AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026848

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026848 MtrunA17_Chr5g0417551 83.288 371 33 3 1 342 1 371 0.0 588
MsaG026848 MtrunA17_Chr5g0417561 84.615 364 33 3 1 342 1 363 0.0 587
MsaG026848 MtrunA17_Chr5g0417601 57.868 394 101 10 1 342 1 381 6.58e-130 376
MsaG026848 MtrunA17_Chr5g0417571 64.120 301 64 8 1 259 1 299 3.55e-104 308
MsaG026848 MtrunA17_Chr4g0042481 34.624 465 171 17 4 341 6 464 1.56e-61 203
MsaG026848 MtrunA17_Chr3g0092111 37.755 392 123 18 54 340 88 463 2.28e-54 184
MsaG026848 MtrunA17_Chr8g0355261 30.682 440 192 16 4 342 12 439 9.35e-43 153
MsaG026848 MtrunA17_Chr7g0217581 40.000 235 82 9 2 182 101 330 6.55e-36 137
MsaG026848 MtrunA17_Chr7g0217581 36.842 171 72 6 205 340 412 581 9.57e-21 93.2
MsaG026848 MtrunA17_Chr6g0453321 44.000 200 71 8 4 167 6 200 9.67e-34 130
MsaG026848 MtrunA17_Chr6g0453321 40.000 165 61 8 202 340 341 493 3.20e-16 79.3
MsaG026848 MtrunA17_Chr7g0254161 31.198 359 142 13 77 342 78 424 8.94e-32 123
MsaG026848 MtrunA17_Chr6g0460731 69.014 71 19 1 84 151 79 149 6.68e-29 114
MsaG026848 MtrunA17_Chr2g0283811 69.231 65 20 0 87 151 36 100 6.76e-29 109
MsaG026848 MtrunA17_Chr6g0460721 61.039 77 25 2 80 151 66 142 7.88e-26 105
MsaG026848 MtrunA17_Chr8g0374111 73.585 53 14 0 98 150 29 81 5.39e-23 95.5
MsaG026848 MtrunA17_Chr4g0010151 50.000 74 37 0 78 151 62 135 3.94e-22 95.9
MsaG026848 MtrunA17_Chr8g0341671 71.154 52 15 0 98 149 20 71 1.60e-21 91.3
MsaG026848 MtrunA17_Chr8g0374251 61.905 63 24 0 98 160 68 130 2.47e-21 93.2
MsaG026848 MtrunA17_Chr4g0061761 66.038 53 18 0 96 148 38 90 2.79e-21 92.8
MsaG026848 MtrunA17_Chr2g0328021 44.660 103 53 2 53 151 13 115 4.89e-21 91.7
MsaG026848 MtrunA17_Chr4g0031411 43.925 107 59 1 78 183 55 161 5.36e-21 92.0
MsaG026848 MtrunA17_Chr3g0127201 61.667 60 23 0 95 154 24 83 5.63e-21 91.3
MsaG026848 MtrunA17_Chr2g0326001 57.353 68 29 0 84 151 26 93 7.71e-21 90.9
MsaG026848 MtrunA17_Chr8g0346551 56.250 64 28 0 88 151 14 77 7.81e-21 90.5
MsaG026848 MtrunA17_Chr2g0308011 71.429 49 14 0 98 146 37 85 1.14e-20 89.0
MsaG026848 MtrunA17_Chr7g0223311 46.000 100 42 3 51 150 42 129 1.62e-20 91.3
MsaG026848 MtrunA17_Chr8g0367161 46.875 96 45 3 82 171 13 108 3.37e-20 90.1
MsaG026848 MtrunA17_Chr4g0047001 71.154 52 15 0 100 151 57 108 3.79e-20 90.5
MsaG026848 MtrunA17_Chr4g0047761 63.636 55 20 0 98 152 72 126 3.89e-20 89.7
MsaG026848 MtrunA17_Chr4g0030051 61.538 65 21 1 90 150 29 93 4.96e-20 88.6
MsaG026848 MtrunA17_Chr1g0188851 66.667 51 17 0 100 150 45 95 5.11e-20 88.6
MsaG026848 MtrunA17_Chr7g0237921 48.649 74 38 0 78 151 56 129 7.66e-20 89.0
MsaG026848 MtrunA17_Chr3g0126201 56.757 74 30 2 79 151 32 104 1.13e-19 88.6
MsaG026848 MtrunA17_Chr2g0282051 69.231 52 15 1 100 151 48 98 2.14e-19 86.7
MsaG026848 MtrunA17_Chr1g0177251 63.793 58 20 1 95 151 8 65 3.31e-19 86.3
MsaG026848 MtrunA17_Chr2g0282511 69.388 49 15 0 98 146 45 93 1.09e-18 85.1
MsaG026848 MtrunA17_Chr5g0411951 60.000 55 22 0 94 148 39 93 1.39e-18 85.5
MsaG026848 MtrunA17_Chr3g0117601 40.000 115 54 3 34 148 12 111 2.75e-18 84.3
MsaG026848 MtrunA17_Chr2g0282441 66.000 50 17 0 100 149 27 76 3.21e-18 84.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026848 AT5G62430.1 46.667 285 121 10 74 342 29 298 5.20e-62 200
MsaG026848 AT5G39660.3 37.604 359 130 14 68 340 105 455 2.93e-49 171
MsaG026848 AT5G39660.1 37.604 359 130 14 68 340 105 455 2.93e-49 171
MsaG026848 AT5G39660.2 37.604 359 130 14 68 340 105 455 2.93e-49 171
MsaG026848 AT1G69570.1 34.559 408 186 19 2 342 4 397 3.64e-48 167
MsaG026848 AT1G26790.1 33.938 386 183 18 4 342 12 372 9.46e-45 157
MsaG026848 AT3G47500.1 45.902 183 67 8 2 166 5 173 1.28e-32 126
MsaG026848 AT3G47500.1 42.308 156 73 5 204 342 293 448 9.85e-20 90.1
MsaG026848 AT1G29160.1 71.212 66 19 0 86 151 50 115 9.59e-32 117
MsaG026848 AT2G34140.1 50.000 100 45 1 74 168 34 133 5.36e-31 115
MsaG026848 AT1G51700.1 64.062 64 23 0 98 161 33 96 1.54e-22 94.0
MsaG026848 AT5G60200.1 47.368 95 45 1 71 160 23 117 1.66e-22 95.5
MsaG026848 AT3G55370.1 48.276 87 45 0 67 153 45 131 2.34e-22 96.3
MsaG026848 AT3G55370.3 48.276 87 45 0 67 153 90 176 2.38e-22 97.1
MsaG026848 AT3G55370.2 48.276 87 45 0 67 153 45 131 3.14e-22 96.3
MsaG026848 AT3G50410.1 73.077 52 14 0 98 149 30 81 9.86e-22 93.2
MsaG026848 AT5G60850.1 69.643 56 17 0 98 153 51 106 1.27e-21 94.0
MsaG026848 AT5G02460.1 52.703 74 35 0 78 151 75 148 3.02e-21 94.0
MsaG026848 AT3G45610.1 47.674 86 39 1 69 154 17 96 5.51e-21 90.9
MsaG026848 AT3G21270.1 69.811 53 16 0 98 150 29 81 6.41e-21 89.7
MsaG026848 AT5G66940.1 45.545 101 37 2 50 150 2 84 1.03e-20 89.7
MsaG026848 AT1G07640.1 58.209 67 25 1 84 150 10 73 1.67e-20 90.1
MsaG026848 AT1G07640.2 58.209 67 25 1 84 150 66 129 2.48e-20 90.5
MsaG026848 AT1G07640.3 58.209 67 25 1 84 150 74 137 2.70e-20 90.5
MsaG026848 AT2G28510.1 55.714 70 31 0 88 157 38 107 2.88e-20 89.7
MsaG026848 AT2G28810.2 36.885 122 67 2 38 149 7 128 3.01e-20 90.5
MsaG026848 AT2G28810.1 36.885 122 67 2 38 149 24 145 3.59e-20 90.5
MsaG026848 AT2G37590.1 60.345 58 23 0 94 151 85 142 3.69e-20 90.1
MsaG026848 AT4G38000.1 59.375 64 25 1 93 155 36 99 4.43e-20 88.6
MsaG026848 AT3G61850.2 60.656 61 24 0 94 154 58 118 4.81e-20 89.0
MsaG026848 AT3G61850.3 60.656 61 24 0 94 154 58 118 4.81e-20 89.0
MsaG026848 AT5G65590.1 54.054 74 31 1 80 153 26 96 5.63e-20 89.4
MsaG026848 AT1G28310.1 68.519 54 17 0 98 151 27 80 5.65e-20 89.4
MsaG026848 AT3G61850.1 60.656 61 24 0 94 154 70 130 5.69e-20 89.0
MsaG026848 AT1G28310.2 68.519 54 17 0 98 151 51 104 7.11e-20 89.4
MsaG026848 AT3G61850.4 60.656 61 24 0 94 154 70 130 7.15e-20 89.4
MsaG026848 AT3G61850.5 60.656 61 24 0 94 154 58 118 7.17e-20 89.0
MsaG026848 AT4G24060.1 61.290 62 20 1 90 151 49 106 1.12e-19 89.0
MsaG026848 AT1G47655.1 69.388 49 15 0 98 146 29 77 1.48e-19 86.3
MsaG026848 AT3G52440.1 49.412 85 41 1 100 184 27 109 8.45e-19 84.7
MsaG026848 AT1G21340.1 59.375 64 23 1 100 163 40 100 1.42e-18 84.3
MsaG026848 AT3G52440.2 49.412 85 41 1 100 184 46 128 1.45e-18 84.7
MsaG026848 AT4G21050.1 47.191 89 43 2 82 170 10 94 1.61e-18 83.2
MsaG026848 AT4G00940.1 62.500 56 21 0 100 155 70 125 1.92e-18 84.7
MsaG026848 AT4G00940.3 62.500 56 21 0 100 155 70 125 1.92e-18 84.7
MsaG026848 AT4G00940.2 62.500 56 21 0 100 155 70 125 1.92e-18 84.7
MsaG026848 AT1G64620.1 61.538 52 20 0 95 146 46 97 2.12e-18 85.5
MsaG026848 AT2G46590.1 57.627 59 24 1 88 145 57 115 7.48e-18 84.0
MsaG026848 AT2G46590.2 57.627 59 24 1 88 145 69 127 8.25e-18 84.0
MsaG026848 AT5G62940.1 67.347 49 16 0 100 148 75 123 1.09e-17 83.6
MsaG026848 AT4G21040.1 49.296 71 33 2 82 151 10 78 1.01e-15 75.9
MsaG026848 AT4G21080.1 49.296 71 33 2 82 151 10 78 4.14e-15 74.3

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCAATGGATTTGCATCTA+TGG 0.227266 5:-30228996 MsaT026848.1:CDS
GTTCCAAGTAAACCTACTTT+AGG 0.258970 5:-30229169 MsaT026848.1:CDS
GAACCCTTTGCAGCTTCATT+AGG 0.274858 5:+30229058 None:intergenic
CCTTCAATTCTCAATGTCTT+AGG 0.282411 5:+30229082 None:intergenic
AAGCTGCAAAGGGTTCTAAT+TGG 0.333760 5:-30229051 MsaT026848.1:CDS
ATGAGTACTGTCTTGAACTT+TGG 0.343501 5:-30229412 MsaT026848.1:CDS
AACCCTTTGCAGCTTCATTA+GGG 0.350220 5:+30229059 None:intergenic
TTCCCTAAAGTAGGTTTACT+TGG 0.362362 5:+30229166 None:intergenic
TTCCAAGTAAACCTACTTTA+GGG 0.369270 5:-30229168 MsaT026848.1:CDS
CCTAAGACATTGAGAATTGA+AGG 0.398032 5:-30229082 MsaT026848.1:CDS
AGCATACTATGGTGGTTGTT+TGG 0.399897 5:-30229233 MsaT026848.1:CDS
TGTCAGAGATATTGGACTTC+CGG 0.405497 5:-30229523 MsaT026848.1:CDS
CTTTGTTCATCCTCTGTGGT+TGG 0.409218 5:+30229670 None:intergenic
GAATTCTTCAAAGAGATATA+AGG 0.418199 5:-30230302 MsaT026848.1:intron
GACACAGGATAACACATTGC+TGG 0.441391 5:+30229271 None:intergenic
TTTGAAGAATTCACTTCAAG+TGG 0.441472 5:+30230313 None:intergenic
CAACCCAACATAGCATACTA+TGG 0.443178 5:-30229244 MsaT026848.1:CDS
TTCAATGGATTTGCATCTAT+GGG 0.443602 5:-30228995 MsaT026848.1:CDS
CCTTGATAAAGCGGCAGGAT+TGG 0.449578 5:+30228925 None:intergenic
GTGGTTGTTTGGTCCCATCA+TGG 0.476345 5:-30229222 MsaT026848.1:CDS
GCAGAAGTGACGGGGCTGGT+TGG 0.486295 5:+30229552 None:intergenic
GAGAAATCTTCATGAGAAAG+AGG 0.491786 5:+30230373 None:intergenic
TAACACATTGCTGGGTTCCA+TGG 0.491823 5:+30229280 None:intergenic
CCAATCCTGCCGCTTTATCA+AGG 0.497721 5:-30228925 MsaT026848.1:CDS
CTTGCCAAGAAAATGAATGT+TGG 0.505436 5:-30229358 MsaT026848.1:CDS
CCACCATAGTATGCTATGTT+GGG 0.509061 5:+30229241 None:intergenic
TTCCCAATCAAATCCTCTCA+TGG 0.512251 5:+30228891 None:intergenic
CATACTTCTAGTGGTTCCTC+CGG 0.515524 5:+30229504 None:intergenic
TTCATAATCAAGTACTGAGG+TGG 0.527250 5:+30229705 None:intergenic
ACCACTAGAAGTATGCTTGT+AGG 0.533223 5:-30229496 MsaT026848.1:CDS
TTTGTTTGGAGCTTTGTCCT+GGG 0.536610 5:+30229639 None:intergenic
GGCCCTAATGAAGCTGCAAA+GGG 0.538987 5:-30229061 MsaT026848.1:CDS
TAGGTTGTACGCTCCATGAT+GGG 0.539001 5:+30229209 None:intergenic
TTGACGATTATGTGAGGCAT+CGG 0.539506 5:+30229435 None:intergenic
ACCACCATAGTATGCTATGT+TGG 0.544802 5:+30229240 None:intergenic
AAAGACCTTGATAAAGCGGC+AGG 0.552940 5:+30228920 None:intergenic
CATAGTATGCTATGTTGGGT+TGG 0.561961 5:+30229245 None:intergenic
AGAAGTATGCTTGTAGGCGC+AGG 0.563029 5:-30229490 MsaT026848.1:CDS
AGGCCCTAATGAAGCTGCAA+AGG 0.568759 5:-30229062 MsaT026848.1:CDS
ACACAGGATAACACATTGCT+GGG 0.569497 5:+30229272 None:intergenic
AGTAGGTTTACTTGGAACAC+AGG 0.569583 5:+30229174 None:intergenic
CACAAAAGACCTTGATAAAG+CGG 0.571382 5:+30228916 None:intergenic
TCATAATCAAGTACTGAGGT+GGG 0.572134 5:+30229706 None:intergenic
GGTTCTAATTGGTTAACACT+AGG 0.578922 5:-30229040 MsaT026848.1:CDS
CTAGGAAACAAGAGTGGTGG+AGG 0.581430 5:-30229022 MsaT026848.1:CDS
ATAGGTTGTACGCTCCATGA+TGG 0.581466 5:+30229208 None:intergenic
ATCACTTTGTTCATCCTCTG+TGG 0.583117 5:+30229666 None:intergenic
AAACTCAGAGGAACAATCAT+CGG 0.585405 5:+30230402 None:intergenic
GGGTTCCATGGAAACTGTTG+TGG 0.589831 5:+30229292 None:intergenic
ACACAGGATTGAGTTGCGAT+AGG 0.598821 5:+30229190 None:intergenic
TGAACAAAGTGATATTTCCC+AGG 0.605408 5:-30229656 MsaT026848.1:CDS
ATTGGCTTTCAATACTGATG+AGG 0.623209 5:+30228943 None:intergenic
GCCTACAAGCATACTTCTAG+TGG 0.634581 5:+30229495 None:intergenic
AAATCTTCATGAGAAAGAGG+AGG 0.654447 5:+30230376 None:intergenic
ACACTAGGAAACAAGAGTGG+TGG 0.656394 5:-30229025 MsaT026848.1:CDS
ACTCATTTGACGATTATGTG+AGG 0.678683 5:+30229429 None:intergenic
CCCAACATAGCATACTATGG+TGG 0.683395 5:-30229241 MsaT026848.1:CDS
CAGAGATATTGGACTTCCGG+AGG 0.688190 5:-30229520 MsaT026848.1:CDS
TTCTTCATAATCAAGTACTG+AGG 0.698198 5:+30229702 None:intergenic
AAGAGGAGGAGAAAACTCAG+AGG 0.704023 5:+30230390 None:intergenic
ATGTTGGGTTGGAATGACAC+AGG 0.717550 5:+30229256 None:intergenic
GGGTGATGATAAGAATCATG+TGG 0.719528 5:-30228975 MsaT026848.1:CDS
AGCCTCAAAACCAACCACAG+AGG 0.741026 5:-30229680 MsaT026848.1:CDS
TTAACACTAGGAAACAAGAG+TGG 0.767808 5:-30229028 MsaT026848.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 30228898 30230482 30228898 ID=MsaG026848
Chr5 mRNA 30228898 30230482 30228898 ID=MsaT026848.1;Parent=MsaG026848
Chr5 exon 30228898 30229746 30228898 ID=MsaT026848.1.exon2;Parent=MsaT026848.1
Chr5 CDS 30228898 30229746 30228898 ID=cds.MsaT026848.1;Parent=MsaT026848.1
Chr5 exon 30230303 30230482 30230303 ID=MsaT026848.1.exon1;Parent=MsaT026848.1
Chr5 CDS 30230303 30230482 30230303 ID=cds.MsaT026848.1;Parent=MsaT026848.1
Gene Sequence

>MsaT026848.1

ATGACTAATGATTCAACCATAAAGCTTTTTGGGAGAACCATTTTTCAAACACACAACACCGATGATTGTTCCTCTGAGTTTTCTCCTCCTCTTTCTCATGAAGATTTCTCTGATCATAGTCTTCATTCATCTTTATCTTCGTCTTCTCCACTTGAAGTGAATTCTTCAAAGAGATATAAGGAATCATCAAGAAAAGAACCCACCTCAGTACTTGATTATGAAGAAGCCTCAAAACCAACCACAGAGGATGAACAAAGTGATATTTCCCAGGACAAAGCTCCAAACAAAATTCTTCCATGTCCAAGATGCAAAAGCGTAGACACAAAATTTTGTTACTACAATAATTACAACGCCAACCAGCCCCGTCACTTCTGCAAAAACTGTCAGAGATATTGGACTTCCGGAGGAACCACTAGAAGTATGCTTGTAGGCGCAGGTCGTCGCAAGAACAAAATCTCTTCTTTTTCTTCCGATGCCTCACATAATCGTCAAATGAGTACTGTCTTGAACTTTGGATCAGATTCTTCGATTATGTCTTCAACTTCACTTGCCAAGAAAATGAATGTTGGATCAAATGATGAAACATTTGATAAGAGTAATCAGTGTTTTTTTCCACAACAGTTTCCATGGAACCCAGCAATGTGTTATCCTGTGTCATTCCAACCCAACATAGCATACTATGGTGGTTGTTTGGTCCCATCATGGAGCGTACAACCTATCGCAACTCAATCCTGTGTTCCAAGTAAACCTACTTTAGGGAAAAATTCAAGAGATGGCGTAGAAAAGAACAACAAAGAAAGTGATAATAATAGTGTGTTGATTCCTAAGACATTGAGAATTGAAGGCCCTAATGAAGCTGCAAAGGGTTCTAATTGGTTAACACTAGGAAACAAGAGTGGTGGAGGATTTTTCAATGGATTTGCATCTATGGGTGATGATAAGAATCATGTGGTTGAAGCTGCCTCATCAGTATTGAAAGCCAATCCTGCCGCTTTATCAAGGTCTTTTGTGTTCCATGAGAGGATTTGA
Protein sequence

>MsaT026848.1

MTNDSTIKLFGRTIFQTHNTDDCSSEFSPPLSHEDFSDHSLHSSLSSSSPLEVNSSKRYKESSRKEPTSVLDYEEASKPTTEDEQSDISQDKAPNKILPCPRCKSVDTKFCYYNNYNANQPRHFCKNCQRYWTSGGTTRSMLVGAGRRKNKISSFSSDASHNRQMSTVLNFGSDSSIMSSTSLAKKMNVGSNDETFDKSNQCFFPQQFPWNPAMCYPVSFQPNIAYYGGCLVPSWSVQPIATQSCVPSKPTLGKNSRDGVEKNNKESDNNSVLIPKTLRIEGPNEAAKGSNWLTLGNKSGGGFFNGFASMGDDKNHVVEAASSVLKANPAALSRSFVFHERI*