AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004787

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004787 MtrunA17_Chr1g0187171 57.317 82 28 1 183 257 1 82 5.18e-22 88.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 78 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACAAGAATACTCTTGAAAT+TGG 0.258263 1:-74004513 MsaT004787.1:CDS
ATTATACCACCTAAAGAAAT+TGG 0.271274 1:-74004755 MsaT004787.1:CDS
GGTCATCAAGATCTCGGATA+TGG 0.283671 1:-74004096 MsaT004787.1:CDS
GCAACCCGCACGGAGGTATA+TGG 0.300074 1:-74000871 MsaT004787.1:CDS
ACCTAAAGAAATTGGAGGTT+TGG 0.306143 1:-74004747 MsaT004787.1:CDS
CCCAAACCTCCAATTTCTTT+AGG 0.306396 1:+74004746 None:intergenic
CGGGATTGGCTGAATGGTTC+TGG 0.308817 1:-74000461 MsaT004787.1:CDS
CTGGACTAAGCGAACTTTAG+AGG 0.324125 1:-74000442 MsaT004787.1:CDS
GAAAACGTTGTAAGATACTT+TGG 0.357107 1:-74004482 MsaT004787.1:CDS
TTGTCTGTTCTCACGCTGTA+TGG 0.359565 1:-74000834 MsaT004787.1:CDS
CCTAAAGAAATTGGAGGTTT+GGG 0.360479 1:-74004746 MsaT004787.1:CDS
AAGAATTTCATGCTATGAAA+AGG 0.387646 1:-74004784 None:intergenic
CTTTATCAGCTAGAGATTGA+TGG 0.401806 1:+74004537 None:intergenic
AGCGAGAAGTTGCAGTTAAA+CGG 0.403450 1:-74004571 MsaT004787.1:CDS
AAAACGTTGTAAGATACTTT+GGG 0.411300 1:-74004481 MsaT004787.1:CDS
TGTCTGTTCTCACGCTGTAT+GGG 0.426545 1:-74000833 MsaT004787.1:CDS
TTTGTGGTTTCGGATCTCTA+TGG 0.436360 1:+74004168 None:intergenic
AGATCGGATCTTAAAACTAT+AGG 0.445449 1:-74004689 MsaT004787.1:CDS
CTGATACGGGATTGGCTGAA+TGG 0.463014 1:-74000467 MsaT004787.1:CDS
AACAATGGGAATGGTACTCT+TGG 0.470478 1:-74004050 MsaT004787.1:intron
CAACCCGCACGGAGGTATAT+GGG 0.472991 1:-74000870 MsaT004787.1:CDS
AGGTCGTTCTTCAGAACAAT+GGG 0.486817 1:-74004064 MsaT004787.1:CDS
CCCAACACCTTTCAGTTGCA+AGG 0.487759 1:+74004427 None:intergenic
AGCTGAGCAGCATAACTCAT+TGG 0.494981 1:-74004117 MsaT004787.1:CDS
GTCATCAAGATCTCGGATAT+GGG 0.497481 1:-74004095 MsaT004787.1:CDS
CTCATTGGTCATCAAGATCT+CGG 0.502816 1:-74004102 MsaT004787.1:CDS
TCCATGTTGCCCGTAGGCTG+TGG 0.508878 1:-74000809 MsaT004787.1:intron
CTGCTCCTCCGCTTGATGTA+CGG 0.512680 1:+74000962 None:intergenic
AGAATTTCATGCTATGAAAA+GGG 0.515221 1:-74004783 None:intergenic
GTCAAATGAAGTGATCGGAC+AGG 0.518900 1:-74004654 MsaT004787.1:CDS
GTGATCGGACAGGGCAGTCA+TGG 0.529144 1:-74004644 MsaT004787.1:CDS
GGTAGAGCAGCATGGACTTG+TGG 0.530271 1:-74000925 MsaT004787.1:CDS
TGTGGCAGTAGAGCAGCATA+TGG 0.536151 1:-74000907 MsaT004787.1:CDS
ACCTTGCAACTGAAAGGTGT+TGG 0.540384 1:-74004428 MsaT004787.1:CDS
ATACCACCTAAAGAAATTGG+AGG 0.545629 1:-74004752 MsaT004787.1:CDS
TTGCGTACCTTGCAACTGAA+AGG 0.548539 1:-74004434 MsaT004787.1:CDS
TATTCAGTGGTTCGGTGCAG+AGG 0.548759 1:-74001053 MsaT004787.1:intron
GGGTTGTGTAATCTCAGTGT+TGG 0.549366 1:-74004726 MsaT004787.1:CDS
AAACCTCCAATTTCTTTAGG+TGG 0.550492 1:+74004749 None:intergenic
GTGGTTCGGTGCAGAGGACG+AGG 0.555533 1:-74001047 MsaT004787.1:CDS
GTCTGTTCTCACGCTGTATG+GGG 0.563166 1:-74000832 MsaT004787.1:CDS
GTGAGAACAGACAAGTCATA+AGG 0.564617 1:+74000843 None:intergenic
TAAAACTATAGGCAATATTG+AGG 0.571639 1:-74004678 MsaT004787.1:CDS
ACCACAGCCTACGGGCAACA+TGG 0.578519 1:+74000808 None:intergenic
TTCAGCCAATCCCGTATCAG+AGG 0.578858 1:+74000470 None:intergenic
AAGGTCGTTCTTCAGAACAA+TGG 0.580530 1:-74004065 MsaT004787.1:CDS
CCTTGCAACTGAAAGGTGTT+GGG 0.583647 1:-74004427 MsaT004787.1:intron
AATTTAAAGGTACCATCACA+TGG 0.584596 1:-74000530 MsaT004787.1:CDS
TCAGCCAATCCCGTATCAGA+GGG 0.588947 1:+74000471 None:intergenic
CAGCTAGAGATTGATGGCCG+CGG 0.593503 1:+74004543 None:intergenic
GCTGACCATACCACAGCCTA+CGG 0.598376 1:+74000799 None:intergenic
TCAAATGAAGTGATCGGACA+GGG 0.605747 1:-74004653 MsaT004787.1:CDS
GGAGTGCAGTGCAGATAGTG+AGG 0.610414 1:-74004460 MsaT004787.1:CDS
ACAAAACTATCAACGACGTG+AGG 0.618909 1:-74001003 MsaT004787.1:CDS
AATCAAGAGGTAGAGCAGCA+TGG 0.619642 1:-74000933 MsaT004787.1:CDS
CTCGGATATGGGAATAAGCA+AGG 0.623739 1:-74004084 MsaT004787.1:CDS
CAAAACTATCAACGACGTGA+GGG 0.628124 1:-74001002 MsaT004787.1:CDS
GGAGCAGCTCATAAATCAAG+AGG 0.629330 1:-74000946 MsaT004787.1:CDS
AGCCAATCCCGTATCAGAGG+GGG 0.629407 1:+74000473 None:intergenic
GTTCTTCAGAACAATGGGAA+TGG 0.629454 1:-74004059 MsaT004787.1:CDS
GCAGTTAAACGGCTTATCCG+CGG 0.633051 1:-74004560 MsaT004787.1:CDS
TCAACGAGCCGTACATCAAG+CGG 0.634815 1:-74000970 MsaT004787.1:CDS
AAACTATCAACGACGTGAGG+GGG 0.635209 1:-74001000 MsaT004787.1:CDS
CCACCCATATACCTCCGTGC+GGG 0.635514 1:+74000867 None:intergenic
AAAACTATCAACGACGTGAG+GGG 0.651204 1:-74001001 MsaT004787.1:CDS
ATGGGGTCCATGTTGCCCGT+AGG 0.653066 1:-74000815 MsaT004787.1:CDS
CTGACCATACCACAGCCTAC+GGG 0.656366 1:+74000800 None:intergenic
GAGGTGTCAAATGAAGTGAT+CGG 0.660034 1:-74004659 MsaT004787.1:CDS
GGTGGCAAGATTATACGCAT+AGG 0.661865 1:-74001026 MsaT004787.1:CDS
CCCGCACGGAGGTATATGGG+TGG 0.663874 1:-74000867 MsaT004787.1:CDS
GTTCGGTGCAGAGGACGAGG+TGG 0.671331 1:-74001044 MsaT004787.1:CDS
ATTTAAAGGTACCATCACAT+GGG 0.678634 1:-74000529 MsaT004787.1:CDS
ACGAGCCGTACATCAAGCGG+AGG 0.680738 1:-74000967 MsaT004787.1:CDS
TTTAAATTTATGTAGGAACG+CGG 0.695519 1:-74000562 MsaT004787.1:intron
TCCACCCATATACCTCCGTG+CGG 0.705620 1:+74000866 None:intergenic
CAGCCAATCCCGTATCAGAG+GGG 0.729174 1:+74000472 None:intergenic
AAGATGTAGAGCAACCCGCA+CGG 0.729322 1:-74000881 MsaT004787.1:CDS
ATGTAGAGCAACCCGCACGG+AGG 0.766749 1:-74000878 MsaT004787.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 74000437 74004792 74000437 ID=MsaG004787
Chr1 mRNA 74000437 74004792 74000437 ID=MsaT004787.1;Parent=MsaG004787
Chr1 exon 74000437 74000569 74000437 ID=MsaT004787.1.exon4;Parent=MsaT004787.1
Chr1 CDS 74000437 74000569 74000437 ID=cds.MsaT004787.1;Parent=MsaT004787.1
Chr1 exon 74000810 74001068 74000810 ID=MsaT004787.1.exon3;Parent=MsaT004787.1
Chr1 CDS 74000810 74001068 74000810 ID=cds.MsaT004787.1;Parent=MsaT004787.1
Chr1 exon 74004051 74004235 74004051 ID=MsaT004787.1.exon2;Parent=MsaT004787.1
Chr1 CDS 74004051 74004235 74004051 ID=cds.MsaT004787.1;Parent=MsaT004787.1
Chr1 exon 74004428 74004792 74004428 ID=MsaT004787.1.exon1;Parent=MsaT004787.1
Chr1 CDS 74004428 74004792 74004428 ID=cds.MsaT004787.1;Parent=MsaT004787.1
Gene Sequence

>MsaT004787.1

ATGAAAAGGGAAACAATTATACCACCTAAAGAAATTGGAGGTTTGGGTTGTGTAATCTCAGTGTTGGACATTGAGCCAAAAAGATCGGATCTTAAAACTATAGGCAATATTGAGGTGTCAAATGAAGTGATCGGACAGGGCAGTCATGGTACTTTTGTTTATGCTGGATACTTTAAACCTTCAAATAAAGAAATTGAAAAGCGAGAAGTTGCAGTTAAACGGCTTATCCGCGGCCATCAATCTCTAGCTGATAAAGAGACAAGAATACTCTTGAAATTGGAAAATCATGAAAACGTTGTAAGATACTTTGGGAGTGCAGTGCAGATAGTGAGGATTTTGCGTACCTTGCAACTGAAAGGTGTTGGGGGGATTGTGAAGGGGATACGGTTTTTGCACGGAAAGAAAATTATCCATAGAGATCCGAAACCACAAAACATTCTGTTGTTAAAAAATGAAGCTGAAGCTGAGCAGCATAACTCATTGGTCATCAAGATCTCGGATATGGGAATAAGCAAGGTCGTTCTTCAGAACAATGGGAATGGTACTCTTGTGGTTCGGTGCAGAGGACGAGGTGGCAAGATTATACGCATAGGACAAAACTATCAACGACGTGAGGGGGTTCGGGATCAACGAGCCGTACATCAAGCGGAGGAGCAGCTCATAAATCAAGAGGTAGAGCAGCATGGACTTGTGGCAGTAGAGCAGCATATGGATCAAGATGTAGAGCAACCCGCACGGAGGTATATGGGTGGACCTTATGACTTGTCTGTTCTCACGCTGTATGGGGTCCATGTTGCCCGTAGGCTGTGGAACGCGGTAAAAAAAAAATTTAAAGGTACCATCACATGGGAAAAAGTTGGAAGATTGGGTTCCTCCACAACTTCCCCCTCTGATACGGGATTGGCTGAATGGTTCTGGACTAAGCGAACTTTAGAGGAGTAG
Protein sequence

>MsaT004787.1

MKRETIIPPKEIGGLGCVISVLDIEPKRSDLKTIGNIEVSNEVIGQGSHGTFVYAGYFKPSNKEIEKREVAVKRLIRGHQSLADKETRILLKLENHENVVRYFGSAVQIVRILRTLQLKGVGGIVKGIRFLHGKKIIHRDPKPQNILLLKNEAEAEQHNSLVIKISDMGISKVVLQNNGNGTLVVRCRGRGGKIIRIGQNYQRREGVRDQRAVHQAEEQLINQEVEQHGLVAVEQHMDQDVEQPARRYMGGPYDLSVLTLYGVHVARRLWNAVKKKFKGTITWEKVGRLGSSTTSPSDTGLAEWFWTKRTLEE*