AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene02807

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene02807.t1 MTR_5g012890 98.592 142 2 0 1 142 1 142 1.06e-99 282
MS.gene02807.t1 MTR_8g093770 93.651 126 8 0 17 142 18 143 6.01e-85 245
MS.gene02807.t1 MTR_4g006830 93.651 126 8 0 17 142 19 144 1.14e-83 242
MS.gene02807.t1 MTR_5g012890 94.393 107 6 0 1 107 1 107 5.86e-58 176
MS.gene02807.t1 MTR_4g073510 70.370 54 14 1 1 52 1 54 5.17e-17 76.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene02807.t1 AT2G32060 73.600 125 32 1 18 142 21 144 6.00e-65 194
MS.gene02807.t1 AT2G32060 73.600 125 32 1 18 142 21 144 6.00e-65 194
MS.gene02807.t1 AT2G32060 73.600 125 32 1 18 142 21 144 6.00e-65 194
MS.gene02807.t1 AT1G15930 73.600 125 32 1 18 142 21 144 2.43e-62 188
MS.gene02807.t1 AT1G15930 73.600 125 32 1 18 142 21 144 2.43e-62 188

Find 33 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGCTGCAAAACAACATTAT+AGG 0.217837 2.3:-60750958 None:intergenic
TTCACCAATTTGACATAATC+AGG 0.276386 2.3:-60750774 None:intergenic
TGTGTAGTTGTCAAGGATTT+TGG 0.355852 2.3:+60750921 MS.gene02807:CDS
GTTGTTGCAGCTGCAATTCC+AGG 0.358749 2.3:+60750603 MS.gene02807:CDS
CCAACCTGATTATGTCAAAT+TGG 0.373462 2.3:+60750770 MS.gene02807:CDS
CTTAGAAAGTCTCGTGCTTA+TGG 0.404639 2.3:+60750663 MS.gene02807:CDS
ACTTTCTAAGCACAAGTTGT+AGG 0.404720 2.3:-60750650 None:intergenic
ATCAGGTTGGTCACAATCTT+CGG 0.412966 2.3:-60750757 None:intergenic
GGAATTGCAGCTGCAACAAC+AGG 0.427757 2.3:-60750600 None:intergenic
ATGATGTCCATTGGCTCACC+TGG 0.429738 2.3:-60750621 None:intergenic
GGTAAAGCTAGGAAGGTTAC+CGG 0.476827 2.3:+60750891 MS.gene02807:CDS
AACATTGTGCTCTGCGCAGA+GGG 0.487600 2.3:-60750799 None:intergenic
CTTTCTAAGCACAAGTTGTA+GGG 0.509554 2.3:-60750649 None:intergenic
TATCAACCAAGAAATATGTC+TGG 0.510554 2.3:+60750552 None:intergenic
GACAACTACACAAGAGCATC+CGG 0.520115 2.3:-60750910 None:intergenic
CCAATTTGACATAATCAGGT+TGG 0.530247 2.3:-60750770 None:intergenic
TGCAAAGACCCTTGGAGAGT+GGG 0.530356 2.3:+60750842 MS.gene02807:CDS
AAGACCCTTGGAGAGTGGGC+TGG 0.532172 2.3:+60750846 MS.gene02807:CDS
GTTGCAAGTGCAAAGACCCT+TGG 0.543554 2.3:+60750834 MS.gene02807:CDS
TTGATTCAGAAGGTAAAGCT+AGG 0.543764 2.3:+60750880 MS.gene02807:CDS
AGGGCAGTCATGATGTCCAT+TGG 0.551573 2.3:-60750630 None:intergenic
TTCAGAAGGTAAAGCTAGGA+AGG 0.557714 2.3:+60750884 MS.gene02807:CDS
ATGCTCTTGTGTAGTTGTCA+AGG 0.563450 2.3:+60750914 MS.gene02807:CDS
AAATATGTCTGGTGAAGAAG+AGG 0.570792 2.3:+60750563 None:intergenic
ACAAACCAGCCCACTCTCCA+AGG 0.573283 2.3:-60750851 None:intergenic
GTGCAAAGACCCTTGGAGAG+TGG 0.578134 2.3:+60750841 MS.gene02807:CDS
TGCAATTCCAGGTGAGCCAA+TGG 0.586241 2.3:+60750614 MS.gene02807:CDS
TTGTGCAAGATTGATTCAGA+AGG 0.594862 2.3:+60750870 MS.gene02807:CDS
CTTGCACGAGGTCTTCATGA+AGG 0.605005 2.3:+60750690 MS.gene02807:CDS
AGAAAGTCTCGTGCTTATGG+TGG 0.620799 2.3:+60750666 MS.gene02807:CDS
GCTTATGGTGGTCTTGCACG+AGG 0.624672 2.3:+60750678 MS.gene02807:CDS
CAAACCAGCCCACTCTCCAA+GGG 0.627221 2.3:-60750850 None:intergenic
TAACATTGTGCTCTGCGCAG+AGG 0.632440 2.3:-60750800 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATGCTGCAAAACAACATTAT+AGG - chr2.3:60750961-60750980 None:intergenic 30.0%
TTCACCAATTTGACATAATC+AGG - chr2.3:60750777-60750796 None:intergenic 30.0%
ACTTTCTAAGCACAAGTTGT+AGG - chr2.3:60750653-60750672 None:intergenic 35.0%
CCAACCTGATTATGTCAAAT+TGG + chr2.3:60750770-60750789 MS.gene02807:CDS 35.0%
CCAATTTGACATAATCAGGT+TGG - chr2.3:60750773-60750792 None:intergenic 35.0%
CTTTCTAAGCACAAGTTGTA+GGG - chr2.3:60750652-60750671 None:intergenic 35.0%
TTGATTCAGAAGGTAAAGCT+AGG + chr2.3:60750880-60750899 MS.gene02807:CDS 35.0%
! TGTGTAGTTGTCAAGGATTT+TGG + chr2.3:60750921-60750940 MS.gene02807:CDS 35.0%
! TTGTGCAAGATTGATTCAGA+AGG + chr2.3:60750870-60750889 MS.gene02807:CDS 35.0%
ATGCTCTTGTGTAGTTGTCA+AGG + chr2.3:60750914-60750933 MS.gene02807:CDS 40.0%
CTTAGAAAGTCTCGTGCTTA+TGG + chr2.3:60750663-60750682 MS.gene02807:CDS 40.0%
TTCAGAAGGTAAAGCTAGGA+AGG + chr2.3:60750884-60750903 MS.gene02807:CDS 40.0%
!! AGTTGTCAAGGATTTTGGTG+AGG + chr2.3:60750926-60750945 MS.gene02807:CDS 40.0%
!! ATCAGGTTGGTCACAATCTT+CGG - chr2.3:60750760-60750779 None:intergenic 40.0%
AGAAAGTCTCGTGCTTATGG+TGG + chr2.3:60750666-60750685 MS.gene02807:CDS 45.0%
GGTAAAGCTAGGAAGGTTAC+CGG + chr2.3:60750891-60750910 MS.gene02807:CDS 45.0%
!! GACAACTACACAAGAGCATC+CGG - chr2.3:60750913-60750932 None:intergenic 45.0%
AACATTGTGCTCTGCGCAGA+GGG - chr2.3:60750802-60750821 None:intergenic 50.0%
AGGGCAGTCATGATGTCCAT+TGG - chr2.3:60750633-60750652 None:intergenic 50.0%
CTTGCACGAGGTCTTCATGA+AGG + chr2.3:60750690-60750709 MS.gene02807:CDS 50.0%
GGAATTGCAGCTGCAACAAC+AGG - chr2.3:60750603-60750622 None:intergenic 50.0%
GTTGCAAGTGCAAAGACCCT+TGG + chr2.3:60750834-60750853 MS.gene02807:CDS 50.0%
GTTGTTGCAGCTGCAATTCC+AGG + chr2.3:60750603-60750622 MS.gene02807:CDS 50.0%
TAACATTGTGCTCTGCGCAG+AGG - chr2.3:60750803-60750822 None:intergenic 50.0%
TGCAAAGACCCTTGGAGAGT+GGG + chr2.3:60750842-60750861 MS.gene02807:CDS 50.0%
TGCAATTCCAGGTGAGCCAA+TGG + chr2.3:60750614-60750633 MS.gene02807:CDS 50.0%
!! ATGATGTCCATTGGCTCACC+TGG - chr2.3:60750624-60750643 None:intergenic 50.0%
ACAAACCAGCCCACTCTCCA+AGG - chr2.3:60750854-60750873 None:intergenic 55.0%
CAAACCAGCCCACTCTCCAA+GGG - chr2.3:60750853-60750872 None:intergenic 55.0%
GTGCAAAGACCCTTGGAGAG+TGG + chr2.3:60750841-60750860 MS.gene02807:CDS 55.0%
! GCTTATGGTGGTCTTGCACG+AGG + chr2.3:60750678-60750697 MS.gene02807:CDS 55.0%
AAGACCCTTGGAGAGTGGGC+TGG + chr2.3:60750846-60750865 MS.gene02807:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 60750567 60750995 60750567 ID=MS.gene02807
chr2.3 mRNA 60750567 60750995 60750567 ID=MS.gene02807.t1;Parent=MS.gene02807
chr2.3 exon 60750567 60750995 60750567 ID=MS.gene02807.t1.exon1;Parent=MS.gene02807.t1
chr2.3 CDS 60750567 60750995 60750567 ID=cds.MS.gene02807.t1;Parent=MS.gene02807.t1
Gene Sequence

>MS.gene02807

ATGTCTGGTGAAGAAGAGGTTGTTGCAGTTGAGCCTGTTGTTGCAGCTGCAATTCCAGGTGAGCCAATGGACATCATGACTGCCCTACAACTTGTGCTTAGAAAGTCTCGTGCTTATGGTGGTCTTGCACGAGGTCTTCATGAAGGTGCAAAAGTGATTGAGAAGCATGCTGCACAGCTTTGTGTTCTAGCCGAAGATTGTGACCAACCTGATTATGTCAAATTGGTGAACGCCCTCTGCGCAGAGCACAATGTTAGCTTGTTGACAGTTGCAAGTGCAAAGACCCTTGGAGAGTGGGCTGGTTTGTGCAAGATTGATTCAGAAGGTAAAGCTAGGAAGGTTACCGGATGCTCTTGTGTAGTTGTCAAGGATTTTGGTGAGGAACACGAAGCCTATAATGTTGTTTTGCAGCATGTAAAAGCTAACTAA
Protein sequence

>MS.gene02807.t1

MSGEEEVVAVEPVVAAAIPGEPMDIMTALQLVLRKSRAYGGLARGLHEGAKVIEKHAAQLCVLAEDCDQPDYVKLVNALCAEHNVSLLTVASAKTLGEWAGLCKIDSEGKARKVTGCSCVVVKDFGEEHEAYNVVLQHVKAN