 0.235635 7:+26553970 MsaT036048.1:CDS
CAAAATCTTCAAAGTTAAAT+TGG 0.246957 7:-26553744 None:intergenic
GATTGTCACCTGCTCCATTT+TGG 0.265823 7:-26552597 None:intergenic
GAAAGGGTTGTTCACCAAAA+TGG 0.296295 7:+26552583 MsaT036048.1:CDS
GATGGTGATGGGGTACATTC+TGG 0.296453 7:+26553043 MsaT036048.1:CDS
CCAACAACCCTTGTTAGATT+TGG 0.298734 7:+26553093 MsaT036048.1:CDS
TTGGCTAATCAAGCCGGTTT+TGG 0.300104 7:+26553217 MsaT036048.1:CDS
AGAAAATGAAGAGACTTTAA+TGG 0.303503 7:+26552826 MsaT036048.1:CDS
GAGGCATGTGCGGTTGTGTT+TGG 0.344211 7:+26552632 MsaT036048.1:CDS
TTTGAAGTTCACAGAAACTT+TGG 0.364250 7:+26553853 MsaT036048.1:CDS
TATTTCTTCCTCATGGAAAT+CGG 0.364732 7:+26553398 MsaT036048.1:CDS
ACTTTGTTGACAATAATTAC+AGG 0.379077 7:+26554019 MsaT036048.1:CDS
ACAATATAGGTAGCAATATT+GGG 0.381596 7:+26553434 MsaT036048.1:CDS
AGGCATGTGCGGTTGTGTTT+GGG 0.389221 7:+26552633 MsaT036048.1:CDS
GTGATACAAAACCATCAATA+TGG 0.392745 7:+26552660 MsaT036048.1:CDS
TTTGATGATCAAGAAAACTT+TGG 0.393915 7:+26553628 MsaT036048.1:CDS
TCTTCTAAAGTAAAAGATAT+TGG 0.398866 7:-26553022 None:intergenic
ATTTCTTCCTCATGGAAATC+GGG 0.405974 7:+26553399 MsaT036048.1:CDS
GTTATCAAAATTGCCAAAAC+CGG 0.407617 7:-26553230 None:intergenic
GTAGGAGATGGCCATATTGA+TGG 0.410732 7:-26552671 None:intergenic
CAATGACATTGACTCATACT+TGG 0.420310 7:-26552714 None:intergenic
GAAAATGAAGAGACTTTAAT+GGG 0.430958 7:+26552827 MsaT036048.1:CDS
CAAGTATGAGTCAATGTCAT+TGG 0.431413 7:+26552715 MsaT036048.1:CDS
ATGGTGATGGGGTACATTCT+GGG 0.432610 7:+26553044 MsaT036048.1:CDS
CATTCTGGGGTTAACATGTA+TGG 0.436691 7:+26553058 MsaT036048.1:CDS
TTTCATCAAAACAACTTTAG+CGG 0.439490 7:+26553958 MsaT036048.1:CDS
AGCGGCAATATTAATGGAGA+TGG 0.440104 7:+26553976 MsaT036048.1:CDS
TGTGCGGTTGTGTTTGGGCC+AGG 0.446264 7:+26552638 MsaT036048.1:CDS
CATGATATATTTCTTCCTCA+TGG 0.452121 7:+26553391 MsaT036048.1:CDS
CCAAATCTAACAAGGGTTGT+TGG 0.460158 7:-26553093 None:intergenic
GGAGGTCAAAGCAACTTTCA+AGG 0.462180 7:+26553517 MsaT036048.1:CDS
GATGATCAAGAAAACTTTGG+AGG 0.463709 7:+26553631 MsaT036048.1:CDS
ATATCAACACCACCATTGCT+TGG 0.469029 7:-26553928 None:intergenic
TACAGGAACAACTTCAACCC+TGG 0.480219 7:+26554036 MsaT036048.1:CDS
GTTGGAGGAGGATTATTAAG+AGG 0.490332 7:-26552992 None:intergenic
