AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG030850

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030850 MtrunA17_Chr6g0457431 94.231 156 9 0 1 156 1 156 1.80e-108 311
MsaG030850 MtrunA17_Chr7g0215281 59.355 310 85 7 1 278 1 301 6.99e-106 309
MsaG030850 MtrunA17_Chr6g0469271 48.018 227 94 8 1 208 1 222 3.83e-63 198
MsaG030850 MtrunA17_Chr6g0470651 44.934 227 101 8 1 208 1 222 1.53e-56 181
MsaG030850 MtrunA17_Chr6g0470631 45.133 226 94 9 1 204 1 218 6.25e-55 177
MsaG030850 MtrunA17_Chr4g0053911 65.455 110 38 0 3 112 1 110 1.29e-52 171
MsaG030850 MtrunA17_Chr5g0401401 51.282 156 65 2 3 158 1 145 9.43e-51 166
MsaG030850 MtrunA17_Chr1g0209841 46.114 193 79 6 1 182 1 179 1.88e-50 166
MsaG030850 MtrunA17_Chr1g0207471 60.952 105 41 0 3 107 1 105 1.69e-45 152
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG030850 AT3G02550.1 51.773 282 109 6 1 274 1 263 2.45e-89 266
MsaG030850 AT1G67100.1 74.342 152 32 2 1 150 1 147 2.90e-78 237
MsaG030850 AT1G68510.1 49.206 252 98 6 1 241 1 233 2.49e-71 219
MsaG030850 AT4G37540.1 64.865 111 39 0 3 113 1 111 1.24e-50 167
MsaG030850 AT3G49940.1 64.545 110 39 0 3 112 1 110 1.36e-50 167
MsaG030850 AT5G67420.2 61.818 110 42 0 3 112 1 110 5.11e-50 166
MsaG030850 AT5G67420.1 61.818 110 42 0 3 112 1 110 5.11e-50 166

Find 91 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCGACGATTCATGGCTTT+TGG 0.201879 6:-15116806 None:intergenic
AGGATCGTGAACCCTATTTA+TGG 0.235139 6:+15116499 MsaT030850.1:CDS
AGTCCCACGGACCCATAAAT+AGG 0.249387 6:-15116511 None:intergenic
TTTGCTTGGCTTCGGCTTCA+TGG 0.277744 6:-15116734 None:intergenic
TTTGGACCGGTCCATCTCTT+TGG 0.293038 6:-15116788 None:intergenic
CTCATCAACCTCATCAATTC+TGG 0.302253 6:+15115618 MsaT030850.1:CDS
ACTCCGACTCATCATGAAAA+AGG 0.304175 6:-15116879 None:intergenic
GTCCATCTCTTTGGCCGAAT+TGG 0.316087 6:-15116779 None:intergenic
GCTGGCTCAGCGACGATTCA+TGG 0.322687 6:-15116813 None:intergenic
GAAGAGGAAAATTGTGTTGA+AGG 0.355819 6:+15117038 MsaT030850.1:CDS
AAAGAAGTTGGGTCTGGTTC+AGG 0.369264 6:+15116754 MsaT030850.1:CDS
CCAACTTCTTTGCTTGGCTT+CGG 0.382494 6:-15116742 None:intergenic
TTGTAACATAAGACCATGTT+TGG 0.384670 6:+15115524 MsaT030850.1:CDS
TTTCTTCCAAAGTTGAGCTT+GGG 0.385887 6:+15117070 MsaT030850.1:CDS
CCAGACCCAACTTCTTTGCT+TGG 0.386538 6:-15116748 None:intergenic
TGACACGTGGCGTATGTCAT+AGG 0.396608 6:-15116653 None:intergenic
TGAGAGGGCCCCACCCTTCA+AGG 0.398225 6:+15116630 MsaT030850.1:CDS
GTTGGCTTGGAGCTGAGGCT+TGG 0.400046 6:+15116973 MsaT030850.1:CDS
CGCTCACACCTTCCTCAGCT+TGG 0.407332 6:-15116945 None:intergenic
GTTTCTTCCAAAGTTGAGCT+TGG 0.412969 6:+15117069 MsaT030850.1:CDS
CCACTTTCACTATCTTTACC+TGG 0.420513 6:-15116835 None:intergenic
TTTCACTATCTTTACCTGGC+TGG 0.430951 6:-15116831 None:intergenic
GTCAAGCCCAAGCTCAACTT+TGG 0.432757 6:-15117076 None:intergenic
GCGTATGTCATAGGCCTTGA+AGG 0.433445 6:-15116644 None:intergenic
CGGAGGAGACTAAGCAGGTT+AGG 0.436816 6:+15116689 MsaT030850.1:CDS
GTAGCATTAGCTTGTGATTG+AGG 0.440070 6:-15115561 None:intergenic
CTTCATGGCTCGTTTGATGC+GGG 0.449668 6:-15116719 None:intergenic
GGATCGTGAACCCTATTTAT+GGG 0.455002 6:+15116500 MsaT030850.1:CDS
GTCCCACGGACCCATAAATA+GGG 0.458198 6:-15116510 None:intergenic
CTGAGGAAGGTGTGAGCGAT+GGG 0.462871 6:+15116950 MsaT030850.1:CDS
TGTGAGCGATGGGGTTGGCT+TGG 0.465281 6:+15116960 MsaT030850.1:CDS
CTTACCTTAGCTTGTGACTC+AGG 0.472502 6:-15116907 None:intergenic
CATTGCTCTATGAGGCTTGT+GGG 0.474610 6:+15116476 MsaT030850.1:CDS
GTCTGGTTCAGGGTCCAATT+CGG 0.477350 6:+15116765 MsaT030850.1:CDS
CTGAGTCACAAGCTAAGGTA+AGG 0.488936 6:+15116908 MsaT030850.1:CDS
CGGAAGCTGCTGAAAATGAG+AGG 0.496600 6:+15116614 MsaT030850.1:CDS
GTCATAGGCCTTGAAGGGTG+GGG 0.497567 6:-15116638 None:intergenic
ATGGGGTTGGCTTGGAGCTG+AGG 0.499585 6:+15116968 MsaT030850.1:CDS
CGAAGCCAAGCAAAGAAGTT+GGG 0.505704 6:+15116743 MsaT030850.1:CDS
TGTCATAGGCCTTGAAGGGT+GGG 0.515150 6:-15116639 None:intergenic
GTCCAATTCGGCCAAAGAGA+TGG 0.515470 6:+15116777 MsaT030850.1:CDS
CCGAAGCCAAGCAAAGAAGT+TGG 0.516761 6:+15116742 MsaT030850.1:CDS
GCCGATCACTCCGATAGCTT+CGG 0.516934 6:+15116594 MsaT030850.1:CDS
GAATCGTCGCTGAGCCAGCC+AGG 0.516935 6:+15116817 MsaT030850.1:CDS
GGTTCTGAAAATCTTCGTCC+TGG 0.520270 6:+15115639 MsaT030850.1:CDS
CCAAGCAAAGAAGTTGGGTC+TGG 0.522693 6:+15116748 MsaT030850.1:CDS
AAGAAGTTGGGTCTGGTTCA+GGG 0.523176 6:+15116755 MsaT030850.1:CDS
CCAGGTAAAGATAGTGAAAG+TGG 0.523543 6:+15116835 MsaT030850.1:CDS
CGTGTCAAAAGTTGAGAACT+CGG 0.526941 6:+15116669 MsaT030850.1:CDS
TCAGCAGCTTCCGAAGCTAT+CGG 0.530626 6:-15116604 None:intergenic
GCTGAGGAAGGTGTGAGCGA+TGG 0.538043 6:+15116949 MsaT030850.1:CDS
ATGTCATAGGCCTTGAAGGG+TGG 0.538057 6:-15116640 None:intergenic
TCATTGCTCTATGAGGCTTG+TGG 0.539310 6:+15116475 MsaT030850.1:CDS
CGTGTCACATGAGGAGTACA+TGG 0.540596 6:+15117005 MsaT030850.1:CDS
GCTTCATGGCTCGTTTGATG+CGG 0.550593 6:-15116720 None:intergenic
AAAATGAGAATGAGTTGTAA+TGG 0.553876 6:+15115468 None:intergenic
TAAGGTAAGGGGTCGAGCTG+AGG 0.555280 6:+15116921 MsaT030850.1:CDS
CACTTGATCCATTCCAAACA+TGG 0.555522 6:-15115537 None:intergenic
TGAACCTGAGTCACAAGCTA+AGG 0.556029 6:+15116903 MsaT030850.1:CDS
GAACCCTATTTATGGGTCCG+TGG 0.556160 6:+15116507 MsaT030850.1:CDS
AAGGTAAGGGGTCGAGCTGA+GGG 0.557055 6:+15116922 MsaT030850.1:CDS
ACATAAGACCATGTTTGGAA+TGG 0.560066 6:+15115529 MsaT030850.1:CDS
GCACCTCTGTCAAGCCGCTG+TGG 0.565125 6:+15116552 MsaT030850.1:CDS
ATTCGGCCAAAGAGATGGAC+CGG 0.570458 6:+15116782 MsaT030850.1:CDS
AACCCTATTTATGGGTCCGT+GGG 0.573464 6:+15116508 MsaT030850.1:CDS
CAGGTAAAGATAGTGAAAGT+GGG 0.576306 6:+15116836 MsaT030850.1:CDS
TGCTCTATGAGGCTTGTGGG+AGG 0.581729 6:+15116479 MsaT030850.1:CDS
TTTCAGAACCAGAATTGATG+AGG 0.582737 6:-15115626 None:intergenic
CATGTACTCCTCATGTGACA+CGG 0.587922 6:-15117004 None:intergenic
GCTGAGGGCCAAGCTGAGGA+AGG 0.588802 6:+15116937 MsaT030850.1:CDS
GATCGGCTCGCCCTTCAAAA+CGG 0.590390 6:-15116578 None:intergenic
CTCAACCCATTCAAGCTGAT+AGG 0.591547 6:-15117098 None:intergenic
TCGAGCTGAGGGCCAAGCTG+AGG 0.593883 6:+15116933 MsaT030850.1:CDS
GAAGGTGTGAGCGATGGGGT+TGG 0.599166 6:+15116955 MsaT030850.1:CDS
TGAGTCACAAGCTAAGGTAA+GGG 0.602895 6:+15116909 MsaT030850.1:CDS
CGTATGTCATAGGCCTTGAA+GGG 0.610350 6:-15116643 None:intergenic
GAACTCGGAGGAGACTAAGC+AGG 0.613697 6:+15116684 MsaT030850.1:CDS
AGACTAAGCAGGTTAGGACT+CGG 0.616984 6:+15116695 MsaT030850.1:CDS
ACATGGTTCCCATTAAGAAG+AGG 0.617211 6:+15117022 MsaT030850.1:CDS
CTTCCACAGCGGCTTGACAG+AGG 0.620565 6:-15116555 None:intergenic
TCCGAAGCTATCGGAGTGAT+CGG 0.624230 6:-15116595 None:intergenic
TAGTGAAAGTGGGGTCTCTG+TGG 0.628045 6:+15116846 MsaT030850.1:CDS
GGAAGCTGCTGAAAATGAGA+GGG 0.630324 6:+15116615 MsaT030850.1:CDS
ATGTACTCCTCATGTGACAC+GGG 0.633111 6:-15117003 None:intergenic
GAGTCACAAGCTAAGGTAAG+GGG 0.633464 6:+15116910 MsaT030850.1:CDS
TATCGAACCCGTGTCACATG+AGG 0.633807 6:+15116996 MsaT030850.1:CDS
ACCAGACCATAAAAGTCCCA+CGG 0.659463 6:-15116524 None:intergenic
AGGTAAAGATAGTGAAAGTG+GGG 0.668264 6:+15116837 MsaT030850.1:CDS
CTTCAAAACGGCTTCCACAG+CGG 0.739571 6:-15116566 None:intergenic
TGAGGAAGGTGTGAGCGATG+GGG 0.769651 6:+15116951 MsaT030850.1:CDS
GTCAAAAGTTGAGAACTCGG+AGG 0.783017 6:+15116672 MsaT030850.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 15115471 15117110 15115471 ID=MsaG030850
Chr6 mRNA 15115471 15117110 15115471 ID=MsaT030850.1;Parent=MsaG030850
Chr6 exon 15115471 15115660 15115471 ID=MsaT030850.1.exon1;Parent=MsaT030850.1
Chr6 CDS 15115471 15115660 15115471 ID=cds.MsaT030850.1;Parent=MsaT030850.1
Chr6 exon 15116464 15117110 15116464 ID=MsaT030850.1.exon2;Parent=MsaT030850.1
Chr6 CDS 15116464 15117110 15116464 ID=cds.MsaT030850.1;Parent=MsaT030850.1
Gene Sequence

>MsaT030850.1

ATGAGAATGAGTTGTAATGGTTGTAGAGTTTTAAGAAAAGGGTGTAGTGAAGATTGTAACATAAGACCATGTTTGGAATGGATCAAGTGTCCTCAATCACAAGCTAATGCTACTGTTTTTCTTGCTAAGTTTTATGGTCGTGCTGGTCTCATCAACCTCATCAATTCTGGTTCTGAAAATCTTCGTCCTGCTATTTTTCGTTCATTGCTCTATGAGGCTTGTGGGAGGATCGTGAACCCTATTTATGGGTCCGTGGGACTTTTATGGTCTGGTAGCTGGCACCTCTGTCAAGCCGCTGTGGAAGCCGTTTTGAAGGGCGAGCCGATCACTCCGATAGCTTCGGAAGCTGCTGAAAATGAGAGGGCCCCACCCTTCAAGGCCTATGACATACGCCACGTGTCAAAAGTTGAGAACTCGGAGGAGACTAAGCAGGTTAGGACTCGGTCCCGCATCAAACGAGCCATGAAGCCGAAGCCAAGCAAAGAAGTTGGGTCTGGTTCAGGGTCCAATTCGGCCAAAGAGATGGACCGGTCCAAAAGCCATGAATCGTCGCTGAGCCAGCCAGGTAAAGATAGTGAAAGTGGGGTCTCTGTGGAGACTTCAATCCTTTTTCATGATGAGTCGGAGTTTGAACCTGAGTCACAAGCTAAGGTAAGGGGTCGAGCTGAGGGCCAAGCTGAGGAAGGTGTGAGCGATGGGGTTGGCTTGGAGCTGAGGCTTGGTATCGAACCCGTGTCACATGAGGAGTACATGGTTCCCATTAAGAAGAGGAAAATTGTGTTGAAGGATTGTAGTGTTTCTTCCAAAGTTGAGCTTGGGCTTGACCTATCAGCTTGA
Protein sequence

>MsaT030850.1

MRMSCNGCRVLRKGCSEDCNIRPCLEWIKCPQSQANATVFLAKFYGRAGLINLINSGSENLRPAIFRSLLYEACGRIVNPIYGSVGLLWSGSWHLCQAAVEAVLKGEPITPIASEAAENERAPPFKAYDIRHVSKVENSEETKQVRTRSRIKRAMKPKPSKEVGSGSGSNSAKEMDRSKSHESSLSQPGKDSESGVSVETSILFHDESEFEPESQAKVRGRAEGQAEEGVSDGVGLELRLGIEPVSHEEYMVPIKKRKIVLKDCSVSSKVELGLDLSA*