AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280011062.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 37 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAATAAATTTGGTTCTAAA+TGG 0.195920 2:+78999691 None:intergenic
ATTTGGTTCTAAATGGTTCT+AGG 0.227307 2:+78999698 None:intergenic
AGTCAATGGAGTGCATACTA+TGG 0.359233 2:+78999756 MsG0280011062.01.T01:CDS
TTATATAACTTACCTGTTGC+GGG 0.367839 2:-78999872 None:intergenic
GGTTATGAAGCTTATGCATA+TGG 0.389478 2:+78999792 MsG0280011062.01.T01:CDS
ACCTGGAGGATGGGGACAAC+AGG 0.425840 2:+78999725 MsG0280011062.01.T01:CDS
ACCTGTTGTCCCCATCCTCC+AGG 0.435952 2:-78999726 None:intergenic
CCAGCATATGCATACATTGA+AGG 0.454115 2:-78999828 None:intergenic
TTATGCATATGGGGCTGCTC+AGG 0.463165 2:+78999803 MsG0280011062.01.T01:CDS
GGAAATTACTTATCAACATC+GGG 0.466329 2:-79000045 None:intergenic
ATTATATAACTTACCTGTTG+CGG 0.469981 2:-78999873 None:intergenic
TACTTATGTTCGTAGGTTGA+AGG 0.474035 2:+78999949 MsG0280011062.01.T01:intron
GGAAGAGTTGTATGATCCTC+TGG 0.477748 2:+79000017 MsG0280011062.01.T01:CDS
CCTTCAATGTATGCATATGC+TGG 0.484513 2:+78999828 MsG0280011062.01.T01:CDS
GTTATGAAGCTTATGCATAT+GGG 0.486863 2:+78999793 MsG0280011062.01.T01:CDS
TCTAGGACGTACCTGGAGGA+TGG 0.494871 2:+78999715 MsG0280011062.01.T01:CDS
TATGCATATGCTGGATATGC+TGG 0.494958 2:+78999837 MsG0280011062.01.T01:CDS
CTATGCACAATACCCGCAAC+AGG 0.497442 2:+78999860 MsG0280011062.01.T01:CDS
CTAGGACGTACCTGGAGGAT+GGG 0.497812 2:+78999716 MsG0280011062.01.T01:CDS
ATACTATGGGTATGGACAGC+CGG 0.512029 2:+78999770 MsG0280011062.01.T01:CDS
TGGAGTGCATACTATGGGTA+TGG 0.512551 2:+78999762 MsG0280011062.01.T01:CDS
AAATGGTTCTAGGACGTACC+TGG 0.515634 2:+78999708 MsG0280011062.01.T01:CDS
TGTGCCTACCTTGGAACAAA+GGG 0.518894 2:+78999996 MsG0280011062.01.T01:CDS
CAACTCTTCCCTTTGTTCCA+AGG 0.526046 2:-79000004 None:intergenic
TACTATGGGTATGGACAGCC+GGG 0.528661 2:+78999771 MsG0280011062.01.T01:CDS
TCTTCCCTTTGTTCCAAGGT+AGG 0.532246 2:-79000000 None:intergenic
AGCTATGTCTGTGCCTACCT+TGG 0.534806 2:+78999987 MsG0280011062.01.T01:CDS
AACAGGTGGATCAAAGTCAA+TGG 0.535631 2:+78999742 MsG0280011062.01.T01:CDS
GTCAATGGAGTGCATACTAT+GGG 0.545165 2:+78999757 MsG0280011062.01.T01:CDS
CTGTGCCTACCTTGGAACAA+AGG 0.550340 2:+78999995 MsG0280011062.01.T01:CDS
TGGAGGATGGGGACAACAGG+TGG 0.570788 2:+78999728 MsG0280011062.01.T01:CDS
GGGAAATTACTTATCAACAT+CGG 0.572190 2:-79000046 None:intergenic
TAGGACGTACCTGGAGGATG+GGG 0.597591 2:+78999717 MsG0280011062.01.T01:CDS
TTATGAAGCTTATGCATATG+GGG 0.631339 2:+78999794 MsG0280011062.01.T01:CDS
TATGCATAAGCTTCATAACC+CGG 0.644180 2:-78999789 None:intergenic
TCAACATCGGGCATTGCCAG+AGG 0.653213 2:-79000033 None:intergenic
TGGTTCTAGGACGTACCTGG+AGG 0.726254 2:+78999711 MsG0280011062.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTTAAATTTACATATTGCAT+TGG + Chr2:78999896-78999915 MsG0280011062.01.T01:intron 15.0%
! ATTATATAACTTACCTGTTG+CGG - Chr2:78999876-78999895 None:intergenic 25.0%
GGAAATTACTTATCAACATC+GGG - Chr2:79000048-79000067 None:intergenic 30.0%
GGGAAATTACTTATCAACAT+CGG - Chr2:79000049-79000068 None:intergenic 30.0%
GTTATGAAGCTTATGCATAT+GGG + Chr2:78999793-78999812 MsG0280011062.01.T01:CDS 30.0%
TTATATAACTTACCTGTTGC+GGG - Chr2:78999875-78999894 None:intergenic 30.0%
TTATGAAGCTTATGCATATG+GGG + Chr2:78999794-78999813 MsG0280011062.01.T01:CDS 30.0%
!! ATTGCATTGGTTCATATTGA+AGG + Chr2:78999909-78999928 MsG0280011062.01.T01:intron 30.0%
!! TTGCATTGGTTCATATTGAA+GGG + Chr2:78999910-78999929 MsG0280011062.01.T01:intron 30.0%
ATCTGACTACTTATGTTCGT+AGG + Chr2:78999942-78999961 MsG0280011062.01.T01:intron 35.0%
GGTTATGAAGCTTATGCATA+TGG + Chr2:78999792-78999811 MsG0280011062.01.T01:CDS 35.0%
TATGCATAAGCTTCATAACC+CGG - Chr2:78999792-78999811 None:intergenic 35.0%
! TACTTATGTTCGTAGGTTGA+AGG + Chr2:78999949-78999968 MsG0280011062.01.T01:intron 35.0%
AACAGGTGGATCAAAGTCAA+TGG + Chr2:78999742-78999761 MsG0280011062.01.T01:CDS 40.0%
AGTCAATGGAGTGCATACTA+TGG + Chr2:78999756-78999775 MsG0280011062.01.T01:CDS 40.0%
CCAGCATATGCATACATTGA+AGG - Chr2:78999831-78999850 None:intergenic 40.0%
CCTTCAATGTATGCATATGC+TGG + Chr2:78999828-78999847 MsG0280011062.01.T01:CDS 40.0%
GTCAATGGAGTGCATACTAT+GGG + Chr2:78999757-78999776 MsG0280011062.01.T01:CDS 40.0%
TATGCATATGCTGGATATGC+TGG + Chr2:78999837-78999856 MsG0280011062.01.T01:CDS 40.0%
ATACTATGGGTATGGACAGC+CGG + Chr2:78999770-78999789 MsG0280011062.01.T01:CDS 45.0%
CAACTCTTCCCTTTGTTCCA+AGG - Chr2:79000007-79000026 None:intergenic 45.0%
GGAAGAGTTGTATGATCCTC+TGG + Chr2:79000017-79000036 MsG0280011062.01.T01:CDS 45.0%
TCTTCCCTTTGTTCCAAGGT+AGG - Chr2:79000003-79000022 None:intergenic 45.0%
TGGAGTGCATACTATGGGTA+TGG + Chr2:78999762-78999781 MsG0280011062.01.T01:CDS 45.0%
TGTGCCTACCTTGGAACAAA+GGG + Chr2:78999996-79000015 MsG0280011062.01.T01:CDS 45.0%
!! AAATGGTTCTAGGACGTACC+TGG + Chr2:78999708-78999727 MsG0280011062.01.T01:CDS 45.0%
AGCTATGTCTGTGCCTACCT+TGG + Chr2:78999987-79000006 MsG0280011062.01.T01:CDS 50.0%
CTATGCACAATACCCGCAAC+AGG + Chr2:78999860-78999879 MsG0280011062.01.T01:CDS 50.0%
CTGTGCCTACCTTGGAACAA+AGG + Chr2:78999995-79000014 MsG0280011062.01.T01:CDS 50.0%
TACTATGGGTATGGACAGCC+GGG + Chr2:78999771-78999790 MsG0280011062.01.T01:CDS 50.0%
TTATGCATATGGGGCTGCTC+AGG + Chr2:78999803-78999822 MsG0280011062.01.T01:CDS 50.0%
CTAGGACGTACCTGGAGGAT+GGG + Chr2:78999716-78999735 MsG0280011062.01.T01:CDS 55.0%
TAGGACGTACCTGGAGGATG+GGG + Chr2:78999717-78999736 MsG0280011062.01.T01:CDS 55.0%
! TCAACATCGGGCATTGCCAG+AGG - Chr2:79000036-79000055 None:intergenic 55.0%
! TCTAGGACGTACCTGGAGGA+TGG + Chr2:78999715-78999734 MsG0280011062.01.T01:CDS 55.0%
!! TGGTTCTAGGACGTACCTGG+AGG + Chr2:78999711-78999730 MsG0280011062.01.T01:CDS 55.0%
ACCTGGAGGATGGGGACAAC+AGG + Chr2:78999725-78999744 MsG0280011062.01.T01:CDS 60.0%
ACCTGTTGTCCCCATCCTCC+AGG - Chr2:78999729-78999748 None:intergenic 60.0%
TGGAGGATGGGGACAACAGG+TGG + Chr2:78999728-78999747 MsG0280011062.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 78999700 79000084 78999700 ID=MsG0280011062.01;Name=MsG0280011062.01
Chr2 mRNA 78999700 79000084 78999700 ID=MsG0280011062.01.T01;Parent=MsG0280011062.01;Name=MsG0280011062.01.T01;_AED=0.49;_eAED=0.57;_QI=0|1|0|1|1|1|2|0|100
Chr2 exon 78999700 78999881 78999700 ID=MsG0280011062.01.T01:exon:9906;Parent=MsG0280011062.01.T01
Chr2 exon 78999964 79000084 78999964 ID=MsG0280011062.01.T01:exon:9907;Parent=MsG0280011062.01.T01
Chr2 CDS 78999700 78999881 78999700 ID=MsG0280011062.01.T01:cds;Parent=MsG0280011062.01.T01
Chr2 CDS 78999964 79000084 78999964 ID=MsG0280011062.01.T01:cds;Parent=MsG0280011062.01.T01
Gene Sequence

>MsG0280011062.01.T01

TTGGTTCTAAATGGTTCTAGGACGTACCTGGAGGATGGGGACAACAGGTGGATCAAAGTCAATGGAGTGCATACTATGGGTATGGACAGCCGGGTTATGAAGCTTATGCATATGGGGCTGCTCAGGATCCTTCAATGTATGCATATGCTGGATATGCTGGCTATGCACAATACCCGCAACAGGTTGAAGGTGCTCAAGACGTATCAGCTATGTCTGTGCCTACCTTGGAACAAAGGGAAGAGTTGTATGATCCTCTGGCAATGCCCGATGTTGATAAGTAATTTCCCTCCTTTCTTTTTATAA
Protein sequence

>MsG0280011062.01.T01

LVLNGSRTYLEDGDNRWIKVNGVHTMGMDSRVMKLMHMGLLRILQCMHMLDMLAMHNTRNRLKVLKTYQLCLCLPWNKGKSCMILWQCPMLISNFPPFFL*