AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005140

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005140 MtrunA17_Chr1g0204781 96.061 330 11 1 1 330 1 328 0.0 651
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005140 AT4G14720.1 43.322 307 124 6 1 285 1 279 1.51e-67 214
MsaG005140 AT4G14720.2 43.322 307 124 6 1 285 1 279 2.49e-67 214
MsaG005140 AT4G14713.1 42.761 297 122 5 10 285 9 278 2.10e-65 209
MsaG005140 AT4G14713.2 43.284 268 104 5 10 256 9 249 3.41e-57 186
MsaG005140 AT4G14713.3 39.516 248 102 5 10 236 9 229 1.09e-43 151
MsaG005140 AT4G14713.5 44.554 202 78 5 10 190 9 197 7.38e-41 142
MsaG005140 AT4G14713.4 44.554 202 78 5 10 190 9 197 7.38e-41 142

Find 101 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCATTGATTTGAATGATAA+AGG 0.266889 1:-78105828 MsaT005140.1:intron
CAGGGATGCGCAGGCCTTCC+TGG 0.302807 1:-78110350 MsaT005140.1:CDS
TGGAATACCCTCTGCATTAC+AGG 0.304356 1:-78107266 MsaT005140.1:CDS
TCAACCTCCGCCGAAGGCTT+TGG 0.326869 1:-78110196 MsaT005140.1:CDS
CGCAGATTCCTCAAAGATAA+AGG 0.351475 1:-78110652 MsaT005140.1:intron
ACCTTTATCATTCAAATCAA+TGG 0.357456 1:+78105827 None:intergenic
AAGAGGACTTCTTTATCAAT+AGG 0.361087 1:+78108542 None:intergenic
TGCACACCTAGTGGGTCATT+TGG 0.371549 1:-78108818 MsaT005140.1:CDS
GATCGCCTGTGATTTGTTCC+AGG 0.376842 1:+78110332 None:intergenic
GTTAACAACGTTGGCATCAT+TGG 0.378467 1:+78110107 None:intergenic
TCCGTGGGTCTTTCAGAAAC+AGG 0.382345 1:+78110132 None:intergenic
GCACACCTAGTGGGTCATTT+GGG 0.393611 1:-78108817 MsaT005140.1:CDS
GAGGAGAGTGGTGGTGGTGA+TGG 0.398156 1:+78110217 None:intergenic
GTGAAGCTCCATGCCTCAAA+TGG 0.403278 1:-78105945 MsaT005140.1:CDS
ACATCTTTACCCACCTTATC+CGG 0.403564 1:+78108743 None:intergenic
TACCTGTTTGAGCGACTTGA+AGG 0.408154 1:+78108501 None:intergenic
TCAATGGGAAGGGTAACTTT+TGG 0.411767 1:+78105843 None:intergenic
AAGGTCCAAAGCAGTATCTT+CGG 0.420329 1:+78110170 None:intergenic
TGATGGAGTTTCGCCGGATA+AGG 0.423382 1:-78108756 MsaT005140.1:intron
TTTGAGGCATGGAGCTTCAC+TGG 0.425496 1:+78105948 None:intergenic
GAGGTTGAGGAGAGTGGTGG+TGG 0.426503 1:+78110211 None:intergenic
TATAAAAGATGTAGAGGGTC+AGG 0.427753 1:-78106203 MsaT005140.1:intron
GGATCCCGAAGATACTGCTT+TGG 0.428308 1:-78110175 MsaT005140.1:CDS
GTGGTGGTGATGGCGGTGAA+TGG 0.438018 1:+78110227 None:intergenic
ACGACTTGAATTCCCATTTG+AGG 0.447514 1:+78105932 None:intergenic
ATCCTTCAAGTCGCTCAAAC+AGG 0.448349 1:-78108503 MsaT005140.1:intron
AGTTGTTACCTTTATCTTTG+AGG 0.457102 1:+78110644 None:intergenic
AAAGCCTTCGGCGGAGGTTG+AGG 0.462001 1:+78110198 None:intergenic
GCCAACGTTGTTAACCCTCC+CGG 0.470865 1:-78110099 MsaT005140.1:CDS
CCTTTATCATTCAAATCAAT+GGG 0.472367 1:+78105828 None:intergenic
TGAAGGATTGTTGTGTCAGT+AGG 0.473687 1:+78108518 None:intergenic
TTTATTTGAAGGATTATCCT+GGG 0.483950 1:+78108598 None:intergenic
GGATCCAAAGCCTTCGGCGG+AGG 0.495977 1:+78110192 None:intergenic
GGAAGCACAACTCGTGATGC+TGG 0.504564 1:-78107237 MsaT005140.1:intron
CTTTGAGAGAAATCACCTGC+TGG 0.508162 1:+78110310 None:intergenic
CTGGAAACTAGAGGCAGTCT+AGG 0.512274 1:+78105885 None:intergenic
GAGAGTGGTGGTGGTGATGG+CGG 0.512343 1:+78110220 None:intergenic
AGGTCCAAAGCAGTATCTTC+GGG 0.513512 1:+78110171 None:intergenic
TATCATTCAAATCAATGGGA+AGG 0.514085 1:+78105832 None:intergenic
AAATGTCATCTTCAGTGAGT+TGG 0.516724 1:+78110698 None:intergenic
TTGAATTCCCATTTGAGGCA+TGG 0.517522 1:+78105937 None:intergenic
GTTGGCATCATTGGTTTCCG+TGG 0.522851 1:+78110116 None:intergenic
GTGATGGCGGTGAATGGCGG+AGG 0.524011 1:+78110233 None:intergenic
TCTTCAGTGAGTTGGTTAAG+AGG 0.524819 1:+78110706 None:intergenic
ACACCAACGCCGACGGTAGC+CGG 0.528495 1:+78110258 None:intergenic
TGAAGCTCCATGCCTCAAAT+GGG 0.529697 1:-78105944 MsaT005140.1:CDS
AGGCATGGAGCTTCACTGGA+AGG 0.532614 1:+78105952 None:intergenic
CCTCTGCATTACAGGGAGAA+AGG 0.534355 1:-78107258 MsaT005140.1:CDS
TCTTCGGGATCCAAAGCCTT+CGG 0.534680 1:+78110186 None:intergenic
CTCTCCTCAACCTCCGCCGA+AGG 0.535396 1:-78110202 MsaT005140.1:CDS
GTGGTGATGGCGGTGAATGG+CGG 0.537319 1:+78110230 None:intergenic
CTTTCTCCCTGTAATGCAGA+GGG 0.537471 1:+78107259 None:intergenic
TCGGCGGAGGTTGAGGAGAG+TGG 0.540695 1:+78110205 None:intergenic
ATCATTCAAATCAATGGGAA+GGG 0.540719 1:+78105833 None:intergenic
GAAGGATTGTTGTGTCAGTA+GGG 0.541726 1:+78108519 None:intergenic
GTTAAGAGGTCTGTCGAGGA+TGG 0.553244 1:+78110720 None:intergenic
TGAAGGATTATCCTGGGGAA+AGG 0.554218 1:+78108604 None:intergenic
CAAATCACAGGCGATCCAGC+AGG 0.554699 1:-78110325 MsaT005140.1:CDS
ATGTCCGTCCTCCTTTCCCC+AGG 0.560265 1:-78108615 MsaT005140.1:CDS
GAGGTCTGTCGAGGATGGAT+CGG 0.562371 1:+78110725 None:intergenic
CCTTTCTCCCTGTAATGCAG+AGG 0.565241 1:+78107258 None:intergenic
GCCTGTGATTTGTTCCAGGA+AGG 0.565338 1:+78110336 None:intergenic
CCAACGTTGTTAACCCTCCC+GGG 0.565503 1:-78110098 MsaT005140.1:intron
TGTCTATGATGGAGTTTCGC+CGG 0.565522 1:-78108762 MsaT005140.1:CDS
TTGGCATCATTGGTTTCCGT+GGG 0.565795 1:+78110117 None:intergenic
ACACCGGCTACCGTCGGCGT+TGG 0.567567 1:-78110261 MsaT005140.1:CDS
GCCTTCCTGGAACAAATCAC+AGG 0.567775 1:-78110337 MsaT005140.1:CDS
TTGTTGTGTCAGTAGGGAAG+AGG 0.573992 1:+78108525 None:intergenic
ACCTGTTTCTGAAAGACCCA+CGG 0.575091 1:-78110133 MsaT005140.1:CDS
GAGGATGGATCGGAAGGAAA+CGG 0.575789 1:+78110735 None:intergenic
TCGAAGGGCAAGAAACTGAC+TGG 0.582148 1:-78106008 MsaT005140.1:CDS
GTGTTCGTACAGGGATGCGC+AGG 0.586574 1:-78110359 MsaT005140.1:intron
GGTAAGGTGAATGTCTATGA+TGG 0.592087 1:-78108773 MsaT005140.1:CDS
CACAGAGGGTGCACACCTAG+TGG 0.593532 1:-78108827 MsaT005140.1:intron
AGAGGCAGTCTAGGCTGTGG+TGG 0.596317 1:+78105894 None:intergenic
GGAATACCCTCTGCATTACA+GGG 0.598431 1:-78107265 MsaT005140.1:CDS
TTATCCTGGGGAAAGGAGGA+CGG 0.604225 1:+78108611 None:intergenic
CAGGTGAAGTAGATTTCTGA+AGG 0.607611 1:+78110151 None:intergenic
AGGATTATCCTGGGGAAAGG+AGG 0.608359 1:+78108607 None:intergenic
GCGGAGGTTGAGGAGAGTGG+TGG 0.611285 1:+78110208 None:intergenic
TTATCAATAGGTAAGTTGCA+AGG 0.614238 1:+78108554 None:intergenic
TCTGTCGAGGATGGATCGGA+AGG 0.617863 1:+78110729 None:intergenic
ACCTACTGACGATGATACAC+CGG 0.620314 1:-78110277 MsaT005140.1:CDS
ACTAGAGGCAGTCTAGGCTG+TGG 0.622722 1:+78105891 None:intergenic
CCGGAATCGGAAACGATGAA+CGG 0.630536 1:-78110766 None:intergenic
GCGATATCTTGAAAAGCGAA+AGG 0.632146 1:-78106158 MsaT005140.1:CDS
GGAGGAGACACCAACGCCGA+CGG 0.632850 1:+78110251 None:intergenic
AATGGAGAACAGACCCGGGA+GGG 0.635558 1:+78110085 None:intergenic
CCCGGGAGGGTTAACAACGT+TGG 0.637856 1:+78110098 None:intergenic
AGACTGCCTCTAGTTTCCAG+TGG 0.639013 1:-78105882 MsaT005140.1:CDS
GATGATACACCGGCTACCGT+CGG 0.644121 1:-78110267 MsaT005140.1:CDS
ATCTTGAAAAGCGAAAGGAC+AGG 0.644523 1:-78106153 MsaT005140.1:intron
ACAGAGGGTGCACACCTAGT+GGG 0.649773 1:-78108826 MsaT005140.1:intron
TCGGGATCCAAAGCCTTCGG+CGG 0.652180 1:+78110189 None:intergenic
ATTTGCCCAAATGACCCACT+AGG 0.656723 1:+78108812 None:intergenic
TTATTTGAAGGATTATCCTG+GGG 0.659271 1:+78108599 None:intergenic
GCCGGTGTATCATCGTCAGT+AGG 0.662569 1:+78110276 None:intergenic
GCTGAGCCACTGGAAACTAG+AGG 0.668085 1:+78105876 None:intergenic
GTTGGTTAAGAGGTCTGTCG+AGG 0.685077 1:+78110716 None:intergenic
AAATGGAGAACAGACCCGGG+AGG 0.721352 1:+78110084 None:intergenic
GAATCGGAAACGATGAACGG+CGG 0.745087 1:-78110763 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 78104929 78110773 78104929 ID=MsaG005140
Chr1 mRNA 78104929 78110773 78104929 ID=MsaT005140.1;Parent=MsaG005140
Chr1 exon 78104929 78104945 78104929 ID=MsaT005140.1.exon8;Parent=MsaT005140.1
Chr1 CDS 78104929 78104945 78104929 ID=cds.MsaT005140.1;Parent=MsaT005140.1
Chr1 exon 78105829 78106037 78105829 ID=MsaT005140.1.exon7;Parent=MsaT005140.1
Chr1 CDS 78105829 78106037 78105829 ID=cds.MsaT005140.1;Parent=MsaT005140.1
Chr1 exon 78106154 78106217 78106154 ID=MsaT005140.1.exon6;Parent=MsaT005140.1
Chr1 CDS 78106154 78106217 78106154 ID=cds.MsaT005140.1;Parent=MsaT005140.1
Chr1 exon 78107238 78107297 78107238 ID=MsaT005140.1.exon5;Parent=MsaT005140.1
Chr1 CDS 78107238 78107297 78107238 ID=cds.MsaT005140.1;Parent=MsaT005140.1
Chr1 exon 78108504 78108666 78108504 ID=MsaT005140.1.exon4;Parent=MsaT005140.1
Chr1 CDS 78108504 78108666 78108504 ID=cds.MsaT005140.1;Parent=MsaT005140.1
Chr1 exon 78108757 78108844 78108757 ID=MsaT005140.1.exon3;Parent=MsaT005140.1
Chr1 CDS 78108757 78108844 78108757 ID=cds.MsaT005140.1;Parent=MsaT005140.1
Chr1 exon 78110099 78110369 78110099 ID=MsaT005140.1.exon2;Parent=MsaT005140.1
Chr1 CDS 78110099 78110369 78110099 ID=cds.MsaT005140.1;Parent=MsaT005140.1
Chr1 exon 78110653 78110773 78110653 ID=MsaT005140.1.exon1;Parent=MsaT005140.1
Chr1 CDS 78110653 78110773 78110653 ID=cds.MsaT005140.1;Parent=MsaT005140.1
Gene Sequence

>MsaT005140.1

ATGAACGGCGGAAGCACCGTTTCCTTCCGATCCATCCTCGACAGACCTCTTAACCAACTCACTGAAGATGACATTTCTCAACTCACTCGCGAAGACTGTCGCAGATTCCTCAAAGATAAAGGGATGCGCAGGCCTTCCTGGAACAAATCACAGGCGATCCAGCAGGTGATTTCTCTCAAAGCGCTTCTAGAACCTACTGACGATGATACACCGGCTACCGTCGGCGTTGGTGTCTCCTCCGCCATTCACCGCCATCACCACCACCACTCTCCTCAACCTCCGCCGAAGGCTTTGGATCCCGAAGATACTGCTTTGGACCTTCAGAAATCTACTTCACCTGTTTCTGAAAGACCCACGGAAACCAATGATGCCAACGTTGTTAACCCTCCCGGAGGGTGCACACCTAGTGGGTCATTTGGGCAAATGACAATTTTCTACTGTGGTAAGGTGAATGTCTATGATGGAGTTTCGCCGGATAAGGCACGATCAATCATGCAGCTTGCTGCTGCATGTCCGTCCTCCTTTCCCCAGGATAATCCTTCAAATAAAAATGCAGCAGTTTGGGCTTCTCCTTGCAACTTACCTATTGATAAAGAAGTCCTCTTCCCTACTGACACAACAATCCTTCAAGTCGCTCAAACAGATAAAATGGTGGAATACCCTCTGCATTACAGGGAGAAAGGAAGCACAACTCGTGATGCTGATGTAGAGGGTCAGGCAAGCAGAAAAGTGTCGCTGCAGCGATATCTTGAAAAGCGAAAGGACAGGGGAAGATCGAAGGGCAAGAAACTGACTGGCATAACTTCATCTAACTTTGAGATGTATTTGAACCTTCCAGTGAAGCTCCATGCCTCAAATGGGAATTCAAGTCGTAGTAGCACTGACTCTCCACCACAGCCTAGACTGCCTCTAGTTTCCAGTGGCTCAGCTGAAAACCTGCCAAAAGTTACCCTTCCCATTGATTTGAATGATAAAGATGTTCAAGAATGCTAA
Protein sequence

>MsaT005140.1

MNGGSTVSFRSILDRPLNQLTEDDISQLTREDCRRFLKDKGMRRPSWNKSQAIQQVISLKALLEPTDDDTPATVGVGVSSAIHRHHHHHSPQPPPKALDPEDTALDLQKSTSPVSERPTETNDANVVNPPGGCTPSGSFGQMTIFYCGKVNVYDGVSPDKARSIMQLAAACPSSFPQDNPSNKNAAVWASPCNLPIDKEVLFPTDTTILQVAQTDKMVEYPLHYREKGSTTRDADVEGQASRKVSLQRYLEKRKDRGRSKGKKLTGITSSNFEMYLNLPVKLHASNGNSSRSSTDSPPQPRLPLVSSGSAENLPKVTLPIDLNDKDVQEC*