AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059366


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 29 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGATGAGGATGGAATTGT+AGG 0.375063 4.2:-13447995 MS.gene059366:CDS
GGATGAAATTAGAAAGTGTT+TGG 0.378934 4.2:-13447969 MS.gene059366:CDS
TGAGAAAGAATGCAATGAAA+TGG 0.388985 4.2:-13447910 MS.gene059366:CDS
GTGATGGGGAGAGGAGAGAA+AGG 0.406369 4.2:-13447941 MS.gene059366:CDS
AAGGGGTTGGCTAGAGAGGC+AGG 0.409507 4.2:-13447887 MS.gene059366:CDS
GTCCCGCAGAAAAGAATCTA+AGG 0.412896 4.2:-13447853 MS.gene059366:CDS
GCTAGAGAGGCAGGGAAGGA+AGG 0.496328 4.2:-13447878 MS.gene059366:CDS
AAAGTGTTTGGAAGTGGTGA+TGG 0.499781 4.2:-13447957 MS.gene059366:CDS
TTGGAAGTGGTGATGGGGAG+AGG 0.502226 4.2:-13447950 MS.gene059366:CDS
GTTGGCTAGAGAGGCAGGGA+AGG 0.508792 4.2:-13447882 MS.gene059366:CDS
GGTGAGAGTTGATGATAAAG+TGG 0.520496 4.2:-13448014 MS.gene059366:CDS
ATGGAAGGGGTTGGCTAGAG+AGG 0.536943 4.2:-13447891 MS.gene059366:CDS
AAGTGTTTGGAAGTGGTGAT+GGG 0.545845 4.2:-13447956 MS.gene059366:CDS
AGTTGATGATAAAGTGGATG+AGG 0.557996 4.2:-13448008 MS.gene059366:CDS
GGAGAATGCATGCATGGATA+CGG 0.559681 4.2:-13447807 MS.gene059366:CDS
ATGAGGATGGAATTGTAGGA+GGG 0.563817 4.2:-13447991 MS.gene059366:CDS
AAAGAATGCAATGAAATGGA+AGG 0.567197 4.2:-13447906 MS.gene059366:CDS
AATTAGAAAGTGTTTGGAAG+TGG 0.577533 4.2:-13447963 MS.gene059366:CDS
TGCAATGAAATGGAAGGGGT+TGG 0.578497 4.2:-13447900 MS.gene059366:CDS
AAGAATGCAATGAAATGGAA+GGG 0.580916 4.2:-13447905 MS.gene059366:CDS
AGAGAGGCAGGGAAGGAAGG+TGG 0.586569 4.2:-13447875 MS.gene059366:CDS
GATGAGGATGGAATTGTAGG+AGG 0.587770 4.2:-13447992 MS.gene059366:CDS
ATTATTGGAGAATGCATGCA+TGG 0.597677 4.2:-13447813 MS.gene059366:CDS
AGAATGCAATGAAATGGAAG+GGG 0.608881 4.2:-13447904 MS.gene059366:CDS
AGGGGTTGGCTAGAGAGGCA+GGG 0.613392 4.2:-13447886 MS.gene059366:CDS
GGGGAGAGGAGAGAAAGGAG+AGG 0.615489 4.2:-13447936 MS.gene059366:CDS
GATGATAAAGTGGATGAGGA+TGG 0.616208 4.2:-13448004 MS.gene059366:CDS
TGAGGATGGAATTGTAGGAG+GGG 0.617822 4.2:-13447990 MS.gene059366:CDS
AGTGTTTGGAAGTGGTGATG+GGG 0.640210 4.2:-13447955 MS.gene059366:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTTTGGATGATATATTAT+TGG - chr4.2:13447983-13448002 MS.gene059366:CDS 15.0%
!!! AAAGAATCTAAGGAAATTTT+TGG - chr4.2:13447968-13447987 MS.gene059366:CDS 20.0%
AAAGAATGCAATGAAATGGA+AGG - chr4.2:13447905-13447924 MS.gene059366:CDS 30.0%
AAGAATGCAATGAAATGGAA+GGG - chr4.2:13447906-13447925 MS.gene059366:CDS 30.0%
TGAGAAAGAATGCAATGAAA+TGG - chr4.2:13447901-13447920 MS.gene059366:CDS 30.0%
! TTTCCTTAGATTCTTTTCTG+CGG + chr4.2:13447964-13447983 None:intergenic 30.0%
!! AATTAGAAAGTGTTTGGAAG+TGG - chr4.2:13447848-13447867 MS.gene059366:CDS 30.0%
!! GGATGAAATTAGAAAGTGTT+TGG - chr4.2:13447842-13447861 MS.gene059366:CDS 30.0%
AGAATGCAATGAAATGGAAG+GGG - chr4.2:13447907-13447926 MS.gene059366:CDS 35.0%
ATTATTGGAGAATGCATGCA+TGG - chr4.2:13447998-13448017 MS.gene059366:CDS 35.0%
! TTCCTTAGATTCTTTTCTGC+GGG + chr4.2:13447963-13447982 None:intergenic 35.0%
!! AGTTGATGATAAAGTGGATG+AGG - chr4.2:13447803-13447822 MS.gene059366:CDS 35.0%
AAGTGTTTGGAAGTGGTGAT+GGG - chr4.2:13447855-13447874 MS.gene059366:CDS 40.0%
ATGAGGATGGAATTGTAGGA+GGG - chr4.2:13447820-13447839 MS.gene059366:CDS 40.0%
ATGGATACGGCTGAAAATTG+AGG - chr4.2:13448017-13448036 MS.gene059366:CDS 40.0%
GATGATAAAGTGGATGAGGA+TGG - chr4.2:13447807-13447826 MS.gene059366:CDS 40.0%
TGGATACGGCTGAAAATTGA+GGG - chr4.2:13448018-13448037 MS.gene059366:CDS 40.0%
! AAAGTGTTTGGAAGTGGTGA+TGG - chr4.2:13447854-13447873 MS.gene059366:CDS 40.0%
!! GGTGAGAGTTGATGATAAAG+TGG - chr4.2:13447797-13447816 MS.gene059366:CDS 40.0%
GATGAGGATGGAATTGTAGG+AGG - chr4.2:13447819-13447838 MS.gene059366:CDS 45.0%
GGAGAATGCATGCATGGATA+CGG - chr4.2:13448004-13448023 MS.gene059366:CDS 45.0%
GTCCCGCAGAAAAGAATCTA+AGG - chr4.2:13447958-13447977 MS.gene059366:CDS 45.0%
GTGGATGAGGATGGAATTGT+AGG - chr4.2:13447816-13447835 MS.gene059366:CDS 45.0%
TGAGGATGGAATTGTAGGAG+GGG - chr4.2:13447821-13447840 MS.gene059366:CDS 45.0%
TGCAATGAAATGGAAGGGGT+TGG - chr4.2:13447911-13447930 MS.gene059366:CDS 45.0%
! AGTGTTTGGAAGTGGTGATG+GGG - chr4.2:13447856-13447875 MS.gene059366:CDS 45.0%
! GTGATGGGGAGAGGAGAGAA+AGG - chr4.2:13447870-13447889 MS.gene059366:CDS 55.0%
!! ATGGAAGGGGTTGGCTAGAG+AGG - chr4.2:13447920-13447939 MS.gene059366:CDS 55.0%
!! TTGGAAGTGGTGATGGGGAG+AGG - chr4.2:13447861-13447880 MS.gene059366:CDS 55.0%
AGAGAGGCAGGGAAGGAAGG+TGG - chr4.2:13447936-13447955 MS.gene059366:CDS 60.0%
GCTAGAGAGGCAGGGAAGGA+AGG - chr4.2:13447933-13447952 MS.gene059366:CDS 60.0%
GGGGAGAGGAGAGAAAGGAG+AGG - chr4.2:13447875-13447894 MS.gene059366:CDS 60.0%
GTTGGCTAGAGAGGCAGGGA+AGG - chr4.2:13447929-13447948 MS.gene059366:CDS 60.0%
!! AAGGGGTTGGCTAGAGAGGC+AGG - chr4.2:13447924-13447943 MS.gene059366:CDS 60.0%
!! AGGGGTTGGCTAGAGAGGCA+GGG - chr4.2:13447925-13447944 MS.gene059366:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 13447796 13448037 13447796 ID=MS.gene059366
chr4.2 mRNA 13447796 13448037 13447796 ID=MS.gene059366.t1;Parent=MS.gene059366
chr4.2 exon 13447796 13448037 13447796 ID=MS.gene059366.t1.exon1;Parent=MS.gene059366.t1
chr4.2 CDS 13447796 13448037 13447796 ID=cds.MS.gene059366.t1;Parent=MS.gene059366.t1
Gene Sequence

>MS.gene059366

GGGTGAGAGTTGATGATAAAGTGGATGAGGATGGAATTGTAGGAGGGGATGAAATTAGAAAGTGTTTGGAAGTGGTGATGGGGAGAGGAGAGAAAGGAGAGGAATTGAGAAAGAATGCAATGAAATGGAAGGGGTTGGCTAGAGAGGCAGGGAAGGAAGGTGGTCCCGCAGAAAAGAATCTAAGGAAATTTTTGGATGATATATTATTGGAGAATGCATGCATGGATACGGCTGAAAATTGA

Protein sequence

>MS.gene059366.t1

GUELMIKWMRMELUEGMKLESVWKWUWGEERKERNUERMQUNGRGWLERQGRKVVPQKRIUGNFWMIYYWRMHAWIRLKI