AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG046431


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046431 MtrunA17_Chr4g0075391 98.571 140 2 0 1 140 1 140 4.35e-100 284
MsaG046431 MtrunA17_Chr4g0013081 50.000 62 31 0 79 140 312 373 8.71e-15 70.9
MsaG046431 MtrunA17_Chr5g0432531 48.387 62 32 0 79 140 184 245 1.43e-13 66.2
MsaG046431 MtrunA17_Chr7g0244571 50.000 58 29 0 83 140 283 340 3.29e-13 66.2
MsaG046431 MtrunA17_Chr2g0284471 41.538 65 33 1 83 147 249 308 5.11e-12 62.8
MsaG046431 MtrunA17_Chr8g0379681 41.538 65 33 1 83 147 260 319 3.36e-11 60.5
MsaG046431 MtrunA17_Chr1g0177881 46.552 58 31 0 83 140 104 161 5.13e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046431 AT4G04025.1 54.305 151 55 3 4 140 22 172 3.46e-45 147
MsaG046431 AT1G06920.1 41.860 86 45 2 58 138 215 300 4.07e-13 66.2
MsaG046431 AT2G30400.1 48.387 62 28 1 79 140 254 311 1.21e-12 64.7
MsaG046431 AT5G58360.1 39.080 87 41 3 60 138 199 281 1.37e-12 64.3
MsaG046431 AT5G01840.1 48.148 54 28 0 87 140 204 257 2.16e-12 63.5
MsaG046431 AT4G18830.1 43.103 58 33 0 83 140 284 341 2.98e-12 63.9

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGGTGGTGGTGGGCGGCGC+TGG 0.116126 8:+84513445 MsaT046431.1:CDS
CTAGACATGTAGAGAGAAAA+AGG 0.217537 8:+84511956 MsaT046431.1:CDS
ATGATCCAAGAGAGGATTTC+AGG 0.230726 8:+84512037 MsaT046431.1:CDS
AAGCTTCAGATCACGGTATT+GGG 0.302120 8:+84513479 MsaT046431.1:CDS
GTTCTTCTTCTGTCTCTGAT+AGG 0.352483 8:+84511857 MsaT046431.1:CDS
GAAGATCTTTCGCATCTTGA+AGG 0.366336 8:-84512092 None:intergenic
GGCAGCGATGGAGGTGGTGG+TGG 0.392221 8:+84513435 MsaT046431.1:CDS
AGGTGGTGGTGGGCGGCGCT+GGG 0.397302 8:+84513446 MsaT046431.1:CDS
GAAGCTTCAGATCACGGTAT+TGG 0.397894 8:+84513478 MsaT046431.1:CDS
TGGTGGTGGGCGGCGCTGGG+AGG 0.423641 8:+84513449 MsaT046431.1:CDS
AAATCTCAAGTATAAGACTA+TGG 0.438492 8:-84512158 None:intergenic
AAAAGGGAGAAGAGGAGAGA+AGG 0.442296 8:+84511973 MsaT046431.1:CDS
GACTCCCTGAAATCCTCTCT+TGG 0.457320 8:-84512042 None:intergenic
AGGGCAGCGACCGGCAGCGA+TGG 0.463654 8:+84513423 MsaT046431.1:intron
GGATTTCAGGGAGTCTATGA+TGG 0.485788 8:+84512050 MsaT046431.1:CDS
ACCGGCAGCGATGGAGGTGG+TGG 0.504290 8:+84513432 MsaT046431.1:CDS
CTATTATATGTCGATGAACT+CGG 0.518436 8:+84512128 MsaT046431.1:CDS
TGATCCAAGAGAGGATTTCA+GGG 0.524133 8:+84512038 MsaT046431.1:CDS
AGATCACGGTATTGGGGAAG+AGG 0.528372 8:+84513486 MsaT046431.1:CDS
ACCACCACCTCCATCGCTGC+CGG 0.533103 8:-84513433 None:intergenic
GCGATGGAGGTGGTGGTGGG+CGG 0.538292 8:+84513439 MsaT046431.1:CDS
GCAGCGATGGAGGTGGTGGT+GGG 0.543200 8:+84513436 MsaT046431.1:CDS
AGAAGAGAAGCTTCAGATCA+CGG 0.552780 8:+84513472 MsaT046431.1:CDS
GCAGCGACCGGCAGCGATGG+AGG 0.566620 8:+84513426 MsaT046431.1:CDS
ATATAGTGTTTCTTCTTCAG+AGG 0.569609 8:+84511825 MsaT046431.1:CDS
GTCAAGTCTCTCTTGCACCA+TGG 0.576800 8:-84511908 None:intergenic
GCGACCGGCAGCGATGGAGG+TGG 0.582430 8:+84513429 MsaT046431.1:CDS
TAAACTGAAAGGGCAGCGAC+CGG 0.594908 8:+84513414 MsaT046431.1:intron
AAAACAACAAAGAGGATGCA+AGG 0.595456 8:+84511780 MsaT046431.1:CDS
AGCTTCAGATCACGGTATTG+GGG 0.608716 8:+84513480 MsaT046431.1:CDS
AAAACCTCAAAACAACAAAG+AGG 0.609556 8:+84511772 MsaT046431.1:CDS
TGTGCTAGTGTAGAAACAGA+AGG 0.614020 8:-84511883 None:intergenic
TTCTACACTAGCACATGCCA+TGG 0.653332 8:+84511891 MsaT046431.1:CDS
GTGTTCTTATGATCCAAGAG+AGG 0.658417 8:+84512029 MsaT046431.1:CDS
GTGCTAGTGTAGAAACAGAA+GGG 0.663929 8:-84511882 None:intergenic
TCTGTTGCTACTGCAACACA+AGG 0.676898 8:-84511803 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 84511769 84513511 84511769 ID=MsaG046431
Chr8 mRNA 84511769 84513511 84511769 ID=MsaT046431.1;Parent=MsaG046431
Chr8 exon 84511769 84512188 84511769 ID=MsaT046431.1.exon1;Parent=MsaT046431.1
Chr8 CDS 84511769 84512188 84511769 ID=cds.MsaT046431.1;Parent=MsaT046431.1
Chr8 exon 84513425 84513511 84513425 ID=MsaT046431.1.exon2;Parent=MsaT046431.1
Chr8 CDS 84513425 84513511 84513425 ID=cds.MsaT046431.1;Parent=MsaT046431.1
Gene Sequence

>MsaT046431.1

ATGAAAACCTCAAAACAACAAAGAGGATGCAAGGCCTTGTGTTGCAGTAGCAACAGATATAGTGTTTCTTCTTCAGAGGAAGCAGAGAGTTCTTCTTCTGTCTCTGATAGGTTCCCTTCTGTTTCTACACTAGCACATGCCATGGTGCAAGAGAGACTTGACCAAATGATAAGAGAAAAACTTGAAGCTAGACATGTAGAGAGAAAAAGGGAGAAGAGGAGAGAAGGAACTAAGTTTGTTGTAATGTTAGCAACAGAAAAGTGTTCTTATGATCCAAGAGAGGATTTCAGGGAGTCTATGATGGAGATGATAACAGTGAATCGCCTTCAAGATGCGAAAGATCTTCGTAGTTTATTGAACTATTATATGTCGATGAACTCGGAAGAATACCATAGTCTTATACTTGAGATTTTTCATGAGGGCAGCGACCGGCAGCGATGGAGGTGGTGGTGGGCGGCGCTGGGAGGAGAAGAGAAGCTTCAGATCACGGTATTGGGGAAGAGGTGA

Protein sequence

>MsaT046431.1

MKTSKQQRGCKALCCSSNRYSVSSSEEAESSSSVSDRFPSVSTLAHAMVQERLDQMIREKLEARHVERKREKRREGTKFVVMLATEKCSYDPREDFRESMMEMITVNRLQDAKDLRSLLNYYMSMNSEEYHSLILEIFHEGSDRQRWRWWWAALGGEEKLQITVLGKR*