AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014643

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014643 MtrunA17_Chr1g0202341 69.697 165 50 0 144 308 521 685 2.60e-72 239
MsaG014643 MtrunA17_Chr1g0202341 66.429 140 47 0 4 143 12 151 1.33e-57 199
MsaG014643 MtrunA17_Chr3g0077241 76.087 92 18 2 6 96 1 89 5.39e-41 141
MsaG014643 MtrunA17_Chr4g0052331 53.684 95 44 0 1 95 1 95 2.94e-29 109
MsaG014643 MtrunA17_Chr5g0448761 35.359 181 94 4 121 295 524 687 1.65e-24 105
MsaG014643 MtrunA17_Chr5g0448761 34.254 181 91 5 36 213 53 208 1.61e-16 81.6
MsaG014643 MtrunA17_Chr5g0448511 34.615 156 95 2 143 295 308 459 1.90e-24 105
MsaG014643 MtrunA17_Chr2g0329361 34.932 146 83 3 5 143 22 162 7.28e-22 94.0
MsaG014643 MtrunA17_Chr5g0440451 32.680 153 100 1 143 295 515 664 4.10e-20 92.8
MsaG014643 MtrunA17_Chr3g0118611 28.261 230 143 5 143 353 412 638 1.33e-19 90.9
MsaG014643 MtrunA17_Chr1g0198761 29.648 199 124 3 191 388 571 754 5.85e-19 89.0
MsaG014643 MtrunA17_Chr2g0329421 36.893 103 61 2 42 143 26 125 1.58e-18 83.6
MsaG014643 MtrunA17_Chr4g0033611 34.862 109 67 2 36 143 69 174 1.63e-17 81.6
MsaG014643 MtrunA17_Chr2g0287061 31.008 129 67 3 17 144 9 116 1.28e-15 79.0
MsaG014643 MtrunA17_Chr2g0287061 35.238 105 52 2 41 144 181 270 1.59e-13 72.4
MsaG014643 MtrunA17_Chr2g0287061 35.593 118 62 2 180 292 649 757 1.52e-11 66.2
MsaG014643 MtrunA17_Chr3g0078041 37.037 108 64 3 42 147 49 154 1.68e-15 75.5
MsaG014643 MtrunA17_Chr7g0233911 37.143 105 60 3 42 143 33 134 1.90e-15 74.7
MsaG014643 MtrunA17_Chr3g0080351 33.562 146 86 3 145 288 537 673 4.91e-15 77.0
MsaG014643 MtrunA17_Chr3g0080351 30.328 122 72 3 41 150 74 194 4.95e-11 64.7
MsaG014643 MtrunA17_Chr2g0329031 29.851 134 87 3 163 296 493 619 4.98e-13 70.9
MsaG014643 MtrunA17_Chr1g0207551 32.090 134 85 1 156 289 513 640 1.66e-12 69.3
MsaG014643 MtrunA17_Chr6g0458391 35.455 110 68 2 43 151 225 332 1.73e-12 68.9
MsaG014643 MtrunA17_Chr6g0458391 32.520 123 79 2 23 144 71 190 6.67e-11 64.3
MsaG014643 MtrunA17_Chr1g0203721 31.579 114 71 4 46 155 66 176 1.07e-11 66.6
MsaG014643 MtrunA17_Chr2g0287651 36.000 100 61 2 47 144 79 177 1.93e-11 65.9
MsaG014643 MtrunA17_Chr2g0294841 25.000 188 121 5 191 367 567 745 2.54e-11 65.5
MsaG014643 MtrunA17_Chr6g0451441 34.711 121 68 4 25 144 72 182 4.34e-11 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014643 AT3G59470.3 38.889 108 62 2 42 148 69 173 5.61e-20 89.0
MsaG014643 AT3G59470.1 38.889 108 62 2 42 148 69 173 5.61e-20 89.0
MsaG014643 AT3G59470.2 38.889 108 62 2 42 148 81 185 8.12e-20 88.6
MsaG014643 AT2G27110.2 30.723 166 111 1 127 292 474 635 2.07e-18 87.8
MsaG014643 AT2G27110.1 30.723 166 111 1 127 292 474 635 2.07e-18 87.8
MsaG014643 AT2G27110.3 30.723 166 111 1 127 292 329 490 2.84e-18 87.4
MsaG014643 AT4G38170.1 32.530 166 103 4 164 327 331 489 7.17e-18 85.9
MsaG014643 AT4G38180.1 31.718 227 113 8 2 213 21 220 1.44e-17 85.1
MsaG014643 AT4G38180.1 33.557 149 92 3 143 288 545 689 1.60e-17 85.1
MsaG014643 AT3G06250.2 35.238 105 52 2 41 144 26 115 8.04e-16 79.7
MsaG014643 AT3G06250.2 29.560 159 90 3 143 292 615 760 6.66e-14 73.9
MsaG014643 AT3G06250.2 33.654 104 53 2 42 144 189 277 9.87e-14 73.6
MsaG014643 AT3G06250.1 35.238 105 52 2 41 144 26 115 8.04e-16 79.7
MsaG014643 AT3G06250.1 29.560 159 90 3 143 292 615 760 6.66e-14 73.9
MsaG014643 AT3G06250.1 33.654 104 53 2 42 144 189 277 9.87e-14 73.6
MsaG014643 AT3G06250.3 35.238 105 52 2 41 144 26 115 8.04e-16 79.7
MsaG014643 AT3G06250.3 29.560 159 90 3 143 292 615 760 6.66e-14 73.9
MsaG014643 AT3G06250.3 33.654 104 53 2 42 144 189 277 9.87e-14 73.6
MsaG014643 AT3G22170.2 33.333 126 76 2 164 289 551 668 9.37e-16 79.7
MsaG014643 AT3G22170.1 33.333 126 76 2 164 289 551 668 9.37e-16 79.7
MsaG014643 AT3G07500.1 38.462 104 61 2 41 143 31 132 1.08e-15 75.9
MsaG014643 AT4G12850.2 34.545 110 65 3 42 149 10 114 3.45e-15 72.4
MsaG014643 AT4G12850.1 34.513 113 67 3 42 152 10 117 3.59e-15 73.6
MsaG014643 AT4G12850.4 34.951 103 61 2 42 143 10 107 9.33e-15 71.2
MsaG014643 AT4G15090.1 31.008 129 82 2 161 289 539 660 2.34e-14 75.5
MsaG014643 AT4G15090.5 31.008 129 82 2 161 289 539 660 2.34e-14 75.5
MsaG014643 AT4G15090.3 31.008 129 82 2 161 289 539 660 2.34e-14 75.5
MsaG014643 AT4G15090.2 31.008 129 82 2 161 289 539 660 2.34e-14 75.5
MsaG014643 AT4G15090.4 31.008 129 82 2 161 289 539 660 2.34e-14 75.5
MsaG014643 AT5G18960.2 30.189 159 89 3 143 292 639 784 7.52e-14 73.9
MsaG014643 AT5G18960.2 31.429 105 56 2 41 144 41 130 8.30e-14 73.6
MsaG014643 AT5G18960.2 32.692 104 54 2 42 144 210 298 8.67e-14 73.6
MsaG014643 AT5G18960.1 30.189 159 89 3 143 292 639 784 7.52e-14 73.9
MsaG014643 AT5G18960.1 31.429 105 56 2 41 144 41 130 8.30e-14 73.6
MsaG014643 AT5G18960.1 32.692 104 54 2 42 144 210 298 8.67e-14 73.6
MsaG014643 AT1G76320.1 30.534 131 84 2 161 291 474 597 8.60e-14 73.6
MsaG014643 AT1G76320.4 30.534 131 84 2 161 291 474 597 8.60e-14 73.6
MsaG014643 AT1G76320.2 30.534 131 84 2 161 291 474 597 8.66e-14 73.6
MsaG014643 AT1G76320.3 30.534 131 84 2 161 291 474 597 1.02e-13 73.2
MsaG014643 AT2G43280.1 31.452 124 81 3 27 148 6 127 1.08e-13 70.1
MsaG014643 AT4G19990.1 31.333 150 96 3 165 313 436 579 3.84e-11 65.5
MsaG014643 AT4G19990.6 31.333 150 96 3 165 313 493 636 3.85e-11 65.5
MsaG014643 AT4G19990.2 31.333 150 96 3 165 313 493 636 3.85e-11 65.5
MsaG014643 AT1G52520.1 27.419 124 87 1 173 296 579 699 3.93e-11 65.1
MsaG014643 AT4G19990.7 31.333 150 96 3 165 313 507 650 4.08e-11 65.1
MsaG014643 AT4G19990.5 31.333 150 96 3 165 313 493 636 4.12e-11 65.1
MsaG014643 AT4G19990.3 31.333 150 96 3 165 313 493 636 4.19e-11 65.1
MsaG014643 AT4G19990.4 31.333 150 96 3 165 313 493 636 4.19e-11 65.1

Find 65 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTTCTCTGCTATAAATATT+TGG 0.069528 3:-76478235 None:intergenic
TCGGCAAAATTATCCCTTAT+TGG 0.219373 3:-76479202 None:intergenic
TTCATTATTTAATAGTATTA+TGG 0.222727 3:+76478550 MsaT014643.1:CDS
CATTCCTTCAAAGGGCTCTA+AGG 0.261818 3:-76476804 None:intergenic
AAAGTGCGTGGACGACCTTT+AGG 0.302776 3:-76478779 None:intergenic
TGAAAAGTCACATGATAGTT+AGG 0.326132 3:-76478314 None:intergenic
TTTCTCTGCTATAAATATTT+GGG 0.327046 3:-76478234 None:intergenic
TGGAGGATCACACAAGTTTA+TGG 0.352054 3:-76478747 None:intergenic
TTATCCCTTATTGGCAAAAC+AGG 0.352844 3:-76479193 None:intergenic
AAGTGCGTGGACGACCTTTA+GGG 0.355019 3:-76478778 None:intergenic
TTTACGAATGAAAGGCAGTT+TGG 0.374955 3:+76478799 MsaT014643.1:CDS
GATTTATCAAACTCTTCATT+TGG 0.382353 3:-76478686 None:intergenic
TTGTCGCATGTTTGAGTTTG+TGG 0.384532 3:+76478364 MsaT014643.1:CDS
TGTATTAAATGTATTCATAA+AGG 0.391275 3:+76478403 MsaT014643.1:CDS
TCAGAGAAATCCACCACCTT+TGG 0.409488 3:-76479227 None:intergenic
GGGAAAATAGTACATGATTA+TGG 0.411615 3:-76477105 None:intergenic
AATCACAAAACTTGATCAAT+TGG 0.412422 3:+76478652 MsaT014643.1:CDS
AAATCCACCACCTTTGGCTT+CGG 0.415432 3:-76479221 None:intergenic
TGCATCAATTGAAGATGTAA+AGG 0.436857 3:+76476832 MsaT014643.1:CDS
GGCTCTAAGGGGAGCTCTGA+TGG 0.445219 3:-76476791 None:intergenic
TACATCATCTGAGCCATTCA+TGG 0.452459 3:-76476726 None:intergenic
CATGAACATACCACCATGAA+TGG 0.455856 3:+76476713 MsaT014643.1:CDS
CTCCCCTTAGAGCCCTTTGA+AGG 0.456460 3:+76476800 MsaT014643.1:CDS
TGTAGTTATTGCAACGGAAA+AGG 0.460720 3:+76478848 MsaT014643.1:CDS
ATATTGCAATTCAAGCTTTG+CGG 0.469966 3:+76478624 MsaT014643.1:CDS
CTTAGAGCCCTTTGAAGGAA+TGG 0.476103 3:+76476805 MsaT014643.1:CDS
AGAACGAATGGTATTGTGAT+TGG 0.484146 3:+76476920 MsaT014643.1:CDS
TGCAAACTCCATTCCTTCAA+AGG 0.485592 3:-76476813 None:intergenic
TGTCGCATGTTTGAGTTTGT+GGG 0.487042 3:+76478365 MsaT014643.1:CDS
ATTCCTTCAAAGGGCTCTAA+GGG 0.488264 3:-76476803 None:intergenic
CTCAATATGTTCTAAGCCGA+TGG 0.491066 3:+76478447 MsaT014643.1:CDS
TCTTAGCATTTATGGTCCAT+CGG 0.492991 3:-76478463 None:intergenic
TTTGCCGAAGCCAAAGGTGG+TGG 0.497859 3:+76479217 MsaT014643.1:CDS
ATCAGTTGTAGTTATTGCAA+CGG 0.505066 3:+76478842 MsaT014643.1:CDS
TCAAGAGATTCTTTGTTCAA+AGG 0.507548 3:+76476943 MsaT014643.1:CDS
GCAAACTCCATTCCTTCAAA+GGG 0.507732 3:-76476812 None:intergenic
ATGTAAAGGATTACTATGTA+AGG 0.516665 3:+76476846 MsaT014643.1:CDS
CCTCCACGTGCGGTCCCTAA+AGG 0.522617 3:+76478764 MsaT014643.1:CDS
AATTTCATGAATCTTGTATG+TGG 0.536832 3:-76478279 None:intergenic
TCTCTTGAACTATCTGAAAG+AGG 0.540310 3:+76478578 MsaT014643.1:CDS
AGAGATTCTTTGTTCAAAGG+AGG 0.541828 3:+76476946 MsaT014643.1:CDS
TTGGACATCTACGTTTGTTG+TGG 0.543214 3:-76478871 None:intergenic
GAGATTCTTTGTTCAAAGGA+GGG 0.548544 3:+76476947 MsaT014643.1:CDS
GTCTGGTCATCAGAGACTTT+AGG 0.557356 3:-76478725 None:intergenic
GATCACACAAGTTTATGGTC+TGG 0.557810 3:-76478742 None:intergenic
TGCAATTCAAGCTTTGCGGA+AGG 0.564681 3:+76478628 MsaT014643.1:CDS
CGGCTTAGAACATATTGAGA+AGG 0.582615 3:-76478443 None:intergenic
GTCCAAGTTTAAAACATGGA+AGG 0.582831 3:+76478888 MsaT014643.1:CDS
TTAAAGTACACGATCAAACA+AGG 0.591318 3:+76477011 MsaT014643.1:CDS
GTTACTAAATCAAGAACGAA+TGG 0.594117 3:+76476908 MsaT014643.1:CDS
GGCTTAGAACATATTGAGAA+GGG 0.595706 3:-76478442 None:intergenic
CCACGCACTTTACGAATGAA+AGG 0.600807 3:+76478791 MsaT014643.1:CDS
TCTAAGGGGAGCTCTGATGG+CGG 0.601475 3:-76476788 None:intergenic
GCAATTGAAGACCTCGAGGA+AGG 0.603885 3:+76478506 MsaT014643.1:CDS
CCTTTCATTCGTAAAGTGCG+TGG 0.604290 3:-76478791 None:intergenic
CTCTGTTTCTGCCTTCCTCG+AGG 0.612225 3:-76478517 None:intergenic
CGACCTTTAGGGACCGCACG+TGG 0.624526 3:-76478767 None:intergenic
GTACACGATCAAACAAGGGT+AGG 0.637469 3:+76477016 MsaT014643.1:CDS
AGATGTCCAAGTTTAAAACA+TGG 0.643966 3:+76478884 MsaT014643.1:CDS
TTCCTTCAAAGGGCTCTAAG+GGG 0.687755 3:-76476802 None:intergenic
CCTTTAGGGACCGCACGTGG+AGG 0.703909 3:-76478764 None:intergenic
ATCATCTGAGCCATTCATGG+TGG 0.705037 3:-76476723 None:intergenic
AATTGCAATTGAAGACCTCG+AGG 0.709068 3:+76478502 MsaT014643.1:CDS
CTTGTGTGATCCTCCACGTG+CGG 0.710705 3:+76478754 MsaT014643.1:CDS
TAAAGTACACGATCAAACAA+GGG 0.712268 3:+76477012 MsaT014643.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 76476686 76479249 76476686 ID=MsaG014643
Chr3 mRNA 76476686 76479249 76476686 ID=MsaT014643.1;Parent=MsaG014643
Chr3 exon 76476686 76477114 76476686 ID=MsaT014643.1.exon1;Parent=MsaT014643.1
Chr3 CDS 76476686 76477114 76476686 ID=cds.MsaT014643.1;Parent=MsaT014643.1
Chr3 exon 76478218 76478909 76478218 ID=MsaT014643.1.exon2;Parent=MsaT014643.1
Chr3 CDS 76478218 76478909 76478218 ID=cds.MsaT014643.1;Parent=MsaT014643.1
Chr3 exon 76479192 76479249 76479192 ID=MsaT014643.1.exon3;Parent=MsaT014643.1
Chr3 CDS 76479192 76479249 76479192 ID=cds.MsaT014643.1;Parent=MsaT014643.1
Gene Sequence

>MsaT014643.1

ATGACTGATCAAGAAATGACAGATATGCATGAACATACCACCATGAATGGCTCAGATGATGTACTTGCAAATGCTATTGATGCAGACTCTCTCAATGATAGACCGCCATCAGAGCTCCCCTTAGAGCCCTTTGAAGGAATGGAGTTTGCATCAATTGAAGATGTAAAGGATTACTATGTAAGGTACGCCAAGAAAAAAGGTTTTAGTTTTCGCATGGGTCGTGTTACTAAATCAAGAACGAATGGTATTGTGATTGGTCAAGAGATTCTTTGTTCAAAGGAGGGTTTTCGATCCAAAAAAAATTTGAAAAAAGAAAATGGTAGTCTTAAAGTACACGATCAAACAAGGGTAGGATGCAAGTCAATGTTGTACATCAAGAAAAATGAAGATGGGTGGGTTGTTTCTAGATTTGTAAGAGACCATAATCATGATGAGTTGGTTGGGTCCCAAATATTTATAGCAGAGAAAGTTAAGTTTTTTGATGAAGTTTCCACATACAAGATTCATGAAATTTACAAAGAAAAACCTAACTATCATGTGACTTTTCAGAACATTTCAAAAGAAGCAAAATGTAGTTGTCGCATGTTTGAGTTTGTGGGAATTCTCTGTAGACATGTATTAAATGTATTCATAAAGGAAAATGTCTATTCTCTCCCTTCTCAATATGTTCTAAGCCGATGGACCATAAATGCTAAGAAAGAAAAAAATAAAGGAATTGCAATTGAAGACCTCGAGGAAGGCAGAAACAGAGCTTCAAGTACTTCATTATTTAATAGTATTATGGTTGAGTCTCTTGAACTATCTGAAAGAGGTTCACGATCAGAAAAGCATCATGATATTGCAATTCAAGCTTTGCGGAAGGCAATCACAAAACTTGATCAATTGGATCTTGAAGAACCAAATGAAGAGTTTGATAAATCGACATTTGAAGTTATGCCTAAAGTCTCTGATGACCAGACCATAAACTTGTGTGATCCTCCACGTGCGGTCCCTAAAGGTCGTCCACGCACTTTACGAATGAAAGGCAGTTTGGAATTGCACAAGAAAAATTCAATCAGTTGTAGTTATTGCAACGGAAAAGGCCACAACAAACGTAGATGTCCAAGTTTAAAACATGGAAGACCTGTTTTGCCAATAAGGGATAATTTTGCCGAAGCCAAAGGTGGTGGATTTCTCTGA
Protein sequence

>MsaT014643.1

MTDQEMTDMHEHTTMNGSDDVLANAIDADSLNDRPPSELPLEPFEGMEFASIEDVKDYYVRYAKKKGFSFRMGRVTKSRTNGIVIGQEILCSKEGFRSKKNLKKENGSLKVHDQTRVGCKSMLYIKKNEDGWVVSRFVRDHNHDELVGSQIFIAEKVKFFDEVSTYKIHEIYKEKPNYHVTFQNISKEAKCSCRMFEFVGILCRHVLNVFIKENVYSLPSQYVLSRWTINAKKEKNKGIAIEDLEEGRNRASSTSLFNSIMVESLELSERGSRSEKHHDIAIQALRKAITKLDQLDLEEPNEEFDKSTFEVMPKVSDDQTINLCDPPRAVPKGRPRTLRMKGSLELHKKNSISCSYCNGKGHNKRRCPSLKHGRPVLPIRDNFAEAKGGGFL*