AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040227

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040227 MtrunA17_Chr4g0008701 80.680 559 61 3 1 552 1 519 0.0 831
MsaG040227 MtrunA17_Chr7g0267601 79.606 559 51 5 1 552 1 503 0.0 818
MsaG040227 MtrunA17_Chr3g0128721 47.160 581 267 12 1 552 1 570 8.45e-149 439
MsaG040227 MtrunA17_Chr8g0361741 50.896 279 129 2 13 287 13 287 1.15e-67 220
MsaG040227 MtrunA17_Chr3g0107381 32.727 165 107 2 1 164 1 162 1.49e-23 99.4
MsaG040227 MtrunA17_Chr5g0432691 33.974 156 101 2 7 161 4 158 8.68e-23 95.1
MsaG040227 MtrunA17_Chr4g0014321 36.066 122 78 0 6 127 3 124 2.21e-21 93.2
MsaG040227 MtrunA17_Chr8g0351751 38.168 131 79 1 4 132 1 131 2.40e-21 93.6
MsaG040227 MtrunA17_Chr4g0013041 30.769 195 123 4 7 196 4 191 5.59e-21 91.3
MsaG040227 MtrunA17_Chr3g0107331 33.333 150 99 1 6 154 2 151 2.87e-20 87.8
MsaG040227 MtrunA17_Chr3g0107361 32.026 153 103 1 6 157 2 154 5.34e-20 87.0
MsaG040227 MtrunA17_Chr4g0014031 38.415 164 88 3 1 160 1 155 7.87e-20 88.6
MsaG040227 MtrunA17_Chr2g0283941 30.345 145 100 1 7 150 4 148 3.66e-19 87.0
MsaG040227 MtrunA17_Chr3g0107351 30.719 153 105 1 6 157 2 154 4.58e-19 84.7
MsaG040227 MtrunA17_Chr3g0107341 30.065 153 106 1 6 157 2 154 5.88e-18 81.3
MsaG040227 MtrunA17_Chr3g0110131 38.462 117 72 0 6 122 3 119 9.18e-18 83.2
MsaG040227 MtrunA17_Chr1g0197321 32.174 115 77 1 6 120 3 116 1.07e-17 80.5
MsaG040227 MtrunA17_Chr4g0014131 33.333 159 79 4 38 175 35 187 2.17e-17 81.6
MsaG040227 MtrunA17_Chr5g0420351 34.167 120 75 2 1 120 1 116 1.50e-16 77.0
MsaG040227 MtrunA17_Chr4g0014121 41.053 95 56 0 38 132 63 157 1.86e-16 77.8
MsaG040227 MtrunA17_Chr2g0296831 36.800 125 76 1 1 125 1 122 2.19e-16 75.5
MsaG040227 MtrunA17_Chr1g0197261 33.333 117 73 2 1 115 1 114 5.92e-15 72.8
MsaG040227 MtrunA17_Chr1g0197461 25.517 145 107 1 6 150 2 145 6.10e-15 72.4
MsaG040227 MtrunA17_Chr1g0188681 30.328 122 83 2 6 126 3 123 1.17e-14 71.6
MsaG040227 MtrunA17_Chr4g0012761 34.694 147 92 2 6 149 3 148 6.35e-14 69.7
MsaG040227 MtrunA17_Chr1g0188651 32.800 125 79 2 6 126 3 126 2.06e-13 68.2
MsaG040227 MtrunA17_Chr1g0193311 37.097 124 70 3 1 120 1 120 2.52e-13 67.8
MsaG040227 MtrunA17_Chr7g0218151 32.237 152 96 3 1 149 1 148 4.35e-13 67.4
MsaG040227 MtrunA17_Chr1g0188661 31.579 152 97 3 1 149 1 148 4.48e-13 67.4
MsaG040227 MtrunA17_Chr3g0107461 25.000 156 113 2 6 157 3 158 1.35e-12 65.9
MsaG040227 MtrunA17_Chr4g0031421 30.709 127 80 3 34 155 3 126 2.45e-12 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040227 AT1G65300.1 28.814 236 154 4 6 232 2 232 4.73e-21 94.0
MsaG040227 AT2G40210.1 28.743 167 116 2 4 170 1 164 3.12e-19 90.1
MsaG040227 AT3G05860.1 32.117 137 89 2 1 136 1 134 3.15e-17 82.4
MsaG040227 AT3G05860.3 32.117 137 89 2 1 136 1 134 3.31e-17 82.0
MsaG040227 AT3G05860.2 32.117 137 89 2 1 136 1 134 8.16e-17 79.7
MsaG040227 AT5G26650.1 32.456 114 77 0 7 120 2 115 1.32e-16 82.0
MsaG040227 AT1G31630.1 33.043 115 76 1 6 120 2 115 2.33e-16 80.9
MsaG040227 AT5G27960.1 30.370 135 86 1 7 133 2 136 3.37e-16 80.1
MsaG040227 AT1G31640.1 31.304 115 78 1 6 120 2 115 2.49e-15 79.0
MsaG040227 AT5G06500.1 29.861 144 100 1 6 149 3 145 4.91e-15 75.5
MsaG040227 AT2G28700.1 31.624 117 80 0 4 120 1 117 5.14e-15 77.0
MsaG040227 AT1G65330.1 32.743 113 76 0 8 120 4 116 1.11e-14 75.1
MsaG040227 AT5G48670.1 35.043 117 76 0 6 122 3 119 1.88e-14 75.1
MsaG040227 AT5G26630.1 33.708 178 109 5 1 177 1 170 2.28e-14 72.8
MsaG040227 AT2G15660.1 29.487 156 103 5 40 194 30 179 3.40e-14 73.2
MsaG040227 AT1G22590.2 26.606 109 77 1 6 114 3 108 3.87e-13 68.2
MsaG040227 AT5G27810.1 31.034 87 60 0 34 120 3 89 5.88e-11 60.5

Find 118 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGCTAATCAAGCTAATTT+TGG 0.158650 7:+98102288 MsaT040227.1:CDS
TTGCTTCCTCAAGAAAATTT+TGG 0.166377 7:+98102777 MsaT040227.1:CDS
AACTTTGGTGGCAATATTAA+TGG 0.198018 7:+98103125 MsaT040227.1:CDS
TTGCCTCCTCAAGGATATTT+TGG 0.199048 7:+98102555 MsaT040227.1:CDS
TTGACTCAAACTTGGTTATT+AGG 0.210241 7:-98101777 None:intergenic
CAAAATCTTCAAAGTTAAAT+TGG 0.211371 7:-98102803 None:intergenic
TTGTCTCATCAAGGAAATTT+TGG 0.233564 7:+98102894 MsaT040227.1:CDS
GATTGTCACATGCTCCATTT+TGG 0.244676 7:-98101668 None:intergenic
CCAACAACCCTTGTCAGATT+TGG 0.245325 7:+98102164 MsaT040227.1:CDS
AACGGTGATGGGGTGCATAA+TGG 0.258877 7:+98102114 MsaT040227.1:CDS
GTTTCTTCCTCGAGGAAATC+TGG 0.271699 7:+98102458 MsaT040227.1:CDS
GAAAGGGTTGTTCACCAAAA+TGG 0.296295 7:+98101654 MsaT040227.1:CDS
AGAAAATGAAGAGACTTTAA+TGG 0.308700 7:+98101897 MsaT040227.1:CDS
ACGGTGATGGGGTGCATAAT+GGG 0.323141 7:+98102115 MsaT040227.1:CDS
AACTTTGTTGACAATAATTA+CGG 0.325383 7:+98103173 MsaT040227.1:CDS
GAAGTTCAAGAAAACTTTAG+AGG 0.330050 7:+98103011 MsaT040227.1:CDS
GAGGCATGTGCGGTTGTGTT+TGG 0.339289 7:+98101703 MsaT040227.1:CDS
CAACAACCCTTGTCAGATTT+GGG 0.353572 7:+98102165 MsaT040227.1:CDS
CAAGTTTGAGTCAATGTCAT+TGG 0.377334 7:+98101786 MsaT040227.1:CDS
AGGCATGTGCGGTTGTGTTT+GGG 0.389221 7:+98101704 MsaT040227.1:CDS
TTTGAAGGTCAAGTAAACTT+TGG 0.391480 7:+98102687 MsaT040227.1:CDS
GTGATACAAAACCATCAATA+TGG 0.392745 7:+98101731 MsaT040227.1:CDS
GCAGGAGATGGCCATATTGA+TGG 0.394229 7:-98101742 None:intergenic
AAACCACCACTAGAATATTC+AGG 0.410956 7:-98102342 None:intergenic
GAAAATGAAGAGACTTTAAT+GGG 0.430958 7:+98101898 MsaT040227.1:CDS
AACAATATGGGTAGCAACAT+TGG 0.431457 7:+98102492 MsaT040227.1:CDS
GATGTCTAGGCATTTAGAAA+AGG 0.433553 7:+98102032 MsaT040227.1:CDS
ATGTCTAGGCATTTAGAAAA+GGG 0.436802 7:+98102033 MsaT040227.1:CDS
CCTCCACTTGCAGATCTTAG+TGG 0.439117 7:+98102249 MsaT040227.1:CDS
TGTGCGGTTGTGTTTGGGCC+AGG 0.446264 7:+98101709 MsaT040227.1:CDS
CATAATGGGGTTAACATGTA+TGG 0.446371 7:+98102129 MsaT040227.1:CDS
CAATGACATTGACTCAAACT+TGG 0.455302 7:-98101785 None:intergenic
CCAAATCTGACAAGGGTTGT+TGG 0.456247 7:-98102164 None:intergenic
TTTCTTCCTCGAGGAAATCT+GGG 0.457179 7:+98102459 MsaT040227.1:CDS
TTTCATCAAAACAACTTTGG+TGG 0.457377 7:+98103113 MsaT040227.1:CDS
TTACTTTACACAACGGTGAT+GGG 0.461878 7:+98102103 MsaT040227.1:CDS
GGAGGTCAAAGCAACTTTCA+AGG 0.462180 7:+98102576 MsaT040227.1:CDS
TTGTGTAAAGTAAAAGATAT+TGG 0.463560 7:-98102093 None:intergenic
ATACCACCACATACAAATCT+TGG 0.466401 7:+98102852 MsaT040227.1:CDS
ACTTTGTTGACAATAATTAC+GGG 0.467038 7:+98103174 MsaT040227.1:CDS
ATATCAACACCACCATTGCT+TGG 0.469029 7:-98103083 None:intergenic
TACCACATGCAAATCTGAAT+GGG 0.471278 7:+98102634 MsaT040227.1:CDS
TTTACTTTACACAACGGTGA+TGG 0.473941 7:+98102102 MsaT040227.1:CDS
ACAATATGGGTAGCAACATT+GGG 0.477464 7:+98102493 MsaT040227.1:CDS
CTACCACATGCAAATCTGAA+TGG 0.479159 7:+98102633 MsaT040227.1:CDS
TACGGGAGCAACTTCAACCC+TGG 0.503874 7:+98103191 MsaT040227.1:CDS
GATATTGGTGCCAACGGTGG+AGG 0.504265 7:-98102078 None:intergenic
CTTGCAGATCTTAGTGGTGG+TGG 0.505108 7:+98102255 MsaT040227.1:CDS
GGTGGCAATATTAATGGAGA+TGG 0.512485 7:+98103131 MsaT040227.1:CDS
ATTAGGTCTTCAGCCACTGC+AGG 0.513329 7:-98101760 None:intergenic
AACAACCTTGGAAGTAGCAT+GGG 0.513933 7:+98102222 MsaT040227.1:CDS
ATTGGTGCCAACGGTGGAGG+AGG 0.517191 7:-98102075 None:intergenic
ATACCACCTCATACAAATCC+TGG 0.520709 7:+98102948 MsaT040227.1:CDS
TGAGAATAAAACTCGAAGAA+AGG 0.533789 7:+98101612 MsaT040227.1:CDS
GACATTACAGGTAGCAACAC+AGG 0.536241 7:+98102606 MsaT040227.1:CDS
GGTGGAGGAGGATTATTAAG+AGG 0.544411 7:-98102063 None:intergenic
CCAACACCAGGATTTGTATG+AGG 0.556800 7:-98102954 None:intergenic
TCTTCAGCCACTGCAGGAGA+TGG 0.560210 7:-98101754 None:intergenic
TGCTATAAGAGAAGATTGAA+AGG 0.560605 7:+98101637 MsaT040227.1:CDS
TTTGATGACAACACAGGTAG+CGG 0.563188 7:+98102714 MsaT040227.1:CDS
TGGTGGTGGTTGTGATAACT+TGG 0.567708 7:+98102269 MsaT040227.1:CDS
ATATTAATGGAGATGGAATG+TGG 0.570191 7:+98103138 MsaT040227.1:CDS
AGATCACTAGAAAGATGTCT+AGG 0.570407 7:+98102019 MsaT040227.1:CDS
TAACAACCTTGGAAGTAGCA+TGG 0.574908 7:+98102221 MsaT040227.1:CDS
TACTTTACACAACGGTGATG+GGG 0.579959 7:+98102104 MsaT040227.1:CDS
GTAGGTGTGTTGCCTCCTCA+AGG 0.582180 7:+98102546 MsaT040227.1:CDS
TAATAATCCTCCTCCACCGT+TGG 0.582273 7:+98102068 MsaT040227.1:CDS
AGTGGTTTCAATAACAACCT+TGG 0.589310 7:+98102210 MsaT040227.1:CDS
GTATCCCCATGCTACTTCCA+AGG 0.589387 7:-98102227 None:intergenic
CCACTAGAATATTCAGGTGA+TGG 0.589851 7:-98102336 None:intergenic
CGGTGATGGGGTGCATAATG+GGG 0.590425 7:+98102116 MsaT040227.1:CDS
CATGATATGTTTCTTCCTCG+AGG 0.591879 7:+98102450 MsaT040227.1:CDS
GTAAAAGATATTGGTGCCAA+CGG 0.592046 7:-98102084 None:intergenic
ACAACACAGGTAGCGGCATG+TGG 0.592125 7:+98102721 MsaT040227.1:CDS
GACAATCTTATGTGGTATTG+AGG 0.594613 7:+98101684 MsaT040227.1:CDS
GCTATAAGAGAAGATTGAAA+GGG 0.594807 7:+98101638 MsaT040227.1:CDS
TTTATTCAGAAGGAAATCCA+GGG 0.595152 7:-98103208 None:intergenic
TTTCTCGCCCAAATCTGACA+AGG 0.596335 7:-98102172 None:intergenic
CCACATACAAATCTTGGTGT+TGG 0.598589 7:+98102858 MsaT040227.1:CDS
ATAATATATGTAGCAACATG+TGG 0.610672 7:+98103042 MsaT040227.1:CDS
CATGAAAATCCAAGCAATGG+TGG 0.610991 7:+98103074 MsaT040227.1:CDS
TTCTCGCCCAAATCTGACAA+GGG 0.612284 7:-98102171 None:intergenic
CCACATGAAAATCCAAGCAA+TGG 0.614633 7:+98103071 MsaT040227.1:CDS
TCACCTGAATATTCTAGTGG+TGG 0.615267 7:+98102339 MsaT040227.1:CDS
AAAGATATTGGTGCCAACGG+TGG 0.617732 7:-98102081 None:intergenic
CCTCATACAAATCCTGGTGT+TGG 0.617961 7:+98102954 MsaT040227.1:CDS
AAAGTTGATCAAATGAGCAG+TGG 0.618596 7:+98102192 MsaT040227.1:CDS
CCATCACATGAAAATCATAG+TGG 0.621754 7:+98102420 MsaT040227.1:CDS
TGTCTAGGCATTTAGAAAAG+GGG 0.623976 7:+98102034 MsaT040227.1:CDS
GAAAATCCTAGTGGTGGTGT+AGG 0.627650 7:+98102528 MsaT040227.1:CDS
CCATCACCTGAATATTCTAG+TGG 0.635359 7:+98102336 MsaT040227.1:CDS
GTTGATGTGTTGTCTCATCA+AGG 0.635762 7:+98102885 MsaT040227.1:CDS
GTTGATGTGTTGTCTCATCA+AGG 0.635762 7:+98102981 MsaT040227.1:CDS
CCACTTGCAGATCTTAGTGG+TGG 0.641334 7:+98102252 MsaT040227.1:CDS
ATGCATCAAATTGAAAACGA+AGG 0.641960 7:+98101928 MsaT040227.1:CDS
TTTGGAGTTGATAACAACAC+AGG 0.642445 7:+98102912 MsaT040227.1:CDS
CCACATTCAAATTCGAGTGG+TGG 0.643895 7:+98102747 MsaT040227.1:CDS
TTCTTCCTCGAGGAAATCTG+GGG 0.645397 7:+98102460 MsaT040227.1:CDS
ACACCAAGATTTGTATGTGG+TGG 0.650459 7:-98102855 None:intergenic
AACACACCTACACCACCACT+AGG 0.650603 7:-98102534 None:intergenic
ACATCAACATCACCAACACC+AGG 0.652418 7:-98102966 None:intergenic
AATATGGCCATCTCCTGCAG+TGG 0.655817 7:+98101747 MsaT040227.1:CDS
CCTCCAAAATATCCTTGAGG+AGG 0.656666 7:-98102558 None:intergenic
CCAACACCAAGATTTGTATG+TGG 0.658592 7:-98102858 None:intergenic
ATGTGGTATTGAGGCATGTG+CGG 0.658684 7:+98101693 MsaT040227.1:CDS
TGACCTCCAAAATATCCTTG+AGG 0.660910 7:-98102561 None:intergenic
TTCCCATTCAGATTTGCATG+TGG 0.661550 7:-98102636 None:intergenic
CCACCACTCGAATTTGAATG+TGG 0.662521 7:-98102747 None:intergenic
GAGCATGTGACAATCTTATG+TGG 0.668241 7:+98101676 MsaT040227.1:CDS
ACACCAGGATTTGTATGAGG+TGG 0.668736 7:-98102951 None:intergenic
ACATTACAGGTAGCAACACA+GGG 0.671623 7:+98102607 MsaT040227.1:CDS
TCACATGAAAATCCTAGTGG+TGG 0.674534 7:+98102522 MsaT040227.1:CDS
CCACTAAGATCTGCAAGTGG+AGG 0.680631 7:-98102249 None:intergenic
CAATCACATGAAAATCCTAG+TGG 0.684612 7:+98102519 MsaT040227.1:CDS
CCACCACTAAGATCTGCAAG+TGG 0.694900 7:-98102252 None:intergenic
ACAACCTTGGAAGTAGCATG+GGG 0.697964 7:+98102223 MsaT040227.1:CDS
ATACCACATTCAAATTCGAG+TGG 0.714863 7:+98102744 MsaT040227.1:CDS
AAATGCCCCAGATTTCCTCG+AGG 0.761109 7:-98102465 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 98101571 98103229 98101571 ID=MsaG040227
Chr7 mRNA 98101571 98103229 98101571 ID=MsaT040227.1;Parent=MsaG040227
Chr7 exon 98101571 98103229 98101571 ID=MsaT040227.1.exon1;Parent=MsaT040227.1
Chr7 CDS 98101571 98103229 98101571 ID=cds.MsaT040227.1;Parent=MsaT040227.1
Gene Sequence

>MsaT040227.1

ATGACTAGAATCAGAAAAAAGAAGATCACATCCAAATTGATTGAGAATAAAACTCGAAGAAAGGCGTGCTATAAGAGAAGATTGAAAGGGTTGTTCACCAAAATGGAGCATGTGACAATCTTATGTGGTATTGAGGCATGTGCGGTTGTGTTTGGGCCAGGTGATACAAAACCATCAATATGGCCATCTCCTGCAGTGGCTGAAGACCTAATAACCAAGTTTGAGTCAATGTCATTGGATGTGCAATCGAAAAATAAGACTGACCAATTGACTTTTTTGGAGGATAAGGGCAAAAAACTTGAAGCAAGCCTTAAAAAGATCAACAAAGAAAATGAAGAGACTTTAATGGGAGCTTATATGCATCAAATTGAAAACGAAGGTAAGTCTTTAGATGATTTTGATCATGATGTTCTGAATCGCTTGATTGCTTTTACTCTTGAAAAAATTAAGATCACTAGAAAGATGTCTAGGCATTTAGAAAAGGGGATCTTGCCTCTTAATAATCCTCCTCCACCGTTGGCACCAATATCTTTTACTTTACACAACGGTGATGGGGTGCATAATGGGGTTAACATGTATGGACATTTTTTGAACCAACAACCCTTGTCAGATTTGGGCGAGAAAGTTGATCAAATGAGCAGTGGTTTCAATAACAACCTTGGAAGTAGCATGGGGATACCTCCACTTGCAGATCTTAGTGGTGGTGGTTGTGATAACTTGGCTAATCAAGCTAATTTTGGTGGTTTTGATAATAGAATGGGGATACCATCACCTGAATATTCTAGTGGTGGTTTTGATACAGCGTTTTTTCAAGACAATTTGGAAAATTTTGATAGTATCATGGAGATACCATCACATGAAAATCATAGTGGTAGTGTTCATGATATGTTTCTTCCTCGAGGAAATCTGGGGCATTTTATTAACAATATGGGTAGCAACATTGGGATACAATCACATGAAAATCCTAGTGGTGGTGTAGGTGTGTTGCCTCCTCAAGGATATTTTGGAGGTCAAAGCAACTTTCAAGGTTTTGATGACATTACAGGTAGCAACACAGGGATACTACCACATGCAAATCTGAATGGGAATGTTGATTCGTTGCCTCCTCAAGAAAATTTTGAAGGTCAAGTAAACTTTGGATGTTTTGATGACAACACAGGTAGCGGCATGTGGATACCACATTCAAATTCGAGTGGTGGTGATACATTGCTTCCTCAAGAAAATTTTGGAGGCCAATTTAACTTTGAAGATTTTGATATCAACACAGGTAGCAACATGTTGATACCACCACATACAAATCTTGGTGTTGGTGATGTTGATGTGTTGTCTCATCAAGGAAATTTTGGAGTTGATAACAACACAGGTAGCAGCATGTTGATACCACCTCATACAAATCCTGGTGTTGGTGATGTTGATGTGTTGTCTCATCAAGGAAATTTTGAAGTTCAAGAAAACTTTAGAGGTTTTGATGATAATATATGTAGCAACATGTGGAAACCTCCACATGAAAATCCAAGCAATGGTGGTGTTGATATGATGACTTTTCATCAAAACAACTTTGGTGGCAATATTAATGGAGATGGAATGTGGAGTTTCAATGCAAACTTTGTTGACAATAATTACGGGAGCAACTTCAACCCTGGATTTCCTTCTGAATAA
Protein sequence

>MsaT040227.1

MTRIRKKKITSKLIENKTRRKACYKRRLKGLFTKMEHVTILCGIEACAVVFGPGDTKPSIWPSPAVAEDLITKFESMSLDVQSKNKTDQLTFLEDKGKKLEASLKKINKENEETLMGAYMHQIENEGKSLDDFDHDVLNRLIAFTLEKIKITRKMSRHLEKGILPLNNPPPPLAPISFTLHNGDGVHNGVNMYGHFLNQQPLSDLGEKVDQMSSGFNNNLGSSMGIPPLADLSGGGCDNLANQANFGGFDNRMGIPSPEYSSGGFDTAFFQDNLENFDSIMEIPSHENHSGSVHDMFLPRGNLGHFINNMGSNIGIQSHENPSGGVGVLPPQGYFGGQSNFQGFDDITGSNTGILPHANLNGNVDSLPPQENFEGQVNFGCFDDNTGSGMWIPHSNSSGGDTLLPQENFGGQFNFEDFDINTGSNMLIPPHTNLGVGDVDVLSHQGNFGVDNNTGSSMLIPPHTNPGVGDVDVLSHQGNFEVQENFRGFDDNICSNMWKPPHENPSNGGVDMMTFHQNNFGGNINGDGMWSFNANFVDNNYGSNFNPGFPSE*