GATGTCTAGGCATTTAGAAA+AGG 0.494516 7:+26552961 MsaT036048.1:CDS
ATCAATATGGCCATCTCCTA+CGG 0.501169 7:+26552673 MsaT036048.1:CDS
TTTACTTTAGAAGATGGTGA+TGG 0.506036 7:+26553031 MsaT036048.1:CDS
ATGGTTGTTATTGAAACCAC+TGG 0.506528 7:-26553137 None:intergenic
TTACTTTAGAAGATGGTGAT+GGG 0.515841 7:+26553032 MsaT036048.1:CDS
GATATTGGTGCCAACGTTGG+AGG 0.517309 7:-26553007 None:intergenic
TGAGAATAATACTCAAAGAA+AGG 0.521008 7:+26552541 MsaT036048.1:CDS
ATACCACCACATACAAATCA+TGG 0.521732 7:+26553793 MsaT036048.1:CDS
GACAATCTTATGTGGAATTG+AGG 0.522788 7:+26552613 MsaT036048.1:CDS
GTATCTCCATGCTACTTCCA+TGG 0.531474 7:-26553156 None:intergenic
CCTCCACTAACAGATCTTAG+TGG 0.531606 7:+26553178 MsaT036048.1:CDS
ATTGGTGCCAACGTTGGAGG+AGG 0.533160 7:-26553004 None:intergenic
CTAACAGATCTTAGTGGTGG+TGG 0.538898 7:+26553184 MsaT036048.1:CDS
GTTATAAGAAAAGATTGAAA+GGG 0.540577 7:+26552567 MsaT036048.1:CDS
GCGGCAATATTAATGGAGAT+GGG 0.545616 7:+26553977 MsaT036048.1:CDS
AACAACTTTGATGGTGGCAT+GGG 0.547295 7:+26553250 MsaT036048.1:CDS
ATATTAATGGAGATGGGATG+CGG 0.549478 7:+26553983 MsaT036048.1:CDS
CGTTATAAGAAAAGATTGAA+AGG 0.551031 7:+26552566 MsaT036048.1:CDS
GAAGTTCACAGAAACTTTGG+AGG 0.552988 7:+26553856 MsaT036048.1:CDS
GTTGTTCACCAAAATGGAGC+AGG 0.556851 7:+26552589 MsaT036048.1:CDS
GATAACTTGGCTAATCAAGC+CGG 0.556921 7:+26553211 MsaT036048.1:CDS
TTTGATAACAACTTTGATGG+TGG 0.557716 7:+26553244 MsaT036048.1:CDS
TCTTCAGCCACCGTAGGAGA+TGG 0.560949 7:-26552683 None:intergenic
CCACCACTAAGATCTGTTAG+TGG 0.562274 7:-26553181 None:intergenic
TGGTGGTGGTTGTGATAACT+TGG 0.567708 7:+26553198 MsaT036048.1:CDS
ACATTACAGGTAGCAATACA+AGG 0.567975 7:+26553548 MsaT036048.1:CDS
AGATCACTAGAAAGATGTCT+AGG 0.570407 7:+26552948 MsaT036048.1:CDS
AATATGGCCATCTCCTACGG+TGG 0.571701 7:+26552676 MsaT036048.1:CDS
TTTCTCAACCAAATCTAACA+AGG 0.573944 7:-26553101 None:intergenic
TAATAATCCTCCTCCAACGT+TGG 0.577508 7:+26552997 MsaT036048.1:CDS
AAAGATATTGGTGCCAACGT+TGG 0.577514 7:-26553010 None:intergenic
GTAGGTGTGTTGCCTCCTCA+AGG 0.582180 7:+26553487 MsaT036048.1:CDS
TACTTTAGAAGATGGTGATG+GGG 0.582286 7:+26553033 MsaT036048.1:CDS
CCAACACCATGATTTGTATG+TGG 0.583138 7:-26553799 None:intergenic
GAGCAGGTGACAATCTTATG+TGG 0.583955 7:+26552605 MsaT036048.1:CDS
TAACAACTTTGATGGTGGCA+TGG 0.586911 7:+26553249 MsaT036048.1:CDS
TGGTGATGGGGTACATTCTG+GGG 0.588241 7:+26553045 MsaT036048.1:CDS
TAACAACCATGGAAGTAGCA+TGG 0.590557 7:+26553150 MsaT036048.1:CDS
TTTCTTCCTCATGGAAATCG+GGG 0.592139 7:+26553400 MsaT036048.1:CDS
TTTATTCTGAAGGAAATCCA+GGG 0.595152 7:-26554053 None:intergenic
TTCTCAACCAAATCTAACAA+GGG 0.610146 7:-26553100 None:intergenic
CATGAAAATCCAAGCAATGG+TGG 0.610991 7:+26553919 MsaT036048.1:CDS
CCACATGAAAATCCAAGCAA+TGG 0.614633 7:+26553916 MsaT036048.1:CDS
TCACCTGAAAATTCTAGTGG+TGG 0.615267 7:+26553280 MsaT036048.1:CDS
CCACATACAAATCATGGTGT+TGG 0.616507 7:+26553799 MsaT036048.1:CDS
ATTAGGTCTTCAGCCACCGT+AGG 0.620414 7:-26552689 None:intergenic
CCATCACCTGAAAATTCTAG+TGG 0.626301 7:+26553277 MsaT036048.1:CDS
GAAAATCCTAGTGGTGGTGT+AGG 0.627650 7:+26553469 MsaT036048.1:CDS
TCATCACATGAAAATCATAG+TGG 0.635133 7:+26553361 MsaT036048.1:CDS
ATGCATCAAATTGAAAACGA+AGG 0.641960 7:+26552857 MsaT036048.1:CDS
TTCTTCCTCATGGAAATCGG+GGG 0.646773 7:+26553401 MsaT036048.1:CDS
AAAGTTGATCAAATGACCAG+TGG 0.646800 7:+26553121 MsaT036048.1:CDS
AGTGGTTTCAATAACAACCA+TGG 0.647385 7:+26553139 MsaT036048.1:CDS
TTCTCATTCAGATTTGCATG+TGG 0.650408 7:-26553577 None:intergenic
AACACACCTACACCACCACT+AGG 0.650603 7:-26553475 None:intergenic
CCTCCAAAATATCCTTGAGG+AGG 0.656666 7:-26553499 None:intergenic
ATGATACATGTAGCAACATG+TGG 0.657144 7:+26553887 MsaT036048.1:CDS
ATGTGGAATTGAGGCATGTG+CGG 0.658684 7:+26552622 MsaT036048.1:CDS
TGACCTCCAAAATATCCTTG+AGG 0.660910 7:-26553502 None:intergenic
CCACTAAGATCTGTTAGTGG+AGG 0.673960 7:-26553178 None:intergenic
TCACATGAAAATCCTAGTGG+TGG 0.674534 7:+26553463 MsaT036048.1:CDS
ACAACATAGATAGCAGCATG+TGG 0.675578 7:+26553662 MsaT036048.1:CDS
CAATCACATGAAAATCCTAG+TGG 0.684612 7:+26553460 MsaT036048.1:CDS
CCACTAACAGATCTTAGTGG+TGG 0.700550 7:+26553181 MsaT036048.1:CDS
ACACCATGATTTGTATGTGG+TGG 0.720749 7:-26553796 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 26552500 26554074 26552500 ID=MsaG036048
Chr7 mRNA 26552500 26554074 26552500 ID=MsaT036048.1;Parent=MsaG036048
Chr7 exon 26552500 26554074 26552500 ID=MsaT036048.1.exon1;Parent=MsaT036048.1
Chr7 CDS 26552500 26554074 26552500 ID=cds.MsaT036048.1;Parent=MsaT036048.1
Gene Sequence

>MsaT036048.1

ATGACTAGAATCAAAAAAAAGAAGATCACATCCAAATTGATTGAGAATAATACTCAAAGAAAGGCGCGTTATAAGAAAAGATTGAAAGGGTTGTTCACCAAAATGGAGCAGGTGACAATCTTATGTGGAATTGAGGCATGTGCGGTTGTGTTTGGGCCAGGTGATACAAAACCATCAATATGGCCATCTCCTACGGTGGCTGAAGACCTAATAACCAAGTATGAGTCAATGTCATTGGATGTACAATCGAAAAATAAGACTGACCAATTGACTTTTTTGAAGGATAAGGGCAAAAAACTTGAAGCAAGCCTTGCAAAGATCGAAAAAGAAAATGAAGAGACTTTAATGGGAGCTTATATGCATCAAATTGAAAACGAAGGTAAGTCTTTAGATGATTTTGATCATGATGTGCTGAATCGTTTGATTGCTTTTACACTTGAAAAAATTAAGATCACTAGAAAGATGTCTAGGCATTTAGAAAAGGAGATCTTGCCTCTTAATAATCCTCCTCCAACGTTGGCACCAATATCTTTTACTTTAGAAGATGGTGATGGGGTACATTCTGGGGTTAACATGTATGGACATGTTTTGAACCAACAACCCTTGTTAGATTTGGTTGAGAAAGTTGATCAAATGACCAGTGGTTTCAATAACAACCATGGAAGTAGCATGGAGATACCTCCACTAACAGATCTTAGTGGTGGTGGTTGTGATAACTTGGCTAATCAAGCCGGTTTTGGCAATTTTGATAACAACTTTGATGGTGGCATGGGAATACCATCACCTGAAAATTCTAGTGGTGGTTTTTATGCAGCGTTTTTTCAAGATAATTTGCAAGATTTTGATAGTATCATGGAGATATCATCACATGAAAATCATAGTGGTAGTGTTCATGATATATTTCTTCCTCATGGAAATCGGGGGCATTTTATTAACAATATAGGTAGCAATATTGGGATACAATCACATGAAAATCCTAGTGGTGGTGTAGGTGTGTTGCCTCCTCAAGGATATTTTGGAGGTCAAAGCAACTTTCAAGGTTTTGATGACATTACAGGTAGCAATACAAGGATACTACCACATGCAAATCTGAATGAGAATGTTGATTTGTTGCCTCCTCAAGAAAATTTTGATGATCAAGAAAACTTTGGAGGTTTTGATGACAACATAGATAGCAGCATGTGGATACAACATGCAAATTTTAGTAGTGGTGATACATTGCTTCCTCAAGAAAATTTTGGAGACCAATTTAACTTTGAAGATTTTGATAACAACACTGGTAGCAACATGTTGATACCACCACATACAAATCATGGTGTTGGTAATGTTGATGTTTTGTCTCATCAAAGAAATTTTGAAGTTCACAGAAACTTTGGAGGTTTTGATGATGATACATGTAGCAACATGTGGAAACCTCCACATGAAAATCCAAGCAATGGTGGTGTTGATATGATGACTTTTCATCAAAACAACTTTAGCGGCAATATTAATGGAGATGGGATGCGGAGTTTTAATGCGAACTTTGTTGACAATAATTACAGGAACAACTTCAACCCTGGATTTCCTTCAGAATAA
Protein sequence

>MsaT036048.1

MTRIKKKKITSKLIENNTQRKARYKKRLKGLFTKMEQVTILCGIEACAVVFGPGDTKPSIWPSPTVAEDLITKYESMSLDVQSKNKTDQLTFLKDKGKKLEASLAKIEKENEETLMGAYMHQIENEGKSLDDFDHDVLNRLIAFTLEKIKITRKMSRHLEKEILPLNNPPPTLAPISFTLEDGDGVHSGVNMYGHVLNQQPLLDLVEKVDQMTSGFNNNHGSSMEIPPLTDLSGGGCDNLANQAGFGNFDNNFDGGMGIPSPENSSGGFYAAFFQDNLQDFDSIMEISSHENHSGSVHDIFLPHGNRGHFINNIGSNIGIQSHENPSGGVGVLPPQGYFGGQSNFQGFDDITGSNTRILPHANLNENVDLLPPQENFDDQENFGGFDDNIDSSMWIQHANFSSGDTLLPQENFGDQFNFEDFDNNTGSNMLIPPHTNHGVGNVDVLSHQRNFEVHRNFGGFDDDTCSNMWKPPHENPSNGGVDMMTFHQNNFSGNINGDGMRSFNANFVDNNYRNNFNPGFPSE*