AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene38721

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene38721.t1 MTR_3g101600 70.635 126 10 1 1 126 1 99 9.58e-58 174
MS.gene38721.t1 MTR_3g101610 59.350 123 22 1 1 123 1 95 2.03e-43 137
MS.gene38721.t1 MTR_1g019720 59.756 82 33 0 42 123 12 93 3.69e-31 107
MS.gene38721.t1 MTR_1g019715 58.537 82 34 0 42 123 12 93 7.11e-31 106
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 28 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGAGGACTCTTTGCCTCTT+GGG 0.371849 3.3:-84150775 MS.gene38721:CDS
CAAGAGGACTCTTTGCCTCT+TGG 0.391233 3.3:-84150776 MS.gene38721:CDS
AAATTCAGGTATGCCGTTCA+TGG 0.405667 3.3:-84151021 None:intergenic
CGGTGGAGCAATTCAAACTA+TGG 0.422285 3.3:-84150872 MS.gene38721:CDS
TGTCAAAATCAAACAATCCT+AGG 0.458275 3.3:-84150652 None:intergenic
GGGTTCAGTGATCATCATCT+TGG 0.489219 3.3:-84150990 MS.gene38721:CDS
GGTTCAGTGATCATCATCTT+GGG 0.490951 3.3:-84150989 MS.gene38721:CDS
GAATTTGACACAAGCAATGA+TGG 0.502729 3.3:-84150840 MS.gene38721:CDS
GTGTCTGCAGCGTAAAAGTC+AGG 0.503300 3.3:+84150744 None:intergenic
AGGCAAAGAGTCCTCTTGTA+TGG 0.503649 3.3:+84150781 None:intergenic
TGCCGTTCATGGAGCACAAA+GGG 0.513317 3.3:-84151010 MS.gene38721:CDS
CTCAGTTGAATGATCGTCAT+GGG 0.514849 3.3:-84150908 MS.gene38721:CDS
ATCAATGAAACCGTTATGAT+TGG 0.516247 3.3:+84150722 None:intergenic
AACCCTTTGTGCTCCATGAA+CGG 0.532058 3.3:+84151008 None:intergenic
AGAGGACTCTTTGCCTCTTG+GGG 0.549979 3.3:-84150774 MS.gene38721:CDS
GCTTGTCTGCAAAGTGAACA+AGG 0.563870 3.3:+84150682 None:intergenic
CATGCTGTGCGCCATACAAG+AGG 0.583294 3.3:-84150792 MS.gene38721:CDS
AACTGAGAAACGTGTGATGA+TGG 0.584393 3.3:+84150924 None:intergenic
GCTGCAGACACCAATCATAA+CGG 0.590481 3.3:-84150732 MS.gene38721:CDS
TCTCAGTTGAATGATCGTCA+TGG 0.593062 3.3:-84150909 MS.gene38721:CDS
TCATGGGAAGCACGTGATGA+CGG 0.598511 3.3:-84150892 MS.gene38721:CDS
TGTGATGATGGTGATGGAGT+CGG 0.625434 3.3:+84150936 None:intergenic
GAAACGTGTGATGATGGTGA+TGG 0.634663 3.3:+84150930 None:intergenic
ATGCCGTTCATGGAGCACAA+AGG 0.642777 3.3:-84151011 MS.gene38721:CDS
GTCAGGACATATACCCCAAG+AGG 0.657672 3.3:+84150761 None:intergenic
TGATGGCAAAATCAGCAAAG+AGG 0.664740 3.3:-84150823 MS.gene38721:CDS
TGGGAAGCACGTGATGACGG+TGG 0.691060 3.3:-84150889 MS.gene38721:CDS
TGGGAAACATGTGACAACTG+TGG 0.741341 3.3:-84150970 MS.gene38721:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATCAATGAAACCGTTATGAT+TGG + chr3.3:84150945-84150964 None:intergenic 30.0%
GAATTTGACACAAGCAATGA+TGG - chr3.3:84150824-84150843 MS.gene38721:CDS 35.0%
AACTGAGAAACGTGTGATGA+TGG + chr3.3:84150743-84150762 None:intergenic 40.0%
CTCAGTTGAATGATCGTCAT+GGG - chr3.3:84150756-84150775 MS.gene38721:CDS 40.0%
GGTTCAGTGATCATCATCTT+GGG - chr3.3:84150675-84150694 MS.gene38721:CDS 40.0%
TCTCAGTTGAATGATCGTCA+TGG - chr3.3:84150755-84150774 MS.gene38721:CDS 40.0%
TGATGGCAAAATCAGCAAAG+AGG - chr3.3:84150841-84150860 MS.gene38721:CDS 40.0%
AACCCTTTGTGCTCCATGAA+CGG + chr3.3:84150659-84150678 None:intergenic 45.0%
AAGAGGACTCTTTGCCTCTT+GGG - chr3.3:84150889-84150908 MS.gene38721:CDS 45.0%
AGGCAAAGAGTCCTCTTGTA+TGG + chr3.3:84150886-84150905 None:intergenic 45.0%
CGGTGGAGCAATTCAAACTA+TGG - chr3.3:84150792-84150811 MS.gene38721:CDS 45.0%
GCTGCAGACACCAATCATAA+CGG - chr3.3:84150932-84150951 MS.gene38721:CDS 45.0%
GCTTGTCTGCAAAGTGAACA+AGG + chr3.3:84150985-84151004 None:intergenic 45.0%
GGGTTCAGTGATCATCATCT+TGG - chr3.3:84150674-84150693 MS.gene38721:CDS 45.0%
TGGGAAACATGTGACAACTG+TGG - chr3.3:84150694-84150713 MS.gene38721:CDS 45.0%
!! GAAACGTGTGATGATGGTGA+TGG + chr3.3:84150737-84150756 None:intergenic 45.0%
!! TGTGATGATGGTGATGGAGT+CGG + chr3.3:84150731-84150750 None:intergenic 45.0%
AGAGGACTCTTTGCCTCTTG+GGG - chr3.3:84150890-84150909 MS.gene38721:CDS 50.0%
ATGCCGTTCATGGAGCACAA+AGG - chr3.3:84150653-84150672 MS.gene38721:CDS 50.0%
CAAGAGGACTCTTTGCCTCT+TGG - chr3.3:84150888-84150907 MS.gene38721:CDS 50.0%
GTCAGGACATATACCCCAAG+AGG + chr3.3:84150906-84150925 None:intergenic 50.0%
GTGTCTGCAGCGTAAAAGTC+AGG + chr3.3:84150923-84150942 None:intergenic 50.0%
TGCCGTTCATGGAGCACAAA+GGG - chr3.3:84150654-84150673 MS.gene38721:CDS 50.0%
! TCATGGGAAGCACGTGATGA+CGG - chr3.3:84150772-84150791 MS.gene38721:CDS 50.0%
CATGCTGTGCGCCATACAAG+AGG - chr3.3:84150872-84150891 MS.gene38721:CDS 55.0%
!! TGGGAAGCACGTGATGACGG+TGG - chr3.3:84150775-84150794 MS.gene38721:CDS 60.0%


Chromosome Type Strat End Strand Name
chr3.3 gene 84150653 84151033 84150653 ID=MS.gene38721
chr3.3 mRNA 84150653 84151033 84150653 ID=MS.gene38721.t1;Parent=MS.gene38721
chr3.3 exon 84150653 84151033 84150653 ID=MS.gene38721.t1.exon1;Parent=MS.gene38721.t1
chr3.3 CDS 84150653 84151033 84150653 ID=cds.MS.gene38721.t1;Parent=MS.gene38721.t1
Gene Sequence

>MS.gene38721

ATGCCGTTCATGGAGCACAAAGGGTTCAGTGATCATCATCTTGGGAAACATGTGACAACTGTGGAGCACAAAAGACCGACTCCATCACCATCATCACACGTTTCTCAGTTGAATGATCGTCATGGGAAGCACGTGATGACGGTGGAGCAATTCAAACTATGGTTGAAGAAAGAATTTGACACAAGCAATGATGGCAAAATCAGCAAAGAGGAACTGCGACATGCTGTGCGCCATACAAGAGGACTCTTTGCCTCTTGGGGTATATGTCCTGACTTTTACGCTGCAGACACCAATCATAACGGTTTCATTGATGACAATGAATTCAAAAACCTTGTTCACTTTGCAGACAAGCATTTCAATGTCAAAATCAAACAATCCTAG
Protein sequence

>MS.gene38721.t1

MPFMEHKGFSDHHLGKHVTTVEHKRPTPSPSSHVSQLNDRHGKHVMTVEQFKLWLKKEFDTSNDGKISKEELRHAVRHTRGLFASWGICPDFYAADTNHNGFIDDNEFKNLVHFADKHFNVKIKQS