AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480019838.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480019838.01.T01 MTR_4g040350 92.958 71 5 0 1 71 140 210 4.93e-43 140
MsG0480019838.01.T01 MTR_4g122580 50.794 63 31 0 1 63 689 751 4.17e-14 65.5
MsG0480019838.01.T01 MTR_4g077700 47.945 73 36 1 1 73 695 765 4.83e-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
MsG0480019838.01.T01 AT3G59980 64.789 71 25 0 1 71 156 226 2.64e-29 105

Find 23 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACTCCTGGTGAAAGAATA+TGG 0.321647 4:+28318839 MsG0480019836.01.T01:CDS
ATGCGTGGCGTCAAGTCTTC+AGG 0.362081 4:+28318751 MsG0480019836.01.T01:CDS
AGTTATTGCCTGATTGGGTT+TGG 0.388907 4:-28318902 None:intergenic
AAGTAGAGTTATTGCCTGAT+TGG 0.405700 4:-28318908 None:intergenic
AGTAGAGTTATTGCCTGATT+GGG 0.411102 4:-28318907 None:intergenic
TTCACCAGGAGTTGCTTCCT+CGG 0.419817 4:-28318830 None:intergenic
TGAGGCTGCCAAACCCAATC+AGG 0.439554 4:+28318894 MsG0480019836.01.T01:CDS
TGATTGGGTTTGGCAGCCTC+AGG 0.440769 4:-28318892 None:intergenic
CCTGGTGAAAGAATATGGTT+TGG 0.449674 4:+28318844 MsG0480019836.01.T01:CDS
CAAGTCTTCAGGAATGTTGA+TGG 0.466166 4:+28318762 MsG0480019836.01.T01:CDS
GTTTGGATCTGCGGAAGAAA+AGG 0.471705 4:+28318861 MsG0480019836.01.T01:CDS
TCACCAGGAGTTGCTTCCTC+GGG 0.498557 4:-28318829 None:intergenic
TTGACGCCACGCATATTCCT+AGG 0.498755 4:-28318742 None:intergenic
CCTCCCGAGGAAGCAACTCC+TGG 0.507250 4:+28318826 MsG0480019836.01.T01:CDS
CCAAACCATATTCTTTCACC+AGG 0.525813 4:-28318844 None:intergenic
CCAGGAGTTGCTTCCTCGGG+AGG 0.534356 4:-28318826 None:intergenic
TTCTTTCGAATCTGAAGCCT+AGG 0.542707 4:+28318725 MsG0480019836.01.T01:CDS
AAGAATATGGTTTGGATCTG+CGG 0.550678 4:+28318852 MsG0480019836.01.T01:CDS
TGAACTTCTGTTCCCTCCCG+AGG 0.558654 4:+28318813 MsG0480019836.01.T01:CDS
CAGGAGTTGCTTCCTCGGGA+GGG 0.616229 4:-28318825 None:intergenic
AACAGTAAGACACAAATGCA+GGG 0.635016 4:+28318688 MsG0480019836.01.T01:intron
CTGAAGCCTAGGAATATGCG+TGG 0.681661 4:+28318736 MsG0480019836.01.T01:CDS
AGAAAAGGACAATCAACCTG+AGG 0.700108 4:+28318876 MsG0480019836.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGTAGAGTTATTGCCTGAT+TGG - Chr4:28318911-28318930 None:intergenic 35.0%
AGTAGAGTTATTGCCTGATT+GGG - Chr4:28318910-28318929 None:intergenic 35.0%
! AAGAATATGGTTTGGATCTG+CGG + Chr4:28318852-28318871 MsG0480019836.01.T01:CDS 35.0%
AGAAAAGGACAATCAACCTG+AGG + Chr4:28318876-28318895 MsG0480019836.01.T01:CDS 40.0%
AGTTATTGCCTGATTGGGTT+TGG - Chr4:28318905-28318924 None:intergenic 40.0%
CAACTCCTGGTGAAAGAATA+TGG + Chr4:28318839-28318858 MsG0480019836.01.T01:CDS 40.0%
CAAGTCTTCAGGAATGTTGA+TGG + Chr4:28318762-28318781 MsG0480019836.01.T01:CDS 40.0%
CCAAACCATATTCTTTCACC+AGG - Chr4:28318847-28318866 None:intergenic 40.0%
CCTGGTGAAAGAATATGGTT+TGG + Chr4:28318844-28318863 MsG0480019836.01.T01:CDS 40.0%
! TTCTTTCGAATCTGAAGCCT+AGG + Chr4:28318725-28318744 MsG0480019836.01.T01:CDS 40.0%
GTTTGGATCTGCGGAAGAAA+AGG + Chr4:28318861-28318880 MsG0480019836.01.T01:CDS 45.0%
CTGAAGCCTAGGAATATGCG+TGG + Chr4:28318736-28318755 MsG0480019836.01.T01:CDS 50.0%
TTCACCAGGAGTTGCTTCCT+CGG - Chr4:28318833-28318852 None:intergenic 50.0%
TTGACGCCACGCATATTCCT+AGG - Chr4:28318745-28318764 None:intergenic 50.0%
ATGCGTGGCGTCAAGTCTTC+AGG + Chr4:28318751-28318770 MsG0480019836.01.T01:CDS 55.0%
TCACCAGGAGTTGCTTCCTC+GGG - Chr4:28318832-28318851 None:intergenic 55.0%
TGAACTTCTGTTCCCTCCCG+AGG + Chr4:28318813-28318832 MsG0480019836.01.T01:CDS 55.0%
TGAGGCTGCCAAACCCAATC+AGG + Chr4:28318894-28318913 MsG0480019836.01.T01:CDS 55.0%
TGATTGGGTTTGGCAGCCTC+AGG - Chr4:28318895-28318914 None:intergenic 55.0%
CAGGAGTTGCTTCCTCGGGA+GGG - Chr4:28318828-28318847 None:intergenic 60.0%
CCAGGAGTTGCTTCCTCGGG+AGG - Chr4:28318829-28318848 None:intergenic 65.0%
CCTCCCGAGGAAGCAACTCC+TGG + Chr4:28318826-28318845 MsG0480019836.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 28318703 28318936 28318703 ID=MsG0480019838.01;Name=MsG0480019838.01
Chr4 mRNA 28318703 28318936 28318703 ID=MsG0480019838.01.T01;Parent=MsG0480019838.01;Name=MsG0480019838.01.T01;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|77
Chr4 exon 28318703 28318936 28318703 ID=MsG0480019838.01.T01:exon:11870;Parent=MsG0480019838.01.T01
Chr4 CDS 28318703 28318936 28318703 ID=MsG0480019838.01.T01:cds;Parent=MsG0480019838.01.T01
Gene Sequence

>MsG0480019838.01.T01

ATGCAGGGCAAAAAAGTTATCGTTCTTTCGAATCTGAAGCCTAGGAATATGCGTGGCGTCAAGTCTTCAGGAATGTTGATGGCTGCTTCTGATTCAAAGCATGAGAATGTTGAACTTCTGTTCCCTCCCGAGGAAGCAACTCCTGGTGAAAGAATATGGTTTGGATCTGCGGAAGAAAAGGACAATCAACCTGAGGCTGCCAAACCCAATCAGGCAATAACTCTACTTGAATAG

Protein sequence

>MsG0480019838.01.T01

MQGKKVIVLSNLKPRNMRGVKSSGMLMAASDSKHENVELLFPPEEATPGERIWFGSAEEKDNQPEAAKPNQAITLLE*