AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001369


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001369 MtrunA17_Chr1g0162411 75.853 381 53 4 85 429 14 391 0.0 533
MsaG001369 MtrunA17_Chr1g0162441 59.852 406 107 10 93 469 22 400 1.41e-141 413
MsaG001369 MtrunA17_Chr4g0033961 43.103 406 176 10 93 471 21 398 7.45e-99 303
MsaG001369 MtrunA17_Chr1g0162421 76.271 59 14 0 91 149 6 64 6.40e-27 102
MsaG001369 MtrunA17_Chr5g0429931 44.792 96 51 1 92 185 9 104 4.42e-20 89.4
MsaG001369 MtrunA17_Chr5g0429931 34.884 129 74 4 336 461 121 242 4.76e-11 63.2
MsaG001369 MtrunA17_Chr3g0077451 48.750 80 41 0 93 172 11 90 4.74e-19 86.3
MsaG001369 MtrunA17_Chr1g0162431 68.519 54 17 0 414 467 5 58 1.10e-16 74.7
MsaG001369 MtrunA17_Chr3g0077381 45.238 84 44 1 93 174 35 118 1.92e-16 81.3
MsaG001369 MtrunA17_Chr3g0077381 44.186 86 48 0 87 172 256 341 2.54e-13 71.6
MsaG001369 MtrunA17_Chr3g0077411 42.697 89 51 0 93 181 40 128 2.26e-16 81.6
MsaG001369 MtrunA17_Chr3g0077411 46.914 81 42 1 93 172 277 357 2.57e-15 78.2
MsaG001369 MtrunA17_Chr3g0077461 42.708 96 53 1 92 185 21 116 5.29e-16 80.1
MsaG001369 MtrunA17_Chr3g0077461 39.535 86 52 0 87 172 246 331 7.25e-14 73.6
MsaG001369 MtrunA17_Chr4g0009491 44.048 84 45 1 93 174 12 95 8.93e-16 79.3
MsaG001369 MtrunA17_Chr4g0009491 45.349 86 47 0 87 172 234 319 6.76e-15 76.6
MsaG001369 MtrunA17_Chr3g0103181 41.304 92 52 1 88 177 20 111 9.79e-15 74.3
MsaG001369 MtrunA17_Chr5g0419201 37.805 82 51 0 94 175 32 113 1.22e-14 72.4
MsaG001369 MtrunA17_Chr3g0103151 37.755 98 59 1 88 183 20 117 3.31e-14 70.5
MsaG001369 MtrunA17_Chr1g0208771 34.746 118 68 4 354 469 188 298 4.23e-14 74.3
MsaG001369 MtrunA17_Chr3g0077361 38.202 89 54 1 93 180 55 143 6.16e-14 73.9
MsaG001369 MtrunA17_Chr3g0077361 34.167 120 68 4 346 461 389 501 6.73e-11 64.3
MsaG001369 MtrunA17_Chr3g0103171 38.636 88 52 1 92 177 4 91 2.95e-13 69.7
MsaG001369 MtrunA17_Chr7g0233541 38.554 83 49 1 94 174 2 84 7.54e-13 69.3
MsaG001369 MtrunA17_Chr7g0233561 37.234 94 59 0 93 186 33 126 9.75e-13 69.3
MsaG001369 MtrunA17_Chr7g0233571 40.000 85 50 1 89 172 20 104 1.61e-12 67.0
MsaG001369 MtrunA17_Chr3g0103191 38.372 86 51 1 93 176 25 110 2.43e-12 67.0
MsaG001369 MtrunA17_Chr8g0390841 28.500 200 118 7 276 466 153 336 3.39e-12 68.6
MsaG001369 MtrunA17_Chr7g0233521 38.554 83 49 1 94 174 2 84 3.43e-12 67.0
MsaG001369 MtrunA17_Chr3g0131891 31.967 122 77 2 346 461 182 303 4.32e-12 67.4
MsaG001369 MtrunA17_Chr3g0131891 31.746 126 70 1 87 212 28 137 9.27e-12 66.2
MsaG001369 MtrunA17_Chr3g0103161 32.143 112 65 5 353 459 17 122 4.56e-12 63.2
MsaG001369 MtrunA17_Chr1g0163071 31.405 121 72 2 94 211 2 114 4.66e-12 67.0
MsaG001369 MtrunA17_Chr1g0163071 33.913 115 67 4 356 468 187 294 1.50e-11 65.5
MsaG001369 MtrunA17_Chr3g0103201 32.203 118 59 4 353 460 114 220 4.85e-12 65.5
MsaG001369 MtrunA17_Chr7g0233531 40.000 85 49 1 94 176 2 86 6.98e-12 65.9
MsaG001369 MtrunA17_Chr3g0077421 35.537 121 65 4 348 462 84 197 8.24e-12 64.3
MsaG001369 MtrunA17_Chr3g0077441 35.537 121 65 4 348 462 84 197 8.24e-12 64.3
MsaG001369 MtrunA17_Chr3g0077431 33.613 119 67 4 348 461 84 195 1.00e-10 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001369 AT3G18990.1 42.133 375 158 10 93 464 21 339 2.05e-81 256
MsaG001369 AT3G18990.2 41.867 375 159 10 93 464 21 339 5.30e-80 253
MsaG001369 AT1G49480.3 67.939 131 38 3 335 464 97 224 2.71e-52 176
MsaG001369 AT1G49480.1 67.939 131 38 3 335 464 97 224 2.71e-52 176
MsaG001369 AT1G49480.2 67.939 131 38 3 335 464 97 224 2.71e-52 176
MsaG001369 AT4G01580.1 40.476 84 48 1 93 174 45 128 1.17e-13 70.1
MsaG001369 AT3G18960.3 36.905 84 53 0 87 170 2 85 8.39e-13 67.0
MsaG001369 AT3G18960.1 38.462 78 48 0 93 170 45 122 2.26e-12 66.6
MsaG001369 AT3G18960.2 38.462 78 48 0 93 170 45 122 3.54e-12 65.9

Find 109 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAATTTGAAGGGTGTTTC+AGG 0.187865 1:+19067980 MsaT001369.1:CDS
TTTCATAAAATTTGCATAGA+TGG 0.241843 1:-19049986 None:intergenic
TATCGACTCCTTTGATTTCC+TGG 0.264885 1:+19065653 MsaT001369.1:CDS
TTTACACAAGAGAACGGTTT+AGG 0.281466 1:+19068100 MsaT001369.1:CDS
CAGTATTTGCCTACCAGATT+TGG 0.288300 1:+19067956 MsaT001369.1:intron
CTCCTTTGATTTCCTGGATT+CGG 0.304226 1:+19065659 MsaT001369.1:CDS
TATGCATCCCCTATATAAAT+AGG 0.310663 1:-19067843 None:intergenic
CTTCAAATTTGCTCCAAATC+TGG 0.314432 1:-19067969 None:intergenic
CCAACAAAGACAAGAAAATA+AGG 0.331796 1:+19065764 MsaT001369.1:CDS
AAGAAAGATCGAAAGAATTA+AGG 0.332327 1:+19050146 MsaT001369.1:CDS
TCTTGCAGACGCACGTTCAT+AGG 0.341018 1:-19067720 None:intergenic
ATCTTTCTTGTCAGCAATGA+TGG 0.352373 1:-19050132 None:intergenic
ATGATGTTTGAGTGAGGAAT+TGG 0.362469 1:-19060098 None:intergenic
CTATTCCTGGCGGCACCGTC+TGG 0.367566 1:+19065394 MsaT001369.1:CDS
GCGAGCCTCCTATTTATATA+GGG 0.371848 1:+19067835 MsaT001369.1:CDS
TTACACAAGAGAACGGTTTA+GGG 0.383205 1:+19068101 MsaT001369.1:CDS
GTCGCAACTGTCACTATTCC+TGG 0.396303 1:+19065381 MsaT001369.1:CDS
TTTATTCAACGCTACTCAAT+TGG 0.396344 1:+19065474 MsaT001369.1:CDS
TTCATTAAAGAAGCACAGTT+TGG 0.398465 1:+19050093 MsaT001369.1:CDS
TGCGAGCCTCCTATTTATAT+AGG 0.401271 1:+19067834 MsaT001369.1:CDS
TTTATATAGGGGATGCATAA+TGG 0.404335 1:+19067847 MsaT001369.1:CDS
CAAGGATTCTGCTGGATGTA+TGG 0.411184 1:+19065713 MsaT001369.1:CDS
TAAAGAAGCACAGTTTGGTC+AGG 0.416677 1:+19050098 MsaT001369.1:CDS
CAAGAAAACTTCAAGAAAGA+AGG 0.440243 1:+19067345 MsaT001369.1:CDS
GGCGGCACCGTCTGGTGTCT+AGG 0.445780 1:+19065402 MsaT001369.1:CDS
TACTTTGTTTCGTCTAAAAG+AGG 0.450484 1:+19068180 MsaT001369.1:CDS
TGGACTTGGGAAGGGGTTGG+AGG 0.451449 1:-19060122 None:intergenic
ATAAGTGAAGTTAGTGGACT+TGG 0.454177 1:-19060136 None:intergenic
GTGTAAATTCGTACCATCCT+TGG 0.456711 1:-19068084 None:intergenic
CATAGAAAGGCTCTTCAGTC+CGG 0.462587 1:-19065596 None:intergenic
CTGGTGTCTAGGATTGAAAA+AGG 0.467353 1:+19065413 MsaT001369.1:CDS
GTAACCCCTTCTTCTTTGAC+AGG 0.467828 1:-19050014 None:intergenic
GGTTTGAAGGTGCCGAATCC+AGG 0.469504 1:-19065671 None:intergenic
AATGCACCAGTAGGGTTTGA+AGG 0.471364 1:-19065684 None:intergenic
CAGATTTGGAGCAAATTTGA+AGG 0.476313 1:+19067970 MsaT001369.1:CDS
TGATGTTTGAGTGAGGAATT+GGG 0.476980 1:-19060097 None:intergenic
TAGTGGACTTGGGAAGGGGT+TGG 0.477135 1:-19060125 None:intergenic
GAAGAATCGGTATTACTAAA+CGG 0.479164 1:+19050042 MsaT001369.1:CDS
AAGTTAGTGGACTTGGGAAG+GGG 0.482727 1:-19060129 None:intergenic
TGCTTTGCAATGCACCAGTA+GGG 0.484811 1:-19065692 None:intergenic
GAAGTTAGTGGACTTGGGAA+GGG 0.485688 1:-19060130 None:intergenic
TGAAGTTAGTGGACTTGGGA+AGG 0.490357 1:-19060131 None:intergenic
CAACGCTACTCAATTGGCAT+TGG 0.496965 1:+19065480 MsaT001369.1:CDS
AGAGATCCTGTCAAAGAAGA+AGG 0.499865 1:+19050008 MsaT001369.1:CDS
AACTTGCAACACTACATCTC+TGG 0.504545 1:-19068158 None:intergenic
AGAGAACGGTTTAGGGGAAG+GGG 0.514068 1:+19068108 MsaT001369.1:CDS
TTGTGGAACTGCAGGTGCAC+AGG 0.514227 1:+19066094 MsaT001369.1:intron
TTGTGGAACTGCAGGTGCAC+AGG 0.514227 1:+19067276 MsaT001369.1:intron
TGTTTCCTCAGAAAATTATC+CGG 0.517233 1:-19065339 None:intergenic
TGTCAGATGAAGAAAGAGAA+AGG 0.518068 1:+19067756 MsaT001369.1:CDS
ATTAGCATTGAACCTTTGAC+TGG 0.518461 1:-19060167 None:intergenic
CTAACGCAGTGCTGCAAGTG+AGG 0.521510 1:-19068209 None:intergenic
ACAAGACAGTAAGGATTAGT+TGG 0.522215 1:-19067806 None:intergenic
TAATTATAGTCTTCATAGAA+AGG 0.526871 1:-19065609 None:intergenic
AAGAAAACTTCAAGAAAGAA+GGG 0.528573 1:+19067346 MsaT001369.1:CDS
AGCTGTAATACAATATTTCA+AGG 0.529965 1:+19050066 MsaT001369.1:CDS
AAGAGAACGGTTTAGGGGAA+GGG 0.530709 1:+19068107 MsaT001369.1:CDS
TTGCAAAGCAAGGATTCTGC+TGG 0.532722 1:+19065705 MsaT001369.1:CDS
TTGCTTTGCAATGCACCAGT+AGG 0.535055 1:-19065693 None:intergenic
GTTGACATAAGTGAAGTTAG+TGG 0.535849 1:-19060142 None:intergenic
CAAGAGAACGGTTTAGGGGA+AGG 0.536429 1:+19068106 MsaT001369.1:CDS
TGTTGGCTATGATTCTCCGC+TGG 0.543021 1:-19065747 None:intergenic
AGACACCAGACGGTGCCGCC+AGG 0.545874 1:-19065399 None:intergenic
GTAATACAATATTTCAAGGA+TGG 0.547379 1:+19050070 MsaT001369.1:CDS
AGCCATCCACAAAACAAATA+CGG 0.548306 1:-19065443 None:intergenic
AGATTTGGAGCAAATTTGAA+GGG 0.548691 1:+19067971 MsaT001369.1:CDS
GAGATCCTGTCAAAGAAGAA+GGG 0.550606 1:+19050009 MsaT001369.1:CDS
TCGGCACCTTCAAACCCTAC+TGG 0.554321 1:+19065678 MsaT001369.1:CDS
GGGGTTACGAAAGGAAGAAT+CGG 0.557671 1:+19050029 MsaT001369.1:CDS
GTCAGATGAAGAAAGAGAAA+GGG 0.559696 1:+19067757 MsaT001369.1:CDS
AAGAGAAAGGGCAATGAATG+AGG 0.560927 1:+19067769 MsaT001369.1:CDS
CGCAGACTAACAAGACAGTA+AGG 0.562349 1:-19067815 None:intergenic
GCTGCCTTGATGACAAAGGC+CGG 0.563135 1:+19068050 MsaT001369.1:CDS
ATGATTCAACAATGAGAAGC+CGG 0.564717 1:+19065577 MsaT001369.1:CDS
TACTATTCACATACGAAGGA+AGG 0.576020 1:+19065511 MsaT001369.1:CDS
ACGCCACTGTTTCTCACCAT+CGG 0.581074 1:-19068023 None:intergenic
CAGTTGCGACAGTCGAAAGT+TGG 0.587358 1:-19065368 None:intergenic
CATAGTTTAACTCAGTAGTA+CGG 0.587876 1:-19065557 None:intergenic
ATTCCGCTTCAGACATCCGA+TGG 0.591154 1:+19068007 MsaT001369.1:CDS
CAAGAAAGAAGCGGAAATCG+CGG 0.592113 1:+19065802 MsaT001369.1:CDS
TACTGGTGCATTGCAAAGCA+AGG 0.593014 1:+19065695 MsaT001369.1:CDS
AAAGAAGCACAGTTTGGTCA+GGG 0.596657 1:+19050099 MsaT001369.1:CDS
AAATTTGCTCCAAATCTGGT+AGG 0.596789 1:-19067965 None:intergenic
CGAGCCTCCTATTTATATAG+GGG 0.597293 1:+19067836 MsaT001369.1:CDS
TACGAATTTACACAAGAGAA+CGG 0.605728 1:+19068094 MsaT001369.1:CDS
CTCCACTGAAAATGATGAGG+AGG 0.606101 1:+19066121 MsaT001369.1:CDS
CTCCACTGAAAATGATGAGG+AGG 0.606101 1:+19067303 MsaT001369.1:CDS
AGATCCTGTCAAAGAAGAAG+GGG 0.608026 1:+19050010 MsaT001369.1:CDS
TAACGCAGTGCTGCAAGTGA+GGG 0.609733 1:-19068208 None:intergenic
AGAAAACTTCAAGAAAGAAG+CGG 0.610439 1:+19065793 MsaT001369.1:CDS
AGAAAACTTCAAGAAAGAAG+CGG 0.610439 1:+19066165 MsaT001369.1:CDS
TGCCGAATCCAGGAAATCAA+AGG 0.612101 1:-19065661 None:intergenic
TAAGTGAAGTTAGTGGACTT+GGG 0.612301 1:-19060135 None:intergenic
GCATCCCCTATATAAATAGG+AGG 0.614656 1:-19067840 None:intergenic
TTTCAATCCTAGACACCAGA+CGG 0.620929 1:-19065409 None:intergenic
TCACCATCGGATGTCTGAAG+CGG 0.621327 1:-19068010 None:intergenic
TTATGTCAACCACCAGTCAA+AGG 0.625581 1:+19060155 MsaT001369.1:CDS
AGCATTGAACCTTTGACTGG+TGG 0.626234 1:-19060164 None:intergenic
AAAGAAGAAGGGGTTACGAA+AGG 0.639626 1:+19050020 MsaT001369.1:CDS
CATCCGATGGTGAGAAACAG+TGG 0.644228 1:+19068020 MsaT001369.1:CDS
AGCCTCCACTGAAAATGATG+AGG 0.645254 1:+19066118 MsaT001369.1:CDS
AGCCTCCACTGAAAATGATG+AGG 0.645254 1:+19067300 MsaT001369.1:CDS
GTTCGCTGCCTTGATGACAA+AGG 0.645710 1:+19068046 MsaT001369.1:CDS
GGAGGAATGATGTTTGAGTG+AGG 0.655945 1:-19060104 None:intergenic
TTACTACTATTCACATACGA+AGG 0.656130 1:+19065507 MsaT001369.1:CDS
TACACAAGAGAACGGTTTAG+GGG 0.668422 1:+19068102 MsaT001369.1:CDS
CAAGAAAGAAGGGAAAATCG+CGG 0.697880 1:+19067356 MsaT001369.1:CDS
TATGGATCAACTGATACCAG+CGG 0.714314 1:+19065731 MsaT001369.1:CDS
GCAACTGTCACTATTCCTGG+CGG 0.770854 1:+19065384 MsaT001369.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 19049982 19068231 19049982 ID=MsaG001369
Chr1 mRNA 19049982 19068231 19049982 ID=MsaT001369.1;Parent=MsaG001369
Chr1 exon 19049982 19050167 19049982 ID=MsaT001369.1.exon1;Parent=MsaT001369.1
Chr1 CDS 19049982 19050167 19049982 ID=cds.MsaT001369.1;Parent=MsaT001369.1
Chr1 exon 19060087 19060176 19060087 ID=MsaT001369.1.exon2;Parent=MsaT001369.1
Chr1 CDS 19060087 19060176 19060087 ID=cds.MsaT001369.1;Parent=MsaT001369.1
Chr1 exon 19065333 19065837 19065333 ID=MsaT001369.1.exon3;Parent=MsaT001369.1
Chr1 CDS 19065333 19065837 19065333 ID=cds.MsaT001369.1;Parent=MsaT001369.1
Chr1 exon 19066108 19066200 19066108 ID=MsaT001369.1.exon4;Parent=MsaT001369.1
Chr1 CDS 19066108 19066200 19066108 ID=cds.MsaT001369.1;Parent=MsaT001369.1
Chr1 exon 19067290 19067391 19067290 ID=MsaT001369.1.exon5;Parent=MsaT001369.1
Chr1 CDS 19067290 19067391 19067290 ID=cds.MsaT001369.1;Parent=MsaT001369.1
Chr1 exon 19067696 19067868 19067696 ID=MsaT001369.1.exon6;Parent=MsaT001369.1
Chr1 CDS 19067696 19067868 19067696 ID=cds.MsaT001369.1;Parent=MsaT001369.1
Chr1 exon 19067959 19068231 19067959 ID=MsaT001369.1.exon7;Parent=MsaT001369.1
Chr1 CDS 19067959 19068231 19067959 ID=cds.MsaT001369.1;Parent=MsaT001369.1
Gene Sequence

>MsaT001369.1

ATGTCCATCTATGCAAATTTTATGAAAGAGATCCTGTCAAAGAAGAAGGGGTTACGAAAGGAAGAATCGGTATTACTAAACGGAAGCTGTAATACAATATTTCAAGGATGGTTCATTAAAGAAGCACAGTTTGGTCAGGGTGAAAGCATTCCATCATTGCTGACAAGAAAGATCGAAAGAATTAAGGTGAGTGCTACCCAATTCCTCACTCAAACATCATTCCTCCAACCCCTTCCCAAGTCCACTAACTTCACTTATGTCAACCACCAGTCAAAGAGGATTCCGGATAATTTTCTGAGGAAACACGGGGACCAACTTTCGACTGTCGCAACTGTCACTATTCCTGGCGGCACCGTCTGGTGTCTAGGATTGAAAAAGGTTGGCAACCGTATTTGTTTTGTGGATGGCTGGCAAGATTTTATTCAACGCTACTCAATTGGCATTGGATACTTACTACTATTCACATACGAAGGAAGGTCAAATTTCATCGTTTATATCTTCCGTACTACTGAGTTAAACTATGATTCAACAATGAGAAGCCGGACTGAAGAGCCTTTCTATGAAGACTATAATTATGTTTTTGAAGGCATTGAAGATATCGACTCCTTTGATTTCCTGGATTCGGCACCTTCAAACCCTACTGGTGCATTGCAAAGCAAGGATTCTGCTGGATGTATGGATCAACTGATACCAGCGGAGAATCATAGCCAACAAAGACAAGAAAATAAGGATACCAAGAAAACTTCAAGAAAGAAGCGGAAATCGCGGAAATCAGATCTGAGTGCACAGGAAGCCTCCACTGAAAATGATGAGGAGGCAGAGCGCAATAGAGATACCAAGAAAACTTCAAGAAAGAAGCGGAAATCAGATCTGAGTGCACAGGAAGCCTCCACTGAAAATGATGAGGAGGCAGAGCGCAATCTAGTTACCAAGAAAACTTCAAGAAAGAAGGGAAAATCGCGGAAATCAGATCTGATAAGAAGCAACATGTCAAATGTAGCCTATGAACGTGCGTCTGCAAGAGTAAGACACAATGTGTCAGATGAAGAAAGAGAAAGGGCAATGAATGAGGCAAAAGCATTTGTACCAACTAATCCTTACTGTCTTGTTAGTCTGCGAGCCTCCTATTTATATAGGGGATGCATAATGTATTTGCCTACCAGATTTGGAGCAAATTTGAAGGGTGTTTCAGGTTTTATTCCGCTTCAGACATCCGATGGTGAGAAACAGTGGCGTGTTCGCTGCCTTGATGACAAAGGCCGGAAAAAGTTAAGCCAAGGATGGTACGAATTTACACAAGAGAACGGTTTAGGGGAAGGGGATATCTGTGTTTTTGAGCTGCTTAATACCAGAGATGTAGTGTTGCAAGTTACTTTGTTTCGTCTAAAAGAGGATGAACCCTCACTTGCAGCACTGCGTTAG

Protein sequence

>MsaT001369.1

MSIYANFMKEILSKKKGLRKEESVLLNGSCNTIFQGWFIKEAQFGQGESIPSLLTRKIERIKVSATQFLTQTSFLQPLPKSTNFTYVNHQSKRIPDNFLRKHGDQLSTVATVTIPGGTVWCLGLKKVGNRICFVDGWQDFIQRYSIGIGYLLLFTYEGRSNFIVYIFRTTELNYDSTMRSRTEEPFYEDYNYVFEGIEDIDSFDFLDSAPSNPTGALQSKDSAGCMDQLIPAENHSQQRQENKDTKKTSRKKRKSRKSDLSAQEASTENDEEAERNRDTKKTSRKKRKSDLSAQEASTENDEEAERNLVTKKTSRKKGKSRKSDLIRSNMSNVAYERASARVRHNVSDEERERAMNEAKAFVPTNPYCLVSLRASYLYRGCIMYLPTRFGANLKGVSGFIPLQTSDGEKQWRVRCLDDKGRKKLSQGWYEFTQENGLGEGDICVFELLNTRDVVLQVTLFRLKEDEPSLAALR*