AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG042436

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042436 MtrunA17_Chr4g0068031 82.796 93 2 3 52 131 27 118 1.34e-44 142
MsaG042436 MtrunA17_Chr7g0271861 45.977 87 33 4 54 131 21 102 1.30e-14 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042436 AT5G49300.1 62.667 75 20 4 54 124 35 105 1.17e-19 79.3
MsaG042436 AT3G06740.1 54.321 81 31 3 54 131 40 117 2.63e-19 78.6
MsaG042436 AT4G16141.1 90.625 32 2 1 54 85 36 66 7.44e-14 65.5
MsaG042436 AT3G16870.1 58.929 56 14 2 54 101 41 95 6.60e-13 62.8
MsaG042436 AT4G36620.1 54.902 51 22 1 55 105 75 124 2.36e-11 58.9

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGCAGAGATTATTGAATTT+AGG 0.186034 8:-21964912 MsaT042436.1:CDS
AAGAAATTGATAGAGTTAAA+TGG 0.194175 8:+21967625 None:intergenic
AGCAGAGATTATTGAATTTA+GGG 0.227823 8:-21964911 MsaT042436.1:CDS
TTGATAGAGTTAAATGGGTT+TGG 0.293730 8:+21967631 None:intergenic
ACCACGCCATAGAGGGGTTT+TGG 0.316833 8:+21965163 None:intergenic
TCTGATGAAACGGCGGCGTT+AGG 0.333300 8:+21965231 None:intergenic
TGATAGAGTTAAATGGGTTT+GGG 0.354928 8:+21967632 None:intergenic
AGAAATTGATAGAGTTAAAT+GGG 0.358975 8:+21967626 None:intergenic
GAACTTCCAAAACCCCTCTA+TGG 0.380563 8:-21965169 MsaT042436.1:CDS
CTGATGAAACGGCGGCGTTA+GGG 0.382761 8:+21965232 None:intergenic
AACGAAGAAGGAACAAGAAA+GGG 0.398579 8:-21964993 MsaT042436.1:CDS
TAAATTACCTTTGGTCCTGC+AGG 0.425818 8:+21965134 None:intergenic
AGTAACAGTGGCGGTGGCGG+TGG 0.436374 8:-21964963 MsaT042436.1:CDS
CAACGAAGAAGGAACAAGAA+AGG 0.448446 8:-21964994 MsaT042436.1:CDS
TGGCGTGGTGGTCCTCCTGC+AGG 0.457256 8:-21965149 MsaT042436.1:CDS
AGTCACTGTGCAATGCTTGC+GGG 0.503081 8:-21965031 MsaT042436.1:CDS
GGTGGCGGTGGAAGCAAAGT+TGG 0.505807 8:-21964951 MsaT042436.1:CDS
GAGGACCACCACGCCATAGA+GGG 0.522026 8:+21965156 None:intergenic
AGCAAAGGAAACAACGAAGA+AGG 0.525059 8:-21965005 MsaT042436.1:CDS
ATTGTTGTTATCTGATGAAA+CGG 0.531824 8:+21965221 None:intergenic
AAGAGTAACAGTGGCGGTGG+CGG 0.533652 8:-21964966 MsaT042436.1:CDS
GGAGGACCACCACGCCATAG+AGG 0.541418 8:+21965155 None:intergenic
CTTCATCCCTCCTCAAGTCA+AGG 0.554954 8:+21967507 None:intergenic
TGGTAGACCTTGACTTGAGG+AGG 0.561236 8:-21967514 MsaT042436.1:CDS
CAGTCACTGTGCAATGCTTG+CGG 0.579698 8:-21965032 MsaT042436.1:CDS
TGGTCCTCCTGCAGGACCAA+AGG 0.595556 8:-21965141 MsaT042436.1:intron
ATTACCTTTGGTCCTGCAGG+AGG 0.596413 8:+21965137 None:intergenic
CTAATTATTAGGGAAAGTTG+TGG 0.613984 8:-21967534 MsaT042436.1:intron
AAGAAAACATGTGCTGATTG+CGG 0.615546 8:-21965191 MsaT042436.1:CDS
ACGAAGAAGGAACAAGAAAG+GGG 0.621165 8:-21964992 MsaT042436.1:CDS
TTGTGGTAGACCTTGACTTG+AGG 0.637118 8:-21967517 MsaT042436.1:CDS
TCCAAAACCCCTCTATGGCG+TGG 0.637585 8:-21965164 MsaT042436.1:CDS
AATGCTTGCGGGATAAGCAA+AGG 0.651532 8:-21965020 MsaT042436.1:CDS
AGGACCACCACGCCATAGAG+GGG 0.652889 8:+21965157 None:intergenic
AAAACCCCTCTATGGCGTGG+TGG 0.672135 8:-21965161 MsaT042436.1:CDS
GGTAGACCTTGACTTGAGGA+GGG 0.676317 8:-21967513 MsaT042436.1:CDS
GTTGTTATCTGATGAAACGG+CGG 0.695776 8:+21965224 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 21964887 21967664 21964887 ID=MsaG042436
Chr8 mRNA 21964887 21967664 21964887 ID=MsaT042436.1;Parent=MsaG042436
Chr8 exon 21964887 21965051 21964887 ID=MsaT042436.1.exon4;Parent=MsaT042436.1
Chr8 CDS 21964887 21965051 21964887 ID=cds.MsaT042436.1;Parent=MsaT042436.1
Chr8 exon 21965142 21965277 21965142 ID=MsaT042436.1.exon3;Parent=MsaT042436.1
Chr8 CDS 21965142 21965277 21965142 ID=cds.MsaT042436.1;Parent=MsaT042436.1
Chr8 exon 21967494 21967545 21967494 ID=MsaT042436.1.exon2;Parent=MsaT042436.1
Chr8 CDS 21967494 21967545 21967494 ID=cds.MsaT042436.1;Parent=MsaT042436.1
Chr8 exon 21967622 21967664 21967622 ID=MsaT042436.1.exon1;Parent=MsaT042436.1
Chr8 CDS 21967622 21967664 21967622 ID=cds.MsaT042436.1;Parent=MsaT042436.1
Gene Sequence

>MsaT042436.1

ATGTCACGCACCCAAACCCATTTAACTCTATCAATTTCTTTGTGGAAAGTTGTGGTAGACCTTGACTTGAGGAGGGATGAAGAGAAATCACTCAAGTATCAGAAGGTGAAGATTCAAACCCTAACGCCGCCGTTTCATCAGATAACAACAATCCAACCAAAGAAAACATGTGCTGATTGCGGAACTTCCAAAACCCCTCTATGGCGTGGTGGTCCTCCTGCAGGACCAAAGTCACTGTGCAATGCTTGCGGGATAAGCAAAGGAAACAACGAAGAAGGAACAAGAAAGGGGAAAAAGAGTAACAGTGGCGGTGGCGGTGGAAGCAAAGTTGGTGATAATTTGAACATGAAGCAGAGATTATTGAATTTAGGGAAAGAAGTGTTTATGAATCAATGA
Protein sequence

>MsaT042436.1

MSRTQTHLTLSISLWKVVVDLDLRRDEEKSLKYQKVKIQTLTPPFHQITTIQPKKTCADCGTSKTPLWRGGPPAGPKSLCNACGISKGNNEEGTRKGKKSNSGGGGGSKVGDNLNMKQRLLNLGKEVFMNQ*