AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG037530

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037530 MtrunA17_Chr7g0236891 95.930 172 6 1 1 172 1 171 9.21e-120 335
MsaG037530 MtrunA17_Chr3g0094861 43.293 164 87 1 9 172 161 318 1.04e-32 118
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037530 AT3G17609.2 58.955 134 42 3 40 168 22 147 2.63e-43 141
MsaG037530 AT3G17609.3 60.163 123 40 3 49 168 2 118 2.35e-40 132
MsaG037530 AT3G17609.1 74.444 90 22 1 80 168 44 133 5.47e-40 132
MsaG037530 AT3G17609.4 74.444 90 22 1 80 168 43 132 6.45e-40 132
MsaG037530 AT5G11260.1 48.175 137 54 3 32 162 26 151 1.65e-32 114
MsaG037530 AT5G11260.2 48.120 133 52 3 32 158 26 147 8.51e-30 107

Find 42 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGTTACATTGCTTTGATTA+TGG 0.188466 7:-59977046 None:intergenic
TGAGATACGTTCTTCTAAAT+TGG 0.194375 7:-59977619 None:intergenic
TTTGATTTGTTAACTCAAAA+TGG 0.207194 7:-59977016 None:intergenic
CTTCATCTTCATCTTCTTCA+TGG 0.209387 7:+59975927 MsaT037530.1:CDS
TCTTCCACGGCGGCGCTTGC+CGG 0.245919 7:-59977093 None:intergenic
CTTCCACGGCGGCGCTTGCC+GGG 0.275869 7:-59977092 None:intergenic
CAAATAGGTTGCTAAGGAAT+AGG 0.306771 7:+59977511 MsaT037530.1:intron
CTTCATCTTCTTCATGGAAT+AGG 0.316122 7:+59975933 MsaT037530.1:CDS
TCATTGCTCTCATCAACTTT+GGG 0.320674 7:-59977812 None:intergenic
TTCATTGCTCTCATCAACTT+TGG 0.343653 7:-59977813 None:intergenic
CATTGTGTACCTTCCACATC+TGG 0.376399 7:-59976984 None:intergenic
TTCCTTCATCTCAGTATCAT+TGG 0.395557 7:-59975882 None:intergenic
TCGGAGCATGGCGTTCTCAT+TGG 0.400151 7:-59977649 None:intergenic
CGTCTATGTTCCTTGTCTGC+AGG 0.409298 7:-59977119 None:intergenic
CCTATGCCTCCACATAGATT+TGG 0.410410 7:+59975962 MsaT037530.1:CDS
AAATAGGTTGCTAAGGAATA+GGG 0.428080 7:+59977512 MsaT037530.1:intron
ATGAAGGAAGCTGCAACAAC+AGG 0.468007 7:+59975896 MsaT037530.1:CDS
CAACTTCAAGCAGGCTTCCC+CGG 0.470731 7:+59977074 MsaT037530.1:CDS
GTCTATGTTCCTTGTCTGCA+GGG 0.478530 7:-59977118 None:intergenic
AGCCAATGATACTGAGATGA+AGG 0.496590 7:+59975880 MsaT037530.1:CDS
TGTCTGCAGGGTTTCTTCCA+CGG 0.500164 7:-59977106 None:intergenic
AATCTATGTGGAGGCATAGG+AGG 0.514631 7:-59975959 None:intergenic
AAAGTTGATGAGAGCAATGA+AGG 0.515891 7:+59977815 MsaT037530.1:CDS
TTATGTTACCTTTCGGAGCA+TGG 0.517776 7:-59977661 None:intergenic
TTCCACGGCGGCGCTTGCCG+GGG 0.522944 7:-59977091 None:intergenic
CCAAATCTATGTGGAGGCAT+AGG 0.526031 7:-59975962 None:intergenic
AGGAACATAGACGTCTCAAA+AGG 0.535376 7:+59977129 MsaT037530.1:CDS
CATGAAGAAGATGAAGATGA+AGG 0.548208 7:-59975926 None:intergenic
GTGTTACAAATAGGTTGCTA+AGG 0.552163 7:+59977505 MsaT037530.1:intron
TGGAAGAAACCCTGCAGACA+AGG 0.552255 7:+59977109 MsaT037530.1:CDS
ACCGATGCTCAACTTCAAGC+AGG 0.560214 7:+59977065 MsaT037530.1:CDS
GTTGCTAAGGAATAGGGTCT+CGG 0.571634 7:+59977518 MsaT037530.1:CDS
GCCTGCTTGAAGTTGAGCAT+CGG 0.588947 7:-59977066 None:intergenic
ATCTATGTGGAGGCATAGGA+GGG 0.596628 7:-59975958 None:intergenic
TTCCCCGGCAAGCGCCGCCG+TGG 0.608180 7:+59977089 MsaT037530.1:CDS
TGAGAACGCCATGCTCCGAA+AGG 0.615500 7:+59977653 MsaT037530.1:CDS
AAGGAAGCTGCAACAACAGG+AGG 0.617328 7:+59975899 MsaT037530.1:CDS
TCTCTTCGAAGTTCCAGATG+TGG 0.623741 7:+59976971 MsaT037530.1:CDS
CACTTACCAAATCTATGTGG+AGG 0.634191 7:-59975968 None:intergenic
TGACACTTACCAAATCTATG+TGG 0.640404 7:-59975971 None:intergenic
CTGCAGGGTTTCTTCCACGG+CGG 0.647406 7:-59977103 None:intergenic
TTCGAAGTTCCAGATGTGGA+AGG 0.651907 7:+59976975 MsaT037530.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 59975866 59977841 59975866 ID=MsaG037530
Chr7 mRNA 59975866 59977841 59975866 ID=MsaT037530.1;Parent=MsaG037530
Chr7 exon 59975866 59975983 59975866 ID=MsaT037530.1.exon1;Parent=MsaT037530.1
Chr7 CDS 59975866 59975983 59975866 ID=cds.MsaT037530.1;Parent=MsaT037530.1
Chr7 exon 59976955 59977150 59976955 ID=MsaT037530.1.exon2;Parent=MsaT037530.1
Chr7 CDS 59976955 59977150 59976955 ID=cds.MsaT037530.1;Parent=MsaT037530.1
Chr7 exon 59977518 59977674 59977518 ID=MsaT037530.1.exon3;Parent=MsaT037530.1
Chr7 CDS 59977518 59977674 59977518 ID=cds.MsaT037530.1;Parent=MsaT037530.1
Chr7 exon 59977794 59977841 59977794 ID=MsaT037530.1.exon4;Parent=MsaT037530.1
Chr7 CDS 59977794 59977841 59977794 ID=cds.MsaT037530.1;Parent=MsaT037530.1
Gene Sequence

>MsaT037530.1

ATGTCTCTTTCAAGAGCCAATGATACTGAGATGAAGGAAGCTGCAACAACAGGAGGAGCACCTTCATCTTCATCTTCTTCATGGAATAGGCTCCCTCCTATGCCTCCACATAGATTTGACGATAGCGATGAAGATCTCTTCGAAGTTCCAGATGTGGAAGGTACACAATGTCAAAGTGTCCATTTTGAGTTAACAAATCAAAATAGTAACCATAATCAAAGCAATGTAACCGATGCTCAACTTCAAGCAGGCTTCCCCGGCAAGCGCCGCCGTGGAAGAAACCCTGCAGACAAGGAACATAGACGTCTCAAAAGGTTGCTAAGGAATAGGGTCTCGGCCCAACAAGCCCGTGAAAGAAAAAAAGTGTACGTGAATGACTTAGAATCAAGAGCTAAAGAGTTTGAAGATAAGAACTCCAATTTAGAAGAACGTATCTCAACTTTGACCAATGAGAACGCCATGCTCCGAAAGGTTCTTATGAACACTAGACCCAAAGTTGATGAGAGCAATGAAGGTTAG
Protein sequence

>MsaT037530.1

MSLSRANDTEMKEAATTGGAPSSSSSSWNRLPPMPPHRFDDSDEDLFEVPDVEGTQCQSVHFELTNQNSNHNQSNVTDAQLQAGFPGKRRRGRNPADKEHRRLKRLLRNRVSAQQARERKKVYVNDLESRAKEFEDKNSNLEERISTLTNENAMLRKVLMNTRPKVDESNEG*