AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015674

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015674 MtrunA17_Chr3g0121041 89.071 183 17 1 1 183 24 203 4.19e-117 330
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015674 AT2G04845.1 64.481 183 62 1 1 183 22 201 4.37e-78 232
MsaG015674 AT2G04845.3 69.799 149 45 0 1 149 22 170 3.01e-76 227
MsaG015674 AT2G04845.4 69.799 149 45 0 1 149 22 170 3.04e-76 227
MsaG015674 AT2G04845.2 69.799 149 45 0 1 149 22 170 3.10e-76 226
MsaG015674 AT2G04845.5 66.460 161 53 1 1 160 22 182 1.73e-75 225

Find 40 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGCATCCATTCATGATATT+TGG 0.076576 3:+89727566 None:intergenic
ACCAAGCATCTCCTCATTCT+TGG 0.266496 3:+89723839 None:intergenic
TGCATCCATTCATGATATTT+GGG 0.307846 3:+89727567 None:intergenic
CACTTCTGATACTAGATAAC+TGG 0.326847 3:-89726074 MsaT015674.1:intron
GCCTTTGCTATTGAGAAGTT+GGG 0.345000 3:-89726269 MsaT015674.1:CDS
CAAGGAAACTTTCATTGTCT+TGG 0.360883 3:-89727454 MsaT015674.1:CDS
CTTGTTGGAACTTTCTCTCA+TGG 0.385982 3:-89727420 MsaT015674.1:CDS
CATAGCCGTGGCAAAGGACT+TGG 0.395075 3:-89726317 MsaT015674.1:intron
TGAGGAGATGCTTGGTTTGA+TGG 0.406506 3:-89723832 MsaT015674.1:CDS
GGCCTTTGCTATTGAGAAGT+TGG 0.437922 3:-89726270 MsaT015674.1:CDS
ATACTCTTGTTCGAGAGAAA+GGG 0.455235 3:+89727509 None:intergenic
GATACTCTTGTTCGAGAGAA+AGG 0.456194 3:+89727508 None:intergenic
ATTTGTTTGACAGGTGACTT+TGG 0.470985 3:-89723880 MsaT015674.1:intron
ACGTTCCCAAATATCATGAA+TGG 0.490153 3:-89727572 MsaT015674.1:CDS
CATGGTCAACCCCACGTTGA+AGG 0.491566 3:-89727402 MsaT015674.1:intron
ACATTATTGACCTTCAACGT+GGG 0.501922 3:+89727392 None:intergenic
TTGTTCGAGAGAAAGGGGTT+CGG 0.511970 3:+89727515 None:intergenic
GCCAAGAATGAGGAGATGCT+TGG 0.528942 3:-89723840 MsaT015674.1:CDS
GCAGTGGCTTGAAGTAGAGA+AGG 0.544829 3:+89727540 None:intergenic
ATTTCAACCTCTGCCACTTG+AGG 0.545729 3:+89727236 None:intergenic
TGTTAGCATAGCCGTGGCAA+AGG 0.550626 3:-89726323 MsaT015674.1:intron
CCGCTATTTGCAGCTATGGT+TGG 0.553290 3:-89727293 MsaT015674.1:intron
CAATAATCCTCAAGTGGCAG+AGG 0.554435 3:-89727243 MsaT015674.1:CDS
TCATGATATTTGGGAACGTG+AGG 0.569678 3:+89727576 None:intergenic
GAGGAGATGCTTGGTTTGAT+GGG 0.572308 3:-89723831 MsaT015674.1:CDS
CCTTTGCTATTGAGAAGTTG+GGG 0.572445 3:-89726268 MsaT015674.1:CDS
AGTATCAGATGCAACTCTCA+TGG 0.583647 3:-89727491 MsaT015674.1:CDS
AATAACACAAGCCAAGAATG+AGG 0.587170 3:-89723850 MsaT015674.1:CDS
AGAAAGGGGTTCGGAAGCAG+TGG 0.587837 3:+89727524 None:intergenic
CCTTTCCAAGTCCTTTGCCA+CGG 0.588992 3:+89726312 None:intergenic
AACATTATTGACCTTCAACG+TGG 0.591929 3:+89727391 None:intergenic
TACTCTTGTTCGAGAGAAAG+GGG 0.600981 3:+89727510 None:intergenic
CCGTGGCAAAGGACTTGGAA+AGG 0.603951 3:-89726312 MsaT015674.1:CDS
CCCCAACTTCTCAATAGCAA+AGG 0.607006 3:+89726268 None:intergenic
TGATATCAATAATCCTCAAG+TGG 0.607377 3:-89727249 MsaT015674.1:CDS
TTATGATAGCTGAACAAACC+AGG 0.634003 3:-89727214 MsaT015674.1:intron
CATTATTGACCTTCAACGTG+GGG 0.634827 3:+89727393 None:intergenic
GAATATAGAGTCGATATACA+AGG 0.639297 3:-89726052 MsaT015674.1:CDS
CAGTGGCTTGAAGTAGAGAA+GGG 0.645058 3:+89727541 None:intergenic
ATGGTCACGTGATCTCAACA+AGG 0.702832 3:-89727472 MsaT015674.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 89723809 89727604 89723809 ID=MsaG015674
Chr3 mRNA 89723809 89727604 89723809 ID=MsaT015674.1;Parent=MsaG015674
Chr3 exon 89723809 89723889 89723809 ID=MsaT015674.1.exon5;Parent=MsaT015674.1
Chr3 CDS 89723809 89723889 89723809 ID=cds.MsaT015674.1;Parent=MsaT015674.1
Chr3 exon 89726038 89726081 89726038 ID=MsaT015674.1.exon4;Parent=MsaT015674.1
Chr3 CDS 89726038 89726081 89726038 ID=cds.MsaT015674.1;Parent=MsaT015674.1
Chr3 exon 89726198 89726334 89726198 ID=MsaT015674.1.exon3;Parent=MsaT015674.1
Chr3 CDS 89726198 89726334 89726198 ID=cds.MsaT015674.1;Parent=MsaT015674.1
Chr3 exon 89727215 89727302 89727215 ID=MsaT015674.1.exon2;Parent=MsaT015674.1
Chr3 CDS 89727215 89727302 89727215 ID=cds.MsaT015674.1;Parent=MsaT015674.1
Chr3 exon 89727403 89727604 89727403 ID=MsaT015674.1.exon1;Parent=MsaT015674.1
Chr3 CDS 89727403 89727604 89727403 ID=cds.MsaT015674.1;Parent=MsaT015674.1
Gene Sequence

>MsaT015674.1

ATGGAACCTCACGTTCCCAAATATCATGAATGGATGCAAGACCCTTCTCTACTTCAAGCCACTGCTTCCGAACCCCTTTCTCTCGAACAAGAGTATCAGATGCAACTCTCATGGTCACGTGATCTCAACAAGGAAACTTTCATTGTCTTGGATAAAGATTTTCTTGTTGGAACTTTCTCTCATGGTCAACCCCACGTTGAAGCTATGGTTGGTGATGTAAATATTTTCATGAATGATATCAATAATCCTCAAGTGGCAGAGGTTGAAATTATGATAGCTGAACAAACCAGCCGTGGCAAAGGACTTGGAAAGGAGTCTGTTTTGATAATGATGGCCTTTGCTATTGAGAAGTTGGGGATCAAAACTTTTCAAGTTAAAATTGGAGAATCAAATGTAGAGTCCATCAACCTGTTCAAAAAACTGGTCTATAACTGGAATATAGAGTCGATATACAAGGAGAACAAAAAAACCGTGACTTTGGAGTTGCAAATAACACAAGCCAAGAATGAGGAGATGCTTGGTTTGATGGGTACTGTGATTAAACACACATAA
Protein sequence

>MsaT015674.1

MEPHVPKYHEWMQDPSLLQATASEPLSLEQEYQMQLSWSRDLNKETFIVLDKDFLVGTFSHGQPHVEAMVGDVNIFMNDINNPQVAEVEIMIAEQTSRGKGLGKESVLIMMAFAIEKLGIKTFQVKIGESNVESINLFKKLVYNWNIESIYKENKKTVTLELQITQAKNEEMLGLMGTVIKHT*