AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000426


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000426 MtrunA17_Chr1g0151961 97.368 342 4 2 1 341 42 379 0.0 690
MsaG000426 MtrunA17_Chr2g0289201 58.730 252 90 3 81 328 117 358 1.85e-89 273
MsaG000426 MtrunA17_Chr5g0413201 48.377 308 146 4 17 318 8 308 2.70e-86 263
MsaG000426 MtrunA17_Chr5g0439391 55.187 241 94 3 81 317 46 276 1.16e-71 224
MsaG000426 MtrunA17_Chr1g0192791 48.413 252 117 4 81 324 19 265 1.85e-70 220
MsaG000426 MtrunA17_Chr2g0305101 33.463 257 149 5 70 304 83 339 8.80e-38 138
MsaG000426 MtrunA17_Chr1g0149651 32.342 269 151 6 67 304 152 420 2.11e-35 133
MsaG000426 MtrunA17_Chr5g0398181 31.418 261 139 5 77 304 23 276 3.48e-34 127
MsaG000426 MtrunA17_Chr4g0065241 32.800 250 146 5 77 304 66 315 1.71e-33 126
MsaG000426 MtrunA17_Chr3g0137241 31.724 290 153 9 58 304 68 355 1.82e-33 127
MsaG000426 MtrunA17_Chr7g0240371 39.726 73 42 1 234 306 296 366 1.05e-11 65.9
MsaG000426 MtrunA17_Chr4g0008591 43.243 74 39 2 233 306 351 421 1.30e-11 65.5
MsaG000426 MtrunA17_Chr4g0025521 50.909 55 27 0 252 306 409 463 3.79e-11 64.3
MsaG000426 MtrunA17_Chr3g0141941 37.000 100 55 4 207 306 315 406 5.66e-11 63.5
MsaG000426 MtrunA17_Chr1g0155681 49.091 55 28 0 252 306 363 417 9.80e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000426 AT4G08150.1 70.796 339 75 8 11 341 76 398 1.17e-155 442
MsaG000426 AT1G62360.1 57.037 270 105 3 57 320 95 359 4.34e-90 275
MsaG000426 AT1G23380.1 56.904 239 96 3 80 316 84 317 3.15e-85 261
MsaG000426 AT1G23380.2 56.432 241 96 4 80 316 84 319 3.58e-83 255
MsaG000426 AT1G70510.1 53.165 237 108 1 80 316 68 301 5.86e-79 244
MsaG000426 AT1G70510.2 52.282 241 108 2 80 316 68 305 9.43e-77 238
MsaG000426 AT1G62990.1 30.996 271 146 7 66 304 14 275 7.89e-36 132
MsaG000426 AT5G25220.2 33.700 273 143 8 67 304 134 403 1.69e-35 134
MsaG000426 AT5G25220.1 33.700 273 143 8 67 304 134 403 1.99e-35 134
MsaG000426 AT5G11060.1 33.603 247 137 7 82 304 124 367 7.35e-34 129
MsaG000426 AT4G32040.1 30.242 248 144 4 82 304 119 362 5.28e-33 126
MsaG000426 AT4G32040.2 30.242 248 144 4 82 304 119 362 6.78e-33 126
MsaG000426 AT1G19700.1 50.909 55 27 0 252 306 358 412 3.34e-11 64.7
MsaG000426 AT1G19700.3 50.909 55 27 0 252 306 358 412 3.34e-11 64.7
MsaG000426 AT1G19700.5 50.909 55 27 0 252 306 358 412 3.34e-11 64.7
MsaG000426 AT1G19700.4 50.909 55 27 0 252 306 358 412 3.34e-11 64.7
MsaG000426 AT1G19700.2 50.909 55 27 0 252 306 358 412 3.34e-11 64.7
MsaG000426 AT1G75430.1 49.091 55 28 0 252 306 209 263 4.09e-11 63.5
MsaG000426 AT2G27220.1 49.091 55 28 0 252 306 235 289 7.41e-11 63.5
MsaG000426 AT2G27220.3 49.091 55 28 0 252 306 235 289 7.41e-11 63.5
MsaG000426 AT2G27220.2 49.091 55 28 0 252 306 253 307 9.72e-11 63.2

Find 75 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAGAAGACATGCAGTTTA+TGG 0.215872 1:-5689869 MsaT000426.1:CDS
GCTGATGGTCCCTACCGTTT+AGG 0.271349 1:-5689790 MsaT000426.1:CDS
ACCAGTTATTTATTTGCTTC+TGG 0.277102 1:+5689923 None:intergenic
TTGAGGATGAGCAATGATTT+TGG 0.278077 1:+5700347 None:intergenic
ACAGAGTGCAGCTCTTTATA+TGG 0.322707 1:-5689827 MsaT000426.1:CDS
ACCATGAATTGGTCTAGTTC+TGG 0.338115 1:+5699909 None:intergenic
CTGATGGTCCCTACCGTTTA+GGG 0.343258 1:-5689789 MsaT000426.1:CDS
CTAGACAAAAGCTACTTAAT+TGG 0.349186 1:-5690608 MsaT000426.1:CDS
ACCAAACGAGCCACCACTTC+CGG 0.349272 1:+5699999 None:intergenic
ACCGGAAGTGGTGGCTCGTT+TGG 0.365361 1:-5700000 MsaT000426.1:CDS
AACTTTCATCTTCAATCAAA+TGG 0.370332 1:-5700588 MsaT000426.1:CDS
TGAAGATGAAAGTTGTTCAT+TGG 0.383854 1:+5700597 None:intergenic
ACCAGAAGCAAATAAATAAC+TGG 0.406580 1:-5689924 MsaT000426.1:CDS
GAAAGGAAAATTACCTAAAG+AGG 0.441916 1:-5690631 MsaT000426.1:CDS
AAATCCATAGCCTCTTGTAT+AGG 0.443002 1:+5699640 None:intergenic
ATGATGATTATGCATAATAT+TGG 0.443654 1:+5700428 None:intergenic
GTAGCATTGGCTGAATCAAC+AGG 0.445109 1:-5689952 MsaT000426.1:CDS
TTACAAATGGCCTTATCCTT+CGG 0.445371 1:-5690574 MsaT000426.1:intron
ATATTTGTTCTCATTAAAGC+TGG 0.445786 1:+5700462 None:intergenic
TGTTGATGTTGTACTTGATC+AGG 0.447416 1:+5700546 None:intergenic
ATCATAATCATGGCCCTAAA+CGG 0.455352 1:+5689776 None:intergenic
ATTGGCTGAATCAACAGGTT+TGG 0.461797 1:-5689947 MsaT000426.1:CDS
TCCAGAACTAGACCAATTCA+TGG 0.475218 1:-5699910 MsaT000426.1:intron
CACTTTGCAATGGACCCCTT+CGG 0.484187 1:-5699588 MsaT000426.1:CDS
GGTGGGAATTGCATTACAAA+TGG 0.484691 1:-5690587 MsaT000426.1:CDS
TCTGCTCGAGGATCAATCTC+TGG 0.491728 1:+5690738 None:intergenic
GATTGGAGCTCCACCGGAAG+TGG 0.502488 1:-5700012 MsaT000426.1:CDS
GGACCCCTTCGGATCTTCCC+TGG 0.503797 1:-5699577 MsaT000426.1:intron
TCAATCAAAGGAAGAGGCAC+TGG 0.507111 1:-5689897 MsaT000426.1:CDS
TTATAACGTACCGAAGGATA+AGG 0.509147 1:+5690564 None:intergenic
CACTATATTTCTTCAGCAAG+TGG 0.509181 1:+5690697 None:intergenic
GACAAAAGCTACTTAATTGG+TGG 0.509834 1:-5690605 MsaT000426.1:CDS
TTATATGGATGGTCATTACA+TGG 0.510806 1:-5689812 MsaT000426.1:CDS
AAGGCCTATACAAGAGGCTA+TGG 0.514686 1:-5699644 MsaT000426.1:CDS
TGGCTCGTTTGGTTGCGTCT+AGG 0.518848 1:-5699989 MsaT000426.1:CDS
AGCTTACATGGATTGTCAAA+AGG 0.519024 1:-5700307 MsaT000426.1:intron
GAGGATCAAGAGAATAGTGG+TGG 0.527205 1:-5690777 MsaT000426.1:CDS
AATTCACGGTCTTCTGCTCG+AGG 0.528363 1:+5690726 None:intergenic
CATCATCATCAAGGAGGAGG+AGG 0.530576 1:-5700411 MsaT000426.1:CDS
CACTTGCTGAAGAAATATAG+TGG 0.533238 1:-5690696 MsaT000426.1:CDS
GAAGAGGATCAAGAGAATAG+TGG 0.545053 1:-5690780 MsaT000426.1:CDS
GCTTCACCACTAGAACTGCT+TGG 0.545490 1:+5700384 None:intergenic
TATGTAGATTGGAGCTCCAC+CGG 0.547316 1:-5700018 MsaT000426.1:intron
GGAATCAGAGAAGGTAGCAT+TGG 0.547951 1:-5689965 MsaT000426.1:CDS
TATTTGTTCTCATTAAAGCT+GGG 0.551107 1:+5700463 None:intergenic
ATGCATAATCATCATCATCA+AGG 0.555030 1:-5700420 MsaT000426.1:CDS
ATAAACTGCATGTCTTCTGA+TGG 0.556878 1:+5689871 None:intergenic
AGACATGCAGTTTATGGTGA+TGG 0.558113 1:-5689863 MsaT000426.1:CDS
CAGCTAAATACACTTTGCAA+TGG 0.562110 1:-5699598 MsaT000426.1:CDS
TAATCATGGCCCTAAACGGT+AGG 0.564867 1:+5689780 None:intergenic
TGGAGCTCCACCGGAAGTGG+TGG 0.570424 1:-5700009 MsaT000426.1:CDS
GGTTCATCAATCAAAGGAAG+AGG 0.570775 1:-5689903 MsaT000426.1:CDS
TGTAAAAGACTAGAGTATTG+AGG 0.573212 1:+5700330 None:intergenic
AGTGCAGCTCTTTATATGGA+TGG 0.581356 1:-5689823 MsaT000426.1:CDS
GGGAGTCCAAGCAGTTCTAG+TGG 0.587384 1:-5700390 MsaT000426.1:CDS
ATAACTGGTTCATCAATCAA+AGG 0.592016 1:-5689909 MsaT000426.1:CDS
ACAAAAGCTACTTAATTGGT+GGG 0.596461 1:-5690604 MsaT000426.1:CDS
AATCATCATCATCAAGGAGG+AGG 0.600518 1:-5700414 MsaT000426.1:CDS
ACTCACCAGGGAAGATCCGA+AGG 0.608503 1:+5699572 None:intergenic
ATCATCATCAAGGAGGAGGA+GGG 0.622603 1:-5700410 MsaT000426.1:CDS
ATTAACAAGGCCTATACAAG+AGG 0.622954 1:-5699650 MsaT000426.1:CDS
AGGCGTTGGTTCATCAGAAG+AGG 0.623533 1:-5690796 MsaT000426.1:CDS
AATCATGGCCCTAAACGGTA+GGG 0.623950 1:+5689781 None:intergenic
ATGCAGTTTATGGTGATGGA+TGG 0.624056 1:-5689859 MsaT000426.1:CDS
ATATAAAGAGCTGCACTCTG+TGG 0.627158 1:+5689829 None:intergenic
AAACGAGCCACCACTTCCGG+TGG 0.627824 1:+5700002 None:intergenic
GATGGTCATTACATGGCTGA+TGG 0.643940 1:-5689805 MsaT000426.1:CDS
CACTATATAGGAATCAGAGA+AGG 0.647456 1:-5689974 MsaT000426.1:intron
CATGCTTGTGAAGTATAGAG+AGG 0.648293 1:-5699674 MsaT000426.1:CDS
CTCACCAGGGAAGATCCGAA+GGG 0.678902 1:+5699573 None:intergenic
CTAGGCAAGAGTTTGAAGCA+AGG 0.689197 1:-5699971 MsaT000426.1:CDS
CATAATCATCATCATCAAGG+AGG 0.690149 1:-5700417 MsaT000426.1:CDS
TTATGCATAATATTGGTGTG+TGG 0.710252 1:+5700435 None:intergenic
AGTATAGAGAGGAATTAACA+AGG 0.714149 1:-5699663 MsaT000426.1:CDS
TCACCAGGGAAGATCCGAAG+GGG 0.724320 1:+5699574 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 5689783 5700616 5689783 ID=MsaG000426
Chr1 mRNA 5689783 5700616 5689783 ID=MsaT000426.1;Parent=MsaG000426
Chr1 exon 5689783 5689986 5689783 ID=MsaT000426.1.exon5;Parent=MsaT000426.1
Chr1 CDS 5689783 5689986 5689783 ID=cds.MsaT000426.1;Parent=MsaT000426.1
Chr1 exon 5690575 5690831 5690575 ID=MsaT000426.1.exon4;Parent=MsaT000426.1
Chr1 CDS 5690575 5690831 5690575 ID=cds.MsaT000426.1;Parent=MsaT000426.1
Chr1 exon 5699578 5699710 5699578 ID=MsaT000426.1.exon3;Parent=MsaT000426.1
Chr1 CDS 5699578 5699710 5699578 ID=cds.MsaT000426.1;Parent=MsaT000426.1
Chr1 exon 5699911 5700033 5699911 ID=MsaT000426.1.exon2;Parent=MsaT000426.1
Chr1 CDS 5699911 5700033 5699911 ID=cds.MsaT000426.1;Parent=MsaT000426.1
Chr1 exon 5700308 5700616 5700308 ID=MsaT000426.1.exon1;Parent=MsaT000426.1
Chr1 CDS 5700308 5700616 5700308 ID=cds.MsaT000426.1;Parent=MsaT000426.1
Gene Sequence

>MsaT000426.1

ATGAACAACTTTCATCTTCAATCAAATGGATCAGACAATTGTTTTCAACCTGATCAAGTACAACATCAACACTCTGCTGTGAAAACTGAAGCAAATAGTACTTCACAACTTCACACTCCGATTTTTCATTACCCAGCTTTAATGAGAACAAATATTATTCCACACACCAATATTATGCATAATCATCATCATCAAGGAGGAGGAGGGAGTCCAAGCAGTTCTAGTGGTGAAGCTGAAGCTATAAAAGCCAAAATCATTGCTCATCCTCAATACTCTAGTCTTTTACAAGCTTACATGGATTGTCAAAAGATTGGAGCTCCACCGGAAGTGGTGGCTCGTTTGGTTGCGTCTAGGCAAGAGTTTGAAGCAAGGCAAAGATCTTCAGTTAACTCAAGAGAAGCTTCTAAAGATCCAGAACTAGACCAATTCATGGAAGCATATTATGACATGCTTGTGAAGTATAGAGAGGAATTAACAAGGCCTATACAAGAGGCTATGGATTTCATGAGAAGAATAGAAACTCAGCTAAATACACTTTGCAATGGACCCCTTCGGATCTTCCCTGATGATAAAAATGAAGGCGTTGGTTCATCAGAAGAGGATCAAGAGAATAGTGGTGGAGAAACAGATCAACTTCCAGAGATTGATCCTCGAGCAGAAGACCGTGAATTGAAAAACCACTTGCTGAAGAAATATAGTGGTTACTTGAGTAGTCTTAAGCAAGAACTTTCCAAGAAGAAAAAGAAAGGAAAATTACCTAAAGAGGCTAGACAAAAGCTACTTAATTGGTGGGAATTGCATTACAAATGGCCTTATCCTTCGGAATCAGAGAAGGTAGCATTGGCTGAATCAACAGGTTTGGACCAGAAGCAAATAAATAACTGGTTCATCAATCAAAGGAAGAGGCACTGGAAACCATCAGAAGACATGCAGTTTATGGTGATGGATGGACTGCATCCACAGAGTGCAGCTCTTTATATGGATGGTCATTACATGGCTGATGGTCCCTACCGTTTAGGGCCATGA

Protein sequence

>MsaT000426.1

MNNFHLQSNGSDNCFQPDQVQHQHSAVKTEANSTSQLHTPIFHYPALMRTNIIPHTNIMHNHHHQGGGGSPSSSSGEAEAIKAKIIAHPQYSSLLQAYMDCQKIGAPPEVVARLVASRQEFEARQRSSVNSREASKDPELDQFMEAYYDMLVKYREELTRPIQEAMDFMRRIETQLNTLCNGPLRIFPDDKNEGVGSSEEDQENSGGETDQLPEIDPRAEDRELKNHLLKKYSGYLSSLKQELSKKKKKGKLPKEARQKLLNWWELHYKWPYPSESEKVALAESTGLDQKQINNWFINQRKRHWKPSEDMQFMVMDGLHPQSAALYMDGHYMADGPYRLGP*