AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013843

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013843 MtrunA17_Chr3g0099331 97.285 221 5 1 1 221 1 220 1.09e-163 452
MsaG013843 MtrunA17_Chr4g0057971 59.174 218 87 1 4 219 6 223 1.75e-95 280
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013843 AT5G63280.1 62.500 192 70 1 30 219 26 217 4.06e-92 271
MsaG013843 AT5G40710.1 61.497 187 72 0 44 230 44 230 6.87e-89 263
MsaG013843 AT5G40710.2 64.706 153 54 0 44 196 44 196 2.55e-75 228

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACACTCCAATTTACTTAATT+TGG 0.122652 3:-62143623 MsaT013843.1:intron
AATGTTATTGTTCAGAATTC+TGG 0.162180 3:-62144041 MsaT013843.1:intron
AAGAACAATGAATAAGATTT+TGG 0.184207 3:-62144996 None:intergenic
TCATACCAAATTAAGTAAAT+TGG 0.245660 3:+62143618 None:intergenic
TGTGACCATGAAATTAATTC+TGG 0.266563 3:-62142620 MsaT013843.1:CDS
CCTGCAGCGAGCCGGCTTCA+TGG 0.327309 3:-62142429 MsaT013843.1:intron
GCTGCAGGACCCTCGTTAAC+TGG 0.349350 3:+62142444 None:intergenic
TTGACCCAGAATTAATTTCA+TGG 0.350995 3:+62142615 None:intergenic
TCGTGTTCTTGTTGCTTACA+AGG 0.379404 3:-62144955 MsaT013843.1:CDS
TCAAATTACCCTGCGCCCTC+TGG 0.382051 3:+62142259 None:intergenic
TTATTTCTTGCTGCAGCAGC+AGG 0.412858 3:+62142575 None:intergenic
TCTCTATATATATCATTGTC+AGG 0.427562 3:+62143751 None:intergenic
ATTGTTCAGAATTCTGGATC+AGG 0.460914 3:-62144035 MsaT013843.1:intron
CCATGAAGCCGGCTCGCTGC+AGG 0.478890 3:+62142429 None:intergenic
GCAGTATTTGACGACATTTG+TGG 0.483411 3:-62143815 MsaT013843.1:intron
GAGAAAGAAGTAGAATAGCT+TGG 0.485109 3:-62143979 MsaT013843.1:CDS
TGTGATGCTCACACCTGCAC+TGG 0.492800 3:-62142299 MsaT013843.1:CDS
GTGACCATGAAATTAATTCT+GGG 0.499220 3:-62142619 MsaT013843.1:CDS
GCTCACACCTGCACTGGACG+TGG 0.502873 3:-62142293 MsaT013843.1:CDS
AGGCTTTCCACGTCCAGTGC+AGG 0.511555 3:+62142286 None:intergenic
CTCATATAGATATAAATGAA+TGG 0.514723 3:-62143711 MsaT013843.1:CDS
CAATGATATATATAGAGATC+AGG 0.516644 3:-62143746 MsaT013843.1:CDS
ACCCTGCGCCCTCTGGAGAA+AGG 0.523388 3:+62142266 None:intergenic
AGCCTTTCTCCAGAGGGCGC+AGG 0.526816 3:-62142268 MsaT013843.1:CDS
ACGAGGGTCCTGCAGCGAGC+CGG 0.531828 3:-62142437 MsaT013843.1:CDS
ATAATATCTCAAGAAGGTGC+AGG 0.547108 3:-62143780 MsaT013843.1:CDS
GCCTTTCTCCAGAGGGCGCA+GGG 0.563120 3:-62142267 MsaT013843.1:intron
TGGAAAACAACTATCAGCTA+TGG 0.566317 3:+62142464 None:intergenic
CACATACATCTGCTAAGCAC+CGG 0.569311 3:+62142654 None:intergenic
CTCTATATATATCATTGTCA+GGG 0.590660 3:+62143752 None:intergenic
ATATTGAAATACCATGAAGC+CGG 0.593494 3:+62142418 None:intergenic
TTGCAGCATCTGAATCTACA+TGG 0.597085 3:+62144468 None:intergenic
CGGTGCTTAGCAGATGTATG+TGG 0.600256 3:-62142653 MsaT013843.1:CDS
ATGTAGATTCAGATGCTGCA+AGG 0.607887 3:-62144466 MsaT013843.1:intron
CGTGGAAAGCCTTTCTCCAG+AGG 0.614403 3:-62142275 MsaT013843.1:CDS
AGCTTGGAAGATCGTTCAAG+AGG 0.626181 3:-62143963 MsaT013843.1:intron
AAGAAATAAGCATATATGTG+AGG 0.634147 3:-62142561 MsaT013843.1:intron
GTGGAAAGCCTTTCTCCAGA+GGG 0.645090 3:-62142274 MsaT013843.1:CDS
GCTGAATCCAGAAAGAAAGC+CGG 0.646951 3:-62142673 MsaT013843.1:intron
GATATAAATGAATGGCAGTG+TGG 0.647971 3:-62143703 MsaT013843.1:CDS
CTTACATCATCATCAGTGTG+TGG 0.677365 3:+62144920 None:intergenic
ATTCTGGATCAGGAGCAGAG+TGG 0.757422 3:-62144025 MsaT013843.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 62141925 62145011 62141925 ID=MsaG013843
Chr3 mRNA 62141925 62145011 62141925 ID=MsaT013843.1;Parent=MsaG013843
Chr3 exon 62141925 62141954 62141925 ID=MsaT013843.1.exon8;Parent=MsaT013843.1
Chr3 CDS 62141925 62141954 62141925 ID=cds.MsaT013843.1;Parent=MsaT013843.1
Chr3 exon 62142268 62142341 62142268 ID=MsaT013843.1.exon7;Parent=MsaT013843.1
Chr3 CDS 62142268 62142341 62142268 ID=cds.MsaT013843.1;Parent=MsaT013843.1
Chr3 exon 62142430 62142487 62142430 ID=MsaT013843.1.exon6;Parent=MsaT013843.1
Chr3 CDS 62142430 62142487 62142430 ID=cds.MsaT013843.1;Parent=MsaT013843.1
Chr3 exon 62142562 62142684 62142562 ID=MsaT013843.1.exon5;Parent=MsaT013843.1
Chr3 CDS 62142562 62142684 62142562 ID=cds.MsaT013843.1;Parent=MsaT013843.1
Chr3 exon 62143624 62143833 62143624 ID=MsaT013843.1.exon4;Parent=MsaT013843.1
Chr3 CDS 62143624 62143833 62143624 ID=cds.MsaT013843.1;Parent=MsaT013843.1
Chr3 exon 62143964 62144048 62143964 ID=MsaT013843.1.exon3;Parent=MsaT013843.1
Chr3 CDS 62143964 62144048 62143964 ID=cds.MsaT013843.1;Parent=MsaT013843.1
Chr3 exon 62144467 62144492 62144467 ID=MsaT013843.1.exon2;Parent=MsaT013843.1
Chr3 CDS 62144467 62144492 62144467 ID=cds.MsaT013843.1;Parent=MsaT013843.1
Chr3 exon 62144925 62145011 62144925 ID=MsaT013843.1.exon1;Parent=MsaT013843.1
Chr3 CDS 62144925 62145011 62144925 ID=cds.MsaT013843.1;Parent=MsaT013843.1
Gene Sequence

>MsaT013843.1

ATGAATAAGATTTTGGTTTGGTTTCAACGATTTGTCGTGTTCTTGTTGCTTACAAGGATTTCTTCACTTCCACACACTGATGATGATGGCCATGTAGATTCAGATGCTGCAAGAATTCTGGATCAGGAGCAGAGTGGCGATCATCAAATACATTGCTCTAGAGAAAGAAGTAGAATAGCTTGGAAGATCGTTCAAGAGTATTTGACGACATTTGTGGAGAAAGAAAAATATAATATCTCAAGAAGGTGCAGGCTTCACCCTGACAATGATATATATAGAGATCAGGAACAACATAAATCTCATATAGATATAAATGAATGGCAGTGTGGATACTGTAAGAAAACTTTCTACGAAGAGAAACATCTTGATCAACATTTCGACAACAGACACTCCAATTTACTTAATTTGAAAGAAAGCCGGTGCTTAGCAGATGTATGTGGAGCACTGCACTGTGACCATGAAATTAATTCTGGGTCAAAAAAATCAAAGTGCAATCCTGCTGCTGCAGCAAGAAATAAGCATATATGTGAGACCATAGCTGATAGTTGTTTTCCAGTTAACGAGGGTCCTGCAGCGAGCCGGCTTCATGAATTCTTCTTGCATCAATTCTGTGATGCTCACACCTGCACTGGACGTGGAAAGCCTTTCTCCAGAGGGCGCAGGGATTCAGAAGTTCTGAAGAACATACTTTGA
Protein sequence

>MsaT013843.1

MNKILVWFQRFVVFLLLTRISSLPHTDDDGHVDSDAARILDQEQSGDHQIHCSRERSRIAWKIVQEYLTTFVEKEKYNISRRCRLHPDNDIYRDQEQHKSHIDINEWQCGYCKKTFYEEKHLDQHFDNRHSNLLNLKESRCLADVCGALHCDHEINSGSKKSKCNPAAAARNKHICETIADSCFPVNEGPAASRLHEFFLHQFCDAHTCTGRGKPFSRGRRDSEVLKNIL*