AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1087080


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 43 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCACGCCTCCGTTACCTTT+TGG 0.196515 7_2:-87699910 Msa1087080:CDS
CTGTTCCCTGGGATTGGCTT+TGG 0.228349 7_2:+87699725 None:intergenic
TGTTCCCTGGGATTGGCTTT+GGG 0.270024 7_2:+87699726 None:intergenic
TCTCAGGTAGACAGTTTCTA+TGG 0.287253 7_2:+87699875 None:intergenic
GGCAAAGAAGGCCTCCTTCC+GGG 0.289862 7_2:+87699774 None:intergenic
TCCTCGGGCCAGACGGAGAT+TGG 0.349112 7_2:+87699939 None:intergenic
GCTTCACTGTTCCCTGGGAT+TGG 0.355814 7_2:+87699719 None:intergenic
AGGCAAAGAAGGCCTCCTTC+CGG 0.382980 7_2:+87699773 None:intergenic
CCCTTCTGCCTTTGCACTCG+AGG 0.411231 7_2:-87699963 Msa1087080:CDS
ACAGACCAAGGGACAGTCTC+AGG 0.456050 7_2:+87699859 None:intergenic
CCTTCTGCCTTTGCACTCGA+GGG 0.461384 7_2:-87699962 Msa1087080:CDS
AAAAGCCCAAAGCCAATCCC+AGG 0.461472 7_2:-87699731 Msa1087080:CDS
GACTGTCCCTTGGTCTGTAC+TGG 0.464231 7_2:-87699854 Msa1087080:CDS
ATGAAGCTTCACTGTTCCCT+GGG 0.472889 7_2:+87699714 None:intergenic
TATGAAGCTTCACTGTTCCC+TGG 0.477188 7_2:+87699713 None:intergenic
CTCGAGGGCCAATCTCCGTC+TGG 0.480699 7_2:-87699947 Msa1087080:CDS
GCCTTCCACCTAAGCTGCGC+AGG 0.489457 7_2:-87699754 Msa1087080:CDS
TCCTGCGCAGCTTAGGTGGA+AGG 0.508478 7_2:+87699753 None:intergenic
CTCAGGTAGACAGTTTCTAT+GGG 0.510655 7_2:+87699876 None:intergenic
CCCTCGAGTGCAAAGGCAGA+AGG 0.511073 7_2:+87699962 None:intergenic
GCAAAGAAGGCCTCCTTCCG+GGG 0.515468 7_2:+87699775 None:intergenic
GAGGCGTGCAAAGGTTTCCT+CGG 0.526013 7_2:+87699923 None:intergenic
AGGCGTGCAAAGGTTTCCTC+GGG 0.527025 7_2:+87699924 None:intergenic
CCAGAGTGGTATCTCACTGA+TGG 0.527423 7_2:-87699807 Msa1087080:intron
CCTTGGTCTGTACTGGCACA+AGG 0.538614 7_2:-87699847 Msa1087080:intron
CAAAGAAGGCCTCCTTCCGG+GGG 0.550054 7_2:+87699776 None:intergenic
GCTTAGGTGGAAGGCAAAGA+AGG 0.550243 7_2:+87699762 None:intergenic
GCCAATCTCCGTCTGGCCCG+AGG 0.562208 7_2:-87699940 Msa1087080:CDS
GTCTACCTGAGACTGTCCCT+TGG 0.586612 7_2:-87699864 Msa1087080:CDS
AAGGTAACGGAGGCGTGCAA+AGG 0.595805 7_2:+87699914 None:intergenic
CCTCGAGTGCAAAGGCAGAA+GGG 0.595841 7_2:+87699963 None:intergenic
AAAGGTTTCCTCGGGCCAGA+CGG 0.597813 7_2:+87699932 None:intergenic
AAGAAGGCCTCCTTCCGGGG+GGG 0.600255 7_2:+87699778 None:intergenic
TGGGGCGTAGGCCTCCCAAA+AGG 0.606913 7_2:+87699895 None:intergenic
AAAGCCCAAAGCCAATCCCA+GGG 0.619579 7_2:-87699730 Msa1087080:CDS
AGACAGTTTCTATGGGGCGT+AGG 0.622986 7_2:+87699883 None:intergenic
AAAGAAGGCCTCCTTCCGGG+GGG 0.627949 7_2:+87699777 None:intergenic
GTAGGCCTCCCAAAAGGTAA+CGG 0.632223 7_2:+87699901 None:intergenic
CCTTGTGCCAGTACAGACCA+AGG 0.645647 7_2:+87699847 None:intergenic
AGATTGGCCCTCGAGTGCAA+AGG 0.670375 7_2:+87699955 None:intergenic
GGCCTCCCAAAAGGTAACGG+AGG 0.683463 7_2:+87699904 None:intergenic
CTTGTGCCAGTACAGACCAA+GGG 0.693537 7_2:+87699848 None:intergenic
TCAGGTAGACAGTTTCTATG+GGG 0.720720 7_2:+87699877 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TCAGGTAGACAGTTTCTATG+GGG + chr7_2:87699810-87699829 None:intergenic 40.0%
CTCAGGTAGACAGTTTCTAT+GGG + chr7_2:87699811-87699830 None:intergenic 40.0%
TCTCAGGTAGACAGTTTCTA+TGG + chr7_2:87699812-87699831 None:intergenic 40.0%
!! GAATTCTAGCTCTTCCAGAG+TGG - chr7_2:87699863-87699882 Msa1087080:CDS 45.0%
GTAGGCCTCCCAAAAGGTAA+CGG + chr7_2:87699786-87699805 None:intergenic 50.0%
AGACAGTTTCTATGGGGCGT+AGG + chr7_2:87699804-87699823 None:intergenic 50.0%
CTTGTGCCAGTACAGACCAA+GGG + chr7_2:87699839-87699858 None:intergenic 50.0%
CCATCAGTGAGATACCACTC+TGG + chr7_2:87699880-87699899 None:intergenic 50.0%
CCAGAGTGGTATCTCACTGA+TGG - chr7_2:87699877-87699896 Msa1087080:CDS 50.0%
GCTTAGGTGGAAGGCAAAGA+AGG + chr7_2:87699925-87699944 None:intergenic 50.0%
AAAAGCCCAAAGCCAATCCC+AGG - chr7_2:87699953-87699972 Msa1087080:CDS 50.0%
AAAGCCCAAAGCCAATCCCA+GGG - chr7_2:87699954-87699973 Msa1087080:CDS 50.0%
!! TGTTCCCTGGGATTGGCTTT+GGG + chr7_2:87699961-87699980 None:intergenic 50.0%
CCTCGAGTGCAAAGGCAGAA+GGG + chr7_2:87699724-87699743 None:intergenic 55.0%
CCTTCTGCCTTTGCACTCGA+GGG - chr7_2:87699722-87699741 Msa1087080:CDS 55.0%
! AGATTGGCCCTCGAGTGCAA+AGG + chr7_2:87699732-87699751 None:intergenic 55.0%
AAAGGTTTCCTCGGGCCAGA+CGG + chr7_2:87699755-87699774 None:intergenic 55.0%
AGGCGTGCAAAGGTTTCCTC+GGG + chr7_2:87699763-87699782 None:intergenic 55.0%
GAGGCGTGCAAAGGTTTCCT+CGG + chr7_2:87699764-87699783 None:intergenic 55.0%
!! AAGGTAACGGAGGCGTGCAA+AGG + chr7_2:87699773-87699792 None:intergenic 55.0%
! TGCACGCCTCCGTTACCTTT+TGG - chr7_2:87699774-87699793 Msa1087080:CDS 55.0%
! GCACGCCTCCGTTACCTTTT+GGG - chr7_2:87699775-87699794 Msa1087080:CDS 55.0%
GTCTACCTGAGACTGTCCCT+TGG - chr7_2:87699820-87699839 Msa1087080:intron 55.0%
ACAGACCAAGGGACAGTCTC+AGG + chr7_2:87699828-87699847 None:intergenic 55.0%
GACTGTCCCTTGGTCTGTAC+TGG - chr7_2:87699830-87699849 Msa1087080:intron 55.0%
CCTTGTGCCAGTACAGACCA+AGG + chr7_2:87699840-87699859 None:intergenic 55.0%
! CCTTGGTCTGTACTGGCACA+AGG - chr7_2:87699837-87699856 Msa1087080:intron 55.0%
AGGCAAAGAAGGCCTCCTTC+CGG + chr7_2:87699914-87699933 None:intergenic 55.0%
! CTTTTCCTGCGCAGCTTAGG+TGG + chr7_2:87699938-87699957 None:intergenic 55.0%
!! CTGTTCCCTGGGATTGGCTT+TGG + chr7_2:87699962-87699981 None:intergenic 55.0%
GCTTCACTGTTCCCTGGGAT+TGG + chr7_2:87699968-87699987 None:intergenic 55.0%
CCCTTCTGCCTTTGCACTCG+AGG - chr7_2:87699721-87699740 Msa1087080:CDS 60.0%
CCCTCGAGTGCAAAGGCAGA+AGG + chr7_2:87699725-87699744 None:intergenic 60.0%
! CGCCTCCGTTACCTTTTGGG+AGG - chr7_2:87699778-87699797 Msa1087080:CDS 60.0%
! GGCCTCCCAAAAGGTAACGG+AGG + chr7_2:87699783-87699802 None:intergenic 60.0%
AAAGAAGGCCTCCTTCCGGG+GGG + chr7_2:87699910-87699929 None:intergenic 60.0%
CAAAGAAGGCCTCCTTCCGG+GGG + chr7_2:87699911-87699930 None:intergenic 60.0%
GCAAAGAAGGCCTCCTTCCG+GGG + chr7_2:87699912-87699931 None:intergenic 60.0%
GGCAAAGAAGGCCTCCTTCC+GGG + chr7_2:87699913-87699932 None:intergenic 60.0%
TCCTGCGCAGCTTAGGTGGA+AGG + chr7_2:87699934-87699953 None:intergenic 60.0%
! GGGCTTTTCCTGCGCAGCTT+AGG + chr7_2:87699941-87699960 None:intergenic 60.0%
CTCGAGGGCCAATCTCCGTC+TGG - chr7_2:87699737-87699756 Msa1087080:CDS 65.0%
TCCTCGGGCCAGACGGAGAT+TGG + chr7_2:87699748-87699767 None:intergenic 65.0%
TGGGGCGTAGGCCTCCCAAA+AGG + chr7_2:87699792-87699811 None:intergenic 65.0%
AAGAAGGCCTCCTTCCGGGG+GGG + chr7_2:87699909-87699928 None:intergenic 65.0%
GCCTTCCACCTAAGCTGCGC+AGG - chr7_2:87699930-87699949 Msa1087080:CDS 65.0%
GCCAATCTCCGTCTGGCCCG+AGG - chr7_2:87699744-87699763 Msa1087080:CDS 70.0%
ACTGATGGCTCGAGCCCCCC+CGG - chr7_2:87699892-87699911 Msa1087080:CDS 70.0%
ATGGCTCGAGCCCCCCCGGA+AGG - chr7_2:87699896-87699915 Msa1087080:CDS 75.0%
! GCTCGAGCCCCCCCGGAAGG+AGG - chr7_2:87699899-87699918 Msa1087080:CDS 80.0%
Chromosome Type Strat End Strand Name
chr7_2 gene 87699715 87699991 87699715 ID=Msa1087080;Name=Msa1087080
chr7_2 mRNA 87699715 87699991 87699715 ID=Msa1087080-mRNA-1;Parent=Msa1087080;Name=Msa1087080-mRNA-1;_AED=0.38;_eAED=0.65;_QI=0|0|0|1|0|0|2|0|85
chr7_2 exon 87699848 87699991 87699848 ID=Msa1087080-mRNA-1:exon:24011;Parent=Msa1087080-mRNA-1
chr7_2 exon 87699715 87699825 87699715 ID=Msa1087080-mRNA-1:exon:24010;Parent=Msa1087080-mRNA-1
chr7_2 CDS 87699848 87699991 87699848 ID=Msa1087080-mRNA-1:cds;Parent=Msa1087080-mRNA-1
chr7_2 CDS 87699715 87699825 87699715 ID=Msa1087080-mRNA-1:cds;Parent=Msa1087080-mRNA-1
Gene Sequence

>Msa1087080

CAAGCTCCCTTCTGCCTTTGCACTCGAGGGCCAATCTCCGTCTGGCCCGAGGAAACCTTTGCACGCCTCCGTTