AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG037789


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037789 MtrunA17_Chr7g0239471 86.614 508 47 2 1 508 1 487 0.0 853
MsaG037789 MtrunA17_Chr2g0290321 72.253 537 99 8 18 508 19 551 0.0 753
MsaG037789 MtrunA17_Chr2g0290341 66.151 517 104 7 34 508 19 506 0.0 658
MsaG037789 MtrunA17_Chr3g0120841 47.283 552 236 10 7 504 10 560 1.12e-150 442
MsaG037789 MtrunA17_Chr3g0120231 65.865 208 59 1 313 508 2 209 1.39e-86 265
MsaG037789 MtrunA17_Chr3g0120201 46.743 261 120 5 258 504 6 261 2.08e-68 220
MsaG037789 MtrunA17_Chr3g0120221 59.064 171 68 1 18 186 16 186 2.75e-67 214
MsaG037789 MtrunA17_Chr7g0238851 87.013 77 10 0 19 95 5 81 1.11e-34 125
MsaG037789 MtrunA17_Chr3g0120191 61.644 73 28 0 107 179 11 83 4.47e-28 108
MsaG037789 MtrunA17_Chr3g0120181 70.690 58 17 0 38 95 2 59 3.05e-26 101
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037789 AT4G16420.3 54.851 505 174 10 18 506 18 484 0.0 520
MsaG037789 AT4G16420.1 54.941 506 173 11 18 506 18 485 0.0 520
MsaG037789 AT4G16420.2 54.348 506 172 9 18 506 18 481 0.0 518
MsaG037789 AT3G07740.1 43.561 528 254 8 19 506 22 545 5.24e-137 407
MsaG037789 AT3G07740.3 43.615 509 244 7 37 506 20 524 1.93e-135 402
MsaG037789 AT3G07740.4 42.991 535 254 9 19 506 22 552 2.53e-134 400
MsaG037789 AT3G07740.2 43.187 477 228 7 69 506 2 474 8.07e-122 365

Find 115 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAACACATAAGTCAAAATT+TGG 0.161708 7:+65227626 None:intergenic
CCGTCGTTTCTTGAGGATTT+TGG 0.167305 7:+65226387 None:intergenic
TATATTATAGGATCGGATTC+TGG 0.183755 7:-65226628 MsaT037789.1:intron
AAATGTATGGCATGAATAAC+TGG 0.272278 7:-65227129 MsaT037789.1:CDS
ACAGACTCCTCAAGAAATTC+TGG 0.286197 7:-65226420 MsaT037789.1:intron
AGTAGCTCGCCCTGCAGGTC+TGG 0.289473 7:+65225627 None:intergenic
AAACGTCTGTGCTGCGAGTT+AGG 0.293920 7:-65225449 MsaT037789.1:CDS
AGTTCTGTGTTCAGAGATAA+TGG 0.309266 7:+65225908 None:intergenic
GAAAAGAATTCAAGAGCTTA+AGG 0.314875 7:-65225883 MsaT037789.1:intron
AAGAAACGACGGCCCTTCTT+TGG 0.315629 7:-65226376 MsaT037789.1:CDS
ATGCTCATTAAGAAGGGATT+TGG 0.323014 7:-65225293 MsaT037789.1:CDS
ATGTGGTCCCGAACAATTGC+GGG 0.328004 7:-65225687 MsaT037789.1:CDS
CTCTCCATGCTTCCCTCTTC+CGG 0.329198 7:-65227032 MsaT037789.1:intron
TGATACGTATCTATAATAAA+AGG 0.333141 7:-65226221 MsaT037789.1:intron
ACAAAAGCAATCATGCTTAC+AGG 0.334147 7:-65227571 MsaT037789.1:CDS
TCCCTCTCATTTGCCCCGAC+TGG 0.345302 7:-65227307 MsaT037789.1:CDS
TTGGAACCCCGCAATTGTTC+GGG 0.352331 7:+65225680 None:intergenic
ACACTATAGGATTGTGTACT+TGG 0.367311 7:-65227056 MsaT037789.1:CDS
TGAGCAATTACTCGCTGATA+TGG 0.392529 7:-65226292 MsaT037789.1:CDS
TACTGTAATATCGATATTAC+AGG 0.392999 7:-65227677 MsaT037789.1:CDS
TTCAAGTTATGTCAATGAAA+TGG 0.396353 7:-65225605 MsaT037789.1:CDS
GGCACACGGCACACTTAATC+CGG 0.397403 7:+65227648 None:intergenic
ATACACCATGTCAACTTTCA+TGG 0.399055 7:+65225319 None:intergenic
TTTGGAACCCCGCAATTGTT+CGG 0.400298 7:+65225679 None:intergenic
GATGTTAAATCCTTCTCAAA+TGG 0.404781 7:+65226011 None:intergenic
TCCGCAGACATCAAGGCATT+TGG 0.409190 7:+65225661 None:intergenic
TGCAGGTGGAACTAACAAAA+AGG 0.414771 7:-65226584 MsaT037789.1:CDS
AGTGGAAATAACTCAGAATC+TGG 0.415824 7:-65228312 MsaT037789.1:CDS
TAGGACATGTCTCATGTTGT+TGG 0.423324 7:-65226919 MsaT037789.1:CDS
TCTTCATCCGCGTTCCAGTC+GGG 0.425170 7:+65227293 None:intergenic
TCTGCTGATCCCAGACCTGC+AGG 0.434755 7:-65225637 MsaT037789.1:CDS
ATATTATAGGATCGGATTCT+GGG 0.435344 7:-65226627 MsaT037789.1:intron
AACTCAGAATCTGGAGCTGC+AGG 0.438593 7:-65228303 MsaT037789.1:intron
TCTTGCCATGGGGAAAGGGC+AGG 0.439550 7:-65226878 MsaT037789.1:CDS
GTAGCTCGCCCTGCAGGTCT+GGG 0.445211 7:+65225628 None:intergenic
AAGTTGAAGAAAGTGCCCTT+AGG 0.448564 7:-65225726 MsaT037789.1:CDS
GTTCATGCGCTTTCATACTA+AGG 0.450239 7:-65225955 MsaT037789.1:CDS
CTGTCAGTACAAATGATTGC+TGG 0.451807 7:-65225389 MsaT037789.1:CDS
TCCAATAGAGACCGGGGAAA+AGG 0.466367 7:-65226559 MsaT037789.1:CDS
AACTTCTTGCCATGGGGAAA+GGG 0.466541 7:-65226882 MsaT037789.1:CDS
GGATTTAACATCAGAGGAAA+AGG 0.470770 7:-65226000 MsaT037789.1:CDS
AGGCATGCACTGAACACTAT+AGG 0.474478 7:-65227069 MsaT037789.1:CDS
CAACACATAAGTCAAAATTT+GGG 0.475549 7:+65227627 None:intergenic
TTGTAGGGACTTGAAATGTA+TGG 0.477689 7:-65227142 MsaT037789.1:intron
AAGGAGCGGGTGAAGCGAAA+AGG 0.478432 7:-65227718 MsaT037789.1:CDS
AAGCACTTTCTCTTGCCCTA+AGG 0.483082 7:+65225710 None:intergenic
GAACTTCTTGCCATGGGGAA+AGG 0.484313 7:-65226883 MsaT037789.1:CDS
CCACTAGCTTCAACCAAAGA+AGG 0.487227 7:+65226363 None:intergenic
CTTGAAGTAGCTCGCCCTGC+AGG 0.492075 7:+65225622 None:intergenic
TTCTTCATCCGCGTTCCAGT+CGG 0.492141 7:+65227292 None:intergenic
AGGACATGTCTCATGTTGTT+GGG 0.493324 7:-65226918 MsaT037789.1:CDS
CTTCATCCGCGTTCCAGTCG+GGG 0.497867 7:+65227294 None:intergenic
TCGCAGGAAGCTCGTGCTGT+TGG 0.499037 7:-65225766 MsaT037789.1:intron
GAAGCATCTCATACCGGAAG+AGG 0.499604 7:+65227019 None:intergenic
GTATGATATGCTCATTAAGA+AGG 0.500449 7:-65225300 MsaT037789.1:CDS
TCGATATTACAGGACAAATC+CGG 0.502784 7:-65227667 MsaT037789.1:CDS
GCAGCATGTGTCTTGACTGA+GGG 0.510463 7:+65226604 None:intergenic
AGCACTTTCTCTTGCCCTAA+GGG 0.511703 7:+65225711 None:intergenic
CCTTCTTTGGTTGAAGCTAG+TGG 0.513297 7:-65226363 MsaT037789.1:CDS
AGTTGAAGAAAGTGCCCTTA+GGG 0.513617 7:-65225725 MsaT037789.1:CDS
AACGTCTGTGCTGCGAGTTA+GGG 0.514367 7:-65225448 MsaT037789.1:CDS
CTAGTGGTTATAACCCGAAA+AGG 0.518651 7:-65226347 MsaT037789.1:CDS
TGCTCATCGGATGTTCCAGC+TGG 0.519198 7:-65225345 MsaT037789.1:CDS
CAACTTTCATGGTATCCAGC+TGG 0.530057 7:+65225330 None:intergenic
ATCTTCAGATACACAGTTGG+AGG 0.533593 7:+65225422 None:intergenic
AGGAGCGGGTGAAGCGAAAA+GGG 0.534590 7:-65227717 MsaT037789.1:CDS
AAAAGGCATCCAATAGAGAC+CGG 0.535884 7:-65226567 MsaT037789.1:CDS
TCAGTCAAGACACATGCTGC+AGG 0.536875 7:-65226601 MsaT037789.1:CDS
ATCACCCTGCCCTTTCCCCA+TGG 0.538821 7:+65226873 None:intergenic
TGAGAAGGATTTAACATCAG+AGG 0.540149 7:-65226006 MsaT037789.1:CDS
CTTCAAAATCCGATGCTCAT+CGG 0.540300 7:-65225358 MsaT037789.1:CDS
CAGAGAAGAACTTCTTGCCA+TGG 0.541694 7:-65226890 MsaT037789.1:CDS
AGAAGGGCCGTCGTTTCTTG+AGG 0.547054 7:+65226380 None:intergenic
GGCAAGAGAAAGTGCTTATG+TGG 0.547957 7:-65225704 MsaT037789.1:CDS
CAAAAGCAATCATGCTTACA+GGG 0.548051 7:-65227570 MsaT037789.1:CDS
AGAGAAGAACTTCTTGCCAT+GGG 0.548697 7:-65226889 MsaT037789.1:CDS
CTTGCCATGGGGAAAGGGCA+GGG 0.550128 7:-65226877 MsaT037789.1:CDS
TGGTTATAACCCGAAAAGGC+AGG 0.554434 7:-65226343 MsaT037789.1:CDS
TGCATCTTCAGATACACAGT+TGG 0.554518 7:+65225419 None:intergenic
AGCAGAGTCCGCAGACATCA+AGG 0.554768 7:+65225654 None:intergenic
GGAAGAAATTCATACTTGAA+AGG 0.555899 7:-65226052 MsaT037789.1:CDS
TTCCAGTCGGGGCAAATGAG+AGG 0.561768 7:+65227305 None:intergenic
TGCAGCATGTGTCTTGACTG+AGG 0.563434 7:+65226603 None:intergenic
CTGGAACATCCGATGAGCAT+CGG 0.579223 7:+65225349 None:intergenic
GTCAATGAAATGGATGCTGC+AGG 0.580740 7:-65225595 MsaT037789.1:CDS
AAAGGCATCCAATAGAGACC+GGG 0.584827 7:-65226566 MsaT037789.1:CDS
ATTTCCTCCAGAATTTCTTG+AGG 0.585270 7:+65226413 None:intergenic
TCCAGTCGGGGCAAATGAGA+GGG 0.588487 7:+65227306 None:intergenic
ATATGCAAATCCATTTGAGA+AGG 0.591672 7:-65226021 MsaT037789.1:CDS
TGTGAGTTAGGTCAAGGAGC+GGG 0.592638 7:-65227731 MsaT037789.1:intron
TATGATATGCTCATTAAGAA+GGG 0.593230 7:-65225299 MsaT037789.1:CDS
CACTAGCTTCAACCAAAGAA+GGG 0.597471 7:+65226364 None:intergenic
CTGCTGATCCCAGACCTGCA+GGG 0.599308 7:-65225636 MsaT037789.1:CDS
CATTTGCCCCGACTGGAACG+CGG 0.599728 7:-65227300 MsaT037789.1:CDS
CAATCATGCTTACAGGGTCA+TGG 0.600463 7:-65227564 MsaT037789.1:intron
GAAGAAGTTGCTGAGCATGT+TGG 0.602780 7:-65227106 MsaT037789.1:CDS
GTCAAGACACATGCTGCAGG+TGG 0.607552 7:-65226598 MsaT037789.1:CDS
AAGCATCTCATACCGGAAGA+GGG 0.618355 7:+65227020 None:intergenic
CATACCGGAAGAGGGAAGCA+TGG 0.621701 7:+65227028 None:intergenic
GACTCCTCAAGAAATTCTGG+AGG 0.622144 7:-65226417 MsaT037789.1:CDS
GGGCAGGGTGATGACAAGAA+AGG 0.622437 7:-65226862 MsaT037789.1:intron
TCCAAATGCCTTGATGTCTG+CGG 0.623348 7:-65225662 MsaT037789.1:CDS
TATGTGGTCCCGAACAATTG+CGG 0.625973 7:-65225688 MsaT037789.1:CDS
CCAAAATCCTCAAGAAACGA+CGG 0.647065 7:-65226387 MsaT037789.1:CDS
TAAGTCAAAATTTGGGCACA+CGG 0.651063 7:+65227634 None:intergenic
TGTGTATCTGAAGATGCAAG+AGG 0.661370 7:-65225414 MsaT037789.1:CDS
GGCTTGATGAAAGAGAGCGC+AGG 0.663647 7:-65226073 MsaT037789.1:CDS
TGTGGTCCCGAACAATTGCG+GGG 0.670717 7:-65225686 MsaT037789.1:CDS
AAGGCATCCAATAGAGACCG+GGG 0.671703 7:-65226565 MsaT037789.1:CDS
AATGTATGGCATGAATAACT+GGG 0.679265 7:-65227128 MsaT037789.1:CDS
TTGTGAGTTAGGTCAAGGAG+CGG 0.679425 7:-65227732 MsaT037789.1:intron
TGTTGGAACAAAGAACAAAG+AGG 0.696475 7:-65227089 MsaT037789.1:CDS
GGATACCATGAAAGTTGACA+TGG 0.698778 7:-65225324 MsaT037789.1:CDS
GAGAAGAACTTCTTGCCATG+GGG 0.705178 7:-65226888 MsaT037789.1:CDS
GTTTAATGACTCTGACACTG+CGG 0.770377 7:-65226268 MsaT037789.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 65225283 65229754 65225283 ID=MsaG037789
Chr7 mRNA 65225283 65229754 65225283 ID=MsaT037789.1;Parent=MsaG037789
Chr7 exon 65225283 65225474 65225283 ID=MsaT037789.1.exon12;Parent=MsaT037789.1
Chr7 CDS 65225283 65225474 65225283 ID=cds.MsaT037789.1;Parent=MsaT037789.1
Chr7 exon 65225573 65225782 65225573 ID=MsaT037789.1.exon11;Parent=MsaT037789.1
Chr7 CDS 65225573 65225782 65225573 ID=cds.MsaT037789.1;Parent=MsaT037789.1
Chr7 exon 65225884 65226094 65225884 ID=MsaT037789.1.exon10;Parent=MsaT037789.1
Chr7 CDS 65225884 65226094 65225884 ID=cds.MsaT037789.1;Parent=MsaT037789.1
Chr7 exon 65226222 65226438 65226222 ID=MsaT037789.1.exon9;Parent=MsaT037789.1
Chr7 CDS 65226222 65226438 65226222 ID=cds.MsaT037789.1;Parent=MsaT037789.1
Chr7 exon 65226542 65226640 65226542 ID=MsaT037789.1.exon8;Parent=MsaT037789.1
Chr7 CDS 65226542 65226640 65226542 ID=cds.MsaT037789.1;Parent=MsaT037789.1
Chr7 exon 65226688 65226732 65226688 ID=MsaT037789.1.exon7;Parent=MsaT037789.1
Chr7 CDS 65226688 65226732 65226688 ID=cds.MsaT037789.1;Parent=MsaT037789.1
Chr7 exon 65226863 65226938 65226863 ID=MsaT037789.1.exon6;Parent=MsaT037789.1
Chr7 CDS 65226863 65226938 65226863 ID=cds.MsaT037789.1;Parent=MsaT037789.1
Chr7 exon 65227033 65227158 65227033 ID=MsaT037789.1.exon5;Parent=MsaT037789.1
Chr7 CDS 65227033 65227158 65227033 ID=cds.MsaT037789.1;Parent=MsaT037789.1
Chr7 exon 65227277 65227342 65227277 ID=MsaT037789.1.exon4;Parent=MsaT037789.1
Chr7 CDS 65227277 65227342 65227277 ID=cds.MsaT037789.1;Parent=MsaT037789.1
Chr7 exon 65227565 65227743 65227565 ID=MsaT037789.1.exon3;Parent=MsaT037789.1
Chr7 CDS 65227565 65227743 65227565 ID=cds.MsaT037789.1;Parent=MsaT037789.1
Chr7 exon 65228304 65228359 65228304 ID=MsaT037789.1.exon2;Parent=MsaT037789.1
Chr7 CDS 65228304 65228359 65228304 ID=cds.MsaT037789.1;Parent=MsaT037789.1
Chr7 exon 65229705 65229754 65229705 ID=MsaT037789.1.exon1;Parent=MsaT037789.1
Chr7 CDS 65229705 65229754 65229705 ID=cds.MsaT037789.1;Parent=MsaT037789.1
Gene Sequence

>MsaT037789.1

ATGGAGGTTTATCCTAAGAAAAAAGCATCGATCGAGGCATTAAAAGAGTTGTCAAGGAAAAAGAACAATGCTGCAAGTGGAAATAACTCAGAATCTGGAGCTGCAGGTCAAGGAGCGGGTGAAGCGAAAAGGGCTCTGTATCATTGCAATTACTGTAATATCGATATTACAGGACAAATCCGGATTAAGTGTGCCGTGTGCCCAAATTTTGACTTATGTGTTGAGTGCTTTTCTGTTGGAGCTGAGCTGACACCCCACAAAAGCAATCATGCTTACAGGGTCATGGATAATTTGTCTTTCCCTCTCATTTGCCCCGACTGGAACGCGGATGAAGAAATTTTGCTTCTAGAGGGACTTGAAATGTATGGCATGAATAACTGGGAAGAAGTTGCTGAGCATGTTGGAACAAAGAACAAAGAGGCATGCACTGAACACTATAGGATTGTGTACTTGGACTCTCCATGCTTCCCTCTTCCGGACATGTCTCATGTTGTTGGGAAAAGCAGAGAAGAACTTCTTGCCATGGGGAAAGGGCAGGGTGATGACAAGAAAGATAGATTTAGCGAATTGATGTATTTAGAATCATCTATGACTTCCAGATCGGATTCTGGGCCCTCAGTCAAGACACATGCTGCAGGTGGAACTAACAAAAAGGCATCCAATAGAGACCGGGGAAAAGGTGTGAATTTTATATTTGACTCCTCAAGAAATTCTGGAGGAAATAAGCCAAAATCCTCAAGAAACGACGGCCCTTCTTTGGTTGAAGCTAGTGGTTATAACCCGAAAAGGCAGGAATTTGATATTGAGTATGATAACGATGTTGAGCAATTACTCGCTGATATGGAGTTTAATGACTCTGACACTGCGGAAGAGATAGAGATCAAACTTCGTGTGATACGTATCTATAATAAAAGGCTTGATGAAAGAGAGCGCAGGAAGAAATTCATACTTGAAAGGAATTTGCTATATGCAAATCCATTTGAGAAGGATTTAACATCAGAGGAAAAGGCAATATGTCGTCAATATGATGTGTTCATGCGCTTTCATACTAAGGAAGCGCACAATGAATTGCTTAGAACCATTATCTCTGAACACAGAACTAAGAAAAGAATTCAAGAGCTTAAGGAAGCTCGTGCTGTTGGAAAAAAGAGAAGAACTAAAGTTGAAGAAAGTGCCCTTAGGGCAAGAGAAAGTGCTTATGTGGTCCCGAACAATTGCGGGGTTCCAAATGCCTTGATGTCTGCGGACTCTGCTGATCCCAGACCTGCAGGGCGAGCTACTTCAAGTTATGTCAATGAAATGGATGCTGCAGGAGCGAATTTACTTTCTGAAGCTGAGAAACGTCTGTGCTGCGAGTTAGGGTTGCCTCCAACTGTGTATCTGAAGATGCAAGAGGAGCTGTCAGTACAAATGATTGCTGGAAACGTCTCTTCAAAATCCGATGCTCATCGGATGTTCCAGCTGGATACCATGAAAGTTGACATGGTGTATGATATGCTCATTAAGAAGGGATTTGGTTCACCCTGA

Protein sequence

>MsaT037789.1

MEVYPKKKASIEALKELSRKKNNAASGNNSESGAAGQGAGEAKRALYHCNYCNIDITGQIRIKCAVCPNFDLCVECFSVGAELTPHKSNHAYRVMDNLSFPLICPDWNADEEILLLEGLEMYGMNNWEEVAEHVGTKNKEACTEHYRIVYLDSPCFPLPDMSHVVGKSREELLAMGKGQGDDKKDRFSELMYLESSMTSRSDSGPSVKTHAAGGTNKKASNRDRGKGVNFIFDSSRNSGGNKPKSSRNDGPSLVEASGYNPKRQEFDIEYDNDVEQLLADMEFNDSDTAEEIEIKLRVIRIYNKRLDERERRKKFILERNLLYANPFEKDLTSEEKAICRQYDVFMRFHTKEAHNELLRTIISEHRTKKRIQELKEARAVGKKRRTKVEESALRARESAYVVPNNCGVPNALMSADSADPRPAGRATSSYVNEMDAAGANLLSEAEKRLCCELGLPPTVYLKMQEELSVQMIAGNVSSKSDAHRMFQLDTMKVDMVYDMLIKKGFGSP*