AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene068823

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene068823.t1 MTR_5g049260 96.522 115 4 0 1 115 139 253 2.15e-79 234
MS.gene068823.t1 MTR_5g049270 96.522 115 4 0 1 115 139 253 2.15e-79 234
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene068823.t1 AT3G25545 49.412 85 42 1 2 86 150 233 1.39e-20 84.0

Find 28 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGCTAGCTTGTGTGTTTCT+TGG 0.231999 5.2:+43179867 MS.gene068823:CDS
GGACTCGGTGCCGCCATTCT+TGG 0.292638 5.2:+43179821 MS.gene068823:CDS
GGTTTGGGTGAGTTTGAGTT+TGG 0.295588 5.2:+43179938 MS.gene068823:CDS
AAGGATTTGCTTCGAGGTTT+GGG 0.314069 5.2:+43179923 MS.gene068823:CDS
GAAGGATTTGCTTCGAGGTT+TGG 0.357970 5.2:+43179922 MS.gene068823:CDS
GTTTGGGTGAGTTTGAGTTT+GGG 0.402440 5.2:+43179939 MS.gene068823:CDS
CCGTCTGGAAGCGTTGTTGA+TGG 0.413333 5.2:+43179800 MS.gene068823:CDS
TTTCAAATTTGGGAGGAGTA+AGG 0.452557 5.2:+43179979 MS.gene068823:CDS
GGAGAAATTGTTGAGTGGAT+TGG 0.462542 5.2:+43179769 MS.gene068823:CDS
TTGTTGAAGGATTTGCTTCG+AGG 0.480507 5.2:+43179917 MS.gene068823:CDS
GGATTGGAGTATTACCCGTC+TGG 0.503439 5.2:+43179785 MS.gene068823:CDS
AATCTGACACCGTCCAAGAA+TGG 0.503968 5.2:-43179834 None:intergenic
AGCAGACCACGGTGATTCAT+CGG 0.542746 5.2:-43179683 None:intergenic
TGAAAGGAAGAAAGCGGATG+AGG 0.548854 5.2:+43179748 MS.gene068823:CDS
ACAACATCTGAATCAAATTG+AGG 0.556465 5.2:-43179890 None:intergenic
GGAAGCGTTGTTGATGGACT+CGG 0.567830 5.2:+43179806 MS.gene068823:CDS
CATCAACAACGCTTCCAGAC+GGG 0.576803 5.2:-43179799 None:intergenic
GTTTGGGTTTAGTGATGATG+AGG 0.577632 5.2:+43179955 MS.gene068823:CDS
CGAGGCGGTTGCATTCAAGC+TGG 0.584066 5.2:+43179715 MS.gene068823:CDS
CTTGAATGCAACCGCCTCGT+CGG 0.585956 5.2:-43179711 None:intergenic
TCGGTGCCGCCATTCTTGGA+CGG 0.607388 5.2:+43179825 MS.gene068823:CDS
GATGAGGAGAAATTGTTGAG+TGG 0.611429 5.2:+43179764 MS.gene068823:CDS
CCATCAACAACGCTTCCAGA+CGG 0.615004 5.2:-43179800 None:intergenic
TGGTCTGCTGTCTTCCGACG+AGG 0.661086 5.2:+43179697 MS.gene068823:CDS
TCTGCTGTCTTCCGACGAGG+CGG 0.672935 5.2:+43179700 MS.gene068823:CDS
CGTCGGAAGACAGCAGACCA+CGG 0.686393 5.2:-43179694 None:intergenic
CTGACACCGTCCAAGAATGG+CGG 0.706584 5.2:-43179831 None:intergenic
ATCCAGCCGATGAATCACCG+TGG 0.786438 5.2:+43179677 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATGATGAGGTTTTCAAATTT+GGG + chr5.2:43179969-43179988 MS.gene068823:CDS 25.0%
!!! GTGTCAGATTTTGAAAATTA+GGG + chr5.2:43179847-43179866 MS.gene068823:CDS 25.0%
ACAACATCTGAATCAAATTG+AGG - chr5.2:43179893-43179912 None:intergenic 30.0%
! GATGATGAGGTTTTCAAATT+TGG + chr5.2:43179968-43179987 MS.gene068823:CDS 30.0%
!! GGTGTCAGATTTTGAAAATT+AGG + chr5.2:43179846-43179865 MS.gene068823:CDS 30.0%
!!! AGATGTTGTTTTGTTGTTGA+AGG + chr5.2:43179904-43179923 MS.gene068823:CDS 30.0%
TTTCAAATTTGGGAGGAGTA+AGG + chr5.2:43179979-43179998 MS.gene068823:CDS 35.0%
! ATGAGGTTTTCAAATTTGGG+AGG + chr5.2:43179972-43179991 MS.gene068823:CDS 35.0%
! TTTTGCTGAAAGGAAGAAAG+CGG + chr5.2:43179742-43179761 MS.gene068823:CDS 35.0%
GATGAGGAGAAATTGTTGAG+TGG + chr5.2:43179764-43179783 MS.gene068823:CDS 40.0%
GGAGAAATTGTTGAGTGGAT+TGG + chr5.2:43179769-43179788 MS.gene068823:CDS 40.0%
! AAGGATTTGCTTCGAGGTTT+GGG + chr5.2:43179923-43179942 MS.gene068823:CDS 40.0%
! GTTTGGGTGAGTTTGAGTTT+GGG + chr5.2:43179939-43179958 MS.gene068823:CDS 40.0%
! GTTTGGGTTTAGTGATGATG+AGG + chr5.2:43179955-43179974 MS.gene068823:CDS 40.0%
! TTGTTGAAGGATTTGCTTCG+AGG + chr5.2:43179917-43179936 MS.gene068823:CDS 40.0%
AATCTGACACCGTCCAAGAA+TGG - chr5.2:43179837-43179856 None:intergenic 45.0%
TGAAAGGAAGAAAGCGGATG+AGG + chr5.2:43179748-43179767 MS.gene068823:CDS 45.0%
! AGCTGGAGAGTTTTGCTGAA+AGG + chr5.2:43179732-43179751 MS.gene068823:CDS 45.0%
! GAAGGATTTGCTTCGAGGTT+TGG + chr5.2:43179922-43179941 MS.gene068823:CDS 45.0%
! GGTTTGGGTGAGTTTGAGTT+TGG + chr5.2:43179938-43179957 MS.gene068823:CDS 45.0%
CATCAACAACGCTTCCAGAC+GGG - chr5.2:43179802-43179821 None:intergenic 50.0%
CCATCAACAACGCTTCCAGA+CGG - chr5.2:43179803-43179822 None:intergenic 50.0%
! GGATTGGAGTATTACCCGTC+TGG + chr5.2:43179785-43179804 MS.gene068823:CDS 50.0%
!! GGAAGCGTTGTTGATGGACT+CGG + chr5.2:43179806-43179825 MS.gene068823:CDS 50.0%
!! GGGCTAGCTTGTGTGTTTCT+TGG + chr5.2:43179867-43179886 MS.gene068823:CDS 50.0%
CTGACACCGTCCAAGAATGG+CGG - chr5.2:43179834-43179853 None:intergenic 55.0%
CTTGAATGCAACCGCCTCGT+CGG - chr5.2:43179714-43179733 None:intergenic 55.0%
!! CCGTCTGGAAGCGTTGTTGA+TGG + chr5.2:43179800-43179819 MS.gene068823:CDS 55.0%
CGAGGCGGTTGCATTCAAGC+TGG + chr5.2:43179715-43179734 MS.gene068823:CDS 60.0%
CGTCGGAAGACAGCAGACCA+CGG - chr5.2:43179697-43179716 None:intergenic 60.0%
TCTGCTGTCTTCCGACGAGG+CGG + chr5.2:43179700-43179719 MS.gene068823:CDS 60.0%
TGGTCTGCTGTCTTCCGACG+AGG + chr5.2:43179697-43179716 MS.gene068823:CDS 60.0%
!! TCGGTGCCGCCATTCTTGGA+CGG + chr5.2:43179825-43179844 MS.gene068823:CDS 60.0%
!! GGACTCGGTGCCGCCATTCT+TGG + chr5.2:43179821-43179840 MS.gene068823:CDS 65.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 43179686 43180033 43179686 ID=MS.gene068823
chr5.2 mRNA 43179686 43180033 43179686 ID=MS.gene068823.t1;Parent=MS.gene068823
chr5.2 exon 43179686 43180033 43179686 ID=MS.gene068823.t1.exon1;Parent=MS.gene068823.t1
chr5.2 CDS 43179686 43180033 43179686 ID=cds.MS.gene068823.t1;Parent=MS.gene068823.t1
Gene Sequence

>MS.gene068823

ATGAATCACCGTGGTCTGCTGTCTTCCGACGAGGCGGTTGCATTCAAGCTGGAGAGTTTTGCTGAAAGGAAGAAAGCGGATGAGGAGAAATTGTTGAGTGGATTGGAGTATTACCCGTCTGGAAGCGTTGTTGATGGACTCGGTGCCGCCATTCTTGGACGGTGTCAGATTTTGAAAATTAGGGCTAGCTTGTGTGTTTCTTGGCCTCAATTTGATTCAGATGTTGTTTTGTTGTTGAAGGATTTGCTTCGAGGTTTGGGTGAGTTTGAGTTTGGGTTTAGTGATGATGAGGTTTTCAAATTTGGGAGGAGTAAGGATCATGTTTTTCAATCTCACTTGTATATTTGA
Protein sequence

>MS.gene068823.t1

MNHRGLLSSDEAVAFKLESFAERKKADEEKLLSGLEYYPSGSVVDGLGAAILGRCQILKIRASLCVSWPQFDSDVVLLLKDLLRGLGEFEFGFSDDEVFKFGRSKDHVFQSHLYI