AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020396


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020396 MtrunA17_Chr4g0026311 93.571 140 3 1 1 134 1 140 5.89e-89 254
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020396 AT2G27470.1 69.231 91 28 0 4 94 8 98 2.67e-41 138
MsaG020396 AT3G53340.5 33.051 118 69 4 7 124 34 141 4.64e-11 57.8
MsaG020396 AT3G53340.1 33.051 118 69 4 7 124 34 141 4.64e-11 57.8

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTCATCTCCCTTTCCTTT+TGG 0.216918 4:+51058619 None:intergenic
CACACGGCGTACAATAGTTT+TGG 0.248078 4:+51060177 None:intergenic
GATGAAGATTCTGGCACTTT+CGG 0.351884 4:+51060081 None:intergenic
AAGGTAGTGGATGAAGATTC+TGG 0.398524 4:+51060072 None:intergenic
CAGAGTTTACTGAGTTTGTT+GGG 0.413182 4:-51059395 MsaT020396.1:CDS
CCTCTAAAAGATTCTCTTGA+AGG 0.437256 4:-51059372 MsaT020396.1:intron
ACAGAGTTTACTGAGTTTGT+TGG 0.451694 4:-51059396 MsaT020396.1:CDS
AGCGGCAGTGCCAAAAGGAA+AGG 0.481373 4:-51058629 MsaT020396.1:CDS
ATCGATAATGGCTGAGGCGG+AGG 0.482624 4:-51060206 None:intergenic
GCAGGGCTAATGATATATGT+AGG 0.482928 4:-51059473 MsaT020396.1:intron
AACGGCAATGTCGCCGTCGT+CGG 0.485500 4:+51060129 None:intergenic
CTTACGTAGCAGAAAGGTAG+TGG 0.498108 4:+51060059 None:intergenic
GTCGCCGTCGTCGGAGCAAG+TGG 0.510785 4:+51060138 None:intergenic
GAGTTTAGGAAGAAGAATGC+TGG 0.512368 4:-51058658 MsaT020396.1:CDS
TATTGTACGCCGTGTGGTGA+AGG 0.540443 4:-51060170 MsaT020396.1:CDS
TGAGAAGGGAAAGAAAAGAA+AGG 0.540607 4:-51058602 MsaT020396.1:CDS
AGTTTAGGAAGAAGAATGCT+GGG 0.542985 4:-51058657 MsaT020396.1:CDS
CCGTCTGACAAAGGCGATGG+TGG 0.546278 4:-51058568 MsaT020396.1:CDS
AAAAGGAAAGGGAGATGAGA+AGG 0.549945 4:-51058617 MsaT020396.1:CDS
CAGGGCTAATGATATATGTA+GGG 0.556080 4:-51059472 MsaT020396.1:CDS
AAGAAAGCGGCAGTGCCAAA+AGG 0.559929 4:-51058634 MsaT020396.1:CDS
GCGGCAGTGCCAAAAGGAAA+GGG 0.560436 4:-51058628 MsaT020396.1:CDS
CCACCATCGCCTTTGTCAGA+CGG 0.579482 4:+51058568 None:intergenic
CTTTCCACTTGCTCCGACGA+CGG 0.580800 4:-51060142 MsaT020396.1:CDS
GAGAAAATCGATAATGGCTG+AGG 0.587694 4:-51060212 None:intergenic
AAAGGAAAGGGAGATGAGAA+GGG 0.589156 4:-51058616 MsaT020396.1:CDS
AAAGCACTTACGTAGCAGAA+AGG 0.591048 4:+51060053 None:intergenic
AAAATCGATAATGGCTGAGG+CGG 0.597463 4:-51060209 None:intergenic
GAAGGCGAGCCGTCTGACAA+AGG 0.603385 4:-51058577 MsaT020396.1:CDS
GGAAAGAAAAGAAAGGCGGA+AGG 0.603937 4:-51058595 MsaT020396.1:CDS
GAGCCGTCTGACAAAGGCGA+TGG 0.609316 4:-51058571 MsaT020396.1:CDS
GAAGGGAAAGAAAAGAAAGG+CGG 0.609576 4:-51058599 MsaT020396.1:CDS
AAGAAGAGCGTCTTTGTGAA+CGG 0.610289 4:+51060111 None:intergenic
CAAAACTATTGTACGCCGTG+TGG 0.666023 4:-51060176 MsaT020396.1:CDS
GAAGAATGCTGGGAAGAAAG+CGG 0.668115 4:-51058647 MsaT020396.1:CDS
ATATATGTAGGGAGTCAAAG+AGG 0.691304 4:-51059461 MsaT020396.1:CDS
AAAGCTTCTCCTTCACCACA+CGG 0.706469 4:+51060161 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 51058552 51060221 51058552 ID=MsaG020396
Chr4 mRNA 51058552 51060221 51058552 ID=MsaT020396.1;Parent=MsaG020396
Chr4 exon 51058552 51058679 51058552 ID=MsaT020396.1.exon3;Parent=MsaT020396.1
Chr4 CDS 51058552 51058679 51058552 ID=cds.MsaT020396.1;Parent=MsaT020396.1
Chr4 exon 51059373 51059491 51059373 ID=MsaT020396.1.exon2;Parent=MsaT020396.1
Chr4 CDS 51059373 51059491 51059373 ID=cds.MsaT020396.1;Parent=MsaT020396.1
Chr4 exon 51060064 51060221 51060064 ID=MsaT020396.1.exon1;Parent=MsaT020396.1
Chr4 CDS 51060064 51060221 51060064 ID=cds.MsaT020396.1;Parent=MsaT020396.1
Gene Sequence

>MsaT020396.1

ATGGCTGAGGCGGAGGAGCTTCCCAAAACTATTGTACGCCGTGTGGTGAAGGAGAAGCTTTCCACTTGCTCCGACGACGGCGACATTGCCGTTCACAAAGACGCTCTTCTTGCATTCTCCGAAAGTGCCAGAATCTTCATCCACTACCTTTCTGCTACGGCTAATGATATATGTAGGGAGTCAAAGAGGCAGATTATCAATGCTGAAGATGTGTTCAAAGCTCTTGAAGAAACAGAGTTTACTGAGTTTGTTGGGCCTCTAAAAGATTCTCTTGAAGAGTTTAGGAAGAAGAATGCTGGGAAGAAAGCGGCAGTGCCAAAAGGAAAGGGAGATGAGAAGGGAAAGAAAAGAAAGGCGGAAGGCGAGCCGTCTGACAAAGGCGATGGTGGTGATGATGACCAATGA

Protein sequence

>MsaT020396.1

MAEAEELPKTIVRRVVKEKLSTCSDDGDIAVHKDALLAFSESARIFIHYLSATANDICRESKRQIINAEDVFKALEETEFTEFVGPLKDSLEEFRKKNAGKKAAVPKGKGDEKGKKRKAEGEPSDKGDGGDDDQ*