AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017532


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017532 MtrunA17_Chr3g0141471 94.718 284 14 1 1 284 1 283 0.0 501
MsaG017532 MtrunA17_Chr8g0390531 46.988 83 42 1 182 264 243 323 1.87e-20 89.4
MsaG017532 MtrunA17_Chr5g0432531 44.000 100 56 0 164 263 151 250 8.98e-20 86.3
MsaG017532 MtrunA17_Chr1g0177881 54.545 66 30 0 199 264 102 167 9.08e-20 84.7
MsaG017532 MtrunA17_Chr5g0435131 50.725 69 34 0 196 264 88 156 2.57e-18 80.1
MsaG017532 MtrunA17_Chr7g0267111 53.623 69 32 0 202 270 113 181 4.48e-18 80.5
MsaG017532 MtrunA17_Chr4g0025901 46.835 79 42 0 186 264 86 164 1.43e-17 78.6
MsaG017532 MtrunA17_Chr7g0244571 26.481 287 156 8 27 260 58 342 1.20e-16 79.0
MsaG017532 MtrunA17_Chr8g0379681 47.692 65 34 0 199 263 258 322 5.24e-16 77.0
MsaG017532 MtrunA17_Chr2g0284471 46.774 62 33 0 199 260 247 308 5.50e-16 76.6
MsaG017532 MtrunA17_Chr4g0013081 50.820 61 30 0 200 260 315 375 4.90e-15 74.3
MsaG017532 MtrunA17_Chr4g0025911 51.667 60 29 0 205 264 99 158 1.46e-13 67.8
MsaG017532 MtrunA17_Chr4g0075391 36.082 97 51 1 169 265 62 147 1.74e-11 61.2
MsaG017532 MtrunA17_Chr1g0210351 45.161 62 34 0 198 259 136 197 2.84e-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
MsaG017532 AT5G19650.1 62.121 66 25 0 199 264 154 219 7.72e-23 94.4
MsaG017532 AT2G18500.1 61.538 65 25 0 199 263 226 290 2.98e-20 89.0
MsaG017532 AT2G30400.1 50.000 70 35 0 194 263 247 316 1.77e-18 84.3
MsaG017532 AT3G52525.1 56.452 62 27 0 200 261 67 128 6.70e-18 79.3
MsaG017532 AT5G58360.1 53.731 67 31 0 197 263 222 288 2.28e-17 80.9
MsaG017532 AT2G36026.1 55.000 60 27 0 205 264 92 151 5.29e-17 77.4
MsaG017532 AT1G06920.1 29.545 132 74 2 133 264 196 308 3.10e-16 77.8
MsaG017532 AT5G01840.1 48.529 68 35 0 203 270 202 269 4.28e-15 73.9
MsaG017532 AT5G22240.1 44.118 68 38 0 196 263 93 160 1.27e-13 68.6
MsaG017532 AT4G18830.1 45.902 61 33 0 199 259 282 342 8.33e-12 65.1

Find 66 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATGGCAGGGCCTGGATTCC+CGG 0.272464 3:+110444790 None:intergenic
CTCAAATTATAGTGATAAAA+AGG 0.274257 3:-110444486 MsaT017532.1:CDS
GAAGGTTATGTCAAGTAAAA+TGG 0.276654 3:-110444357 MsaT017532.1:CDS
GGTCCATTCTTCTAGTACTA+TGG 0.311039 3:-110444531 MsaT017532.1:CDS
GACACATTGCATTGGTGTTC+CGG 0.326318 3:+110444701 None:intergenic
TGCGAGCTTTCATGGAGATT+TGG 0.332540 3:-110444109 MsaT017532.1:CDS
AGTAATTGTGCGAGCTTTCA+TGG 0.344864 3:-110444117 MsaT017532.1:CDS
CACCGGAGAAAGACGGTATA+TGG 0.359937 3:+110444772 None:intergenic
TCCTCTTTCCCCGGGAATCC+AGG 0.367021 3:-110444800 MsaT017532.1:CDS
TTTGGCAACAAATGTTCGTT+TGG 0.381425 3:-110444091 MsaT017532.1:CDS
GGCGACGAAGCAGGAAGGTT+TGG 0.382600 3:+110444722 None:intergenic
TTATCACTATAATTTGAGAT+AGG 0.385663 3:+110444491 None:intergenic
ATACCCTATGTCATATGCTT+TGG 0.387292 3:+110444745 None:intergenic
GGTAAAAGAAAGCTTTGCTT+TGG 0.392617 3:-110444279 MsaT017532.1:CDS
AGTGAGGTTTCAAAGTATTA+CGG 0.405418 3:-110444402 MsaT017532.1:CDS
ATTTAACTAGCTCGAATAGA+AGG 0.424510 3:-110444454 MsaT017532.1:CDS
AATGACCTTTCCTCTTTCCC+CGG 0.427656 3:-110444809 MsaT017532.1:CDS
ACTTGACATAACCTTCGTTT+CGG 0.428668 3:+110444316 None:intergenic
GATGTCCGAGGCCAAGGACT+TGG 0.437700 3:-110444189 MsaT017532.1:CDS
ATGGCAGGGCCTGGATTCCC+GGG 0.439698 3:+110444791 None:intergenic
GTTAGAGATGATAGAAGAGA+TGG 0.441612 3:-110444213 MsaT017532.1:CDS
TTCTTGCTTAGCAAGATTCT+CGG 0.449560 3:-110444564 MsaT017532.1:CDS
GAAGGTTATGTCAAGTAGAA+TGG 0.463702 3:-110444309 MsaT017532.1:CDS
CTATGGATAGTACTAAAGTT+AGG 0.470027 3:-110444514 MsaT017532.1:CDS
TGAAGAAGGTTGAGAGAGTG+AGG 0.472397 3:-110444418 MsaT017532.1:CDS
CAATAGTTGCTCCAAGTCCT+TGG 0.478606 3:+110444178 None:intergenic
TCAAACAAATGTTCAAACTA+AGG 0.481359 3:-110444045 MsaT017532.1:CDS
GGGGAAAGAGGAAAGGTCAT+TGG 0.484366 3:+110444811 None:intergenic
AGACGGTATATGGCAGGGCC+TGG 0.484707 3:+110444782 None:intergenic
ACTAGAAGAATGGACCTTCT+CGG 0.488884 3:+110444538 None:intergenic
GCCTGGATTCCCGGGGAAAG+AGG 0.494617 3:+110444799 None:intergenic
TATCCATAGTACTAGAAGAA+TGG 0.495158 3:+110444528 None:intergenic
AGAAACTCACTTCTTCTTGA+GGG 0.501729 3:+110444626 None:intergenic
TGGTGTTCCGGCGACGAAGC+AGG 0.502249 3:+110444713 None:intergenic
GACGATAAGTCGTGTGAAGA+AGG 0.503045 3:-110444432 MsaT017532.1:CDS
GATGGAGATGTCCGAGGCCA+AGG 0.503048 3:-110444195 MsaT017532.1:CDS
TGCCATATACCGTCTTTCTC+CGG 0.503136 3:-110444774 MsaT017532.1:CDS
GAGCGACACATTTGAAAAGA+AGG 0.503682 3:+110444833 None:intergenic
GTCAAGTAGAATGGAGGAGA+AGG 0.514162 3:-110444300 MsaT017532.1:CDS
AAACCTTCCTGCTTCGTCGC+CGG 0.514759 3:-110444720 MsaT017532.1:CDS
TTGCTCCAAGTCCTTGGCCT+CGG 0.515968 3:+110444184 None:intergenic
AGCGACACATTTGAAAAGAA+GGG 0.522344 3:+110444834 None:intergenic
ATGACCTTTCCTCTTTCCCC+GGG 0.522963 3:-110444808 MsaT017532.1:CDS
GGAGAAAGACGGTATATGGC+AGG 0.531009 3:+110444776 None:intergenic
TAGAAACTCACTTCTTCTTG+AGG 0.531127 3:+110444625 None:intergenic
TCATATGCTTTGGAGTTCAC+CGG 0.541099 3:+110444755 None:intergenic
CTAAATTCTAGAGATTATCA+TGG 0.544872 3:-110444140 MsaT017532.1:CDS
GATTTCTTGAAGTCTTCGTA+AGG 0.562850 3:+110444239 None:intergenic
AATTGATAAAATCAATGAAG+AGG 0.573253 3:-110444603 MsaT017532.1:CDS
AAGATTCTCGGAAGCCGAGA+AGG 0.578226 3:-110444552 MsaT017532.1:CDS
AACTCCAAAGCATATGACAT+AGG 0.582440 3:-110444749 MsaT017532.1:CDS
ACTCCAAAGCATATGACATA+GGG 0.601832 3:-110444748 MsaT017532.1:CDS
TCGAAGAGGAACCGAAACGA+AGG 0.602284 3:-110444327 MsaT017532.1:CDS
ATTAAGAAAGTGAAATCCAA+AGG 0.608408 3:-110444671 MsaT017532.1:CDS
TGGAGTTCACCGGAGAAAGA+CGG 0.608559 3:+110444765 None:intergenic
TCTTTGATGACACATTGCAT+TGG 0.617252 3:+110444693 None:intergenic
GTTCCGGCGACGAAGCAGGA+AGG 0.630275 3:+110444717 None:intergenic
GATTCCCGGGGAAAGAGGAA+AGG 0.637825 3:+110444804 None:intergenic
GAGAAAGACGGTATATGGCA+GGG 0.639308 3:+110444777 None:intergenic
AGTATTACGGAGAATCAAAG+AGG 0.650942 3:-110444389 MsaT017532.1:CDS
ACTTCTTCTTGAGGGAACGT+CGG 0.651824 3:+110444634 None:intergenic
TGGCAGGGCCTGGATTCCCG+GGG 0.653477 3:+110444792 None:intergenic
GGTTATGTCAAGTAGAATGG+AGG 0.656874 3:-110444306 MsaT017532.1:CDS
TCAAAGAGGAAAAGAAACGA+AGG 0.672215 3:-110444375 MsaT017532.1:CDS
AGAAGAGATGGAGATGTCCG+AGG 0.675634 3:-110444201 MsaT017532.1:CDS
AAAATGGAAGAGAATCGAAG+AGG 0.676756 3:-110444341 MsaT017532.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 110444031 110444888 110444031 ID=MsaG017532
Chr3 mRNA 110444031 110444888 110444031 ID=MsaT017532.1;Parent=MsaG017532
Chr3 exon 110444031 110444888 110444031 ID=MsaT017532.1.exon1;Parent=MsaT017532.1
Chr3 CDS 110444031 110444888 110444031 ID=cds.MsaT017532.1;Parent=MsaT017532.1
Gene Sequence

>MsaT017532.1

ATGTCTAAACGCTTTAAGATGAAATTTACAATCCCTTCTTTTCAAATGTGTCGCTCCAATGACCTTTCCTCTTTCCCCGGGAATCCAGGCCCTGCCATATACCGTCTTTCTCCGGTGAACTCCAAAGCATATGACATAGGGTATCCAAACCTTCCTGCTTCGTCGCCGGAACACCAATGCAATGTGTCATCAAAGATTAAGAAAGTGAAATCCAAAGGCCGCAAAAGCACTTCCGACGTTCCCTCAAGAAGAAGTGAGTTTCTAATTGATAAAATCAATGAAGAGGAAAGTGAATCATTGATTTCTTGCTTAGCAAGATTCTCGGAAGCCGAGAAGGTCCATTCTTCTAGTACTATGGATAGTACTAAAGTTAGGCCTATCTCAAATTATAGTGATAAAAAGGAGAATAAAGATTTAACTAGCTCGAATAGAAGGACGATAAGTCGTGTGAAGAAGGTTGAGAGAGTGAGGTTTCAAAGTATTACGGAGAATCAAAGAGGAAAAGAAACGAAGGTTATGTCAAGTAAAATGGAAGAGAATCGAAGAGGAACCGAAACGAAGGTTATGTCAAGTAGAATGGAGGAGAAGGTAAAAGAAAGCTTTGCTTTGGTGAAAAAGTCAAAGGATCCTTACGAAGACTTCAAGAAATCAATGTTAGAGATGATAGAAGAGATGGAGATGTCCGAGGCCAAGGACTTGGAGCAACTATTGCAGTGTTTTTTGGCTCTAAATTCTAGAGATTATCATGGAGTAATTGTGCGAGCTTTCATGGAGATTTGGCAACAAATGTTCGTTTGGAATCCTAAGTCAGTAAAAAATCTTCAAACAAATGTTCAAACTAAGGATGTAGAAAATTAG

Protein sequence

>MsaT017532.1

MSKRFKMKFTIPSFQMCRSNDLSSFPGNPGPAIYRLSPVNSKAYDIGYPNLPASSPEHQCNVSSKIKKVKSKGRKSTSDVPSRRSEFLIDKINEEESESLISCLARFSEAEKVHSSSTMDSTKVRPISNYSDKKENKDLTSSNRRTISRVKKVERVRFQSITENQRGKETKVMSSKMEENRRGTETKVMSSRMEEKVKESFALVKKSKDPYEDFKKSMLEMIEEMEMSEAKDLEQLLQCFLALNSRDYHGVIVRAFMEIWQQMFVWNPKSVKNLQTNVQTKDVEN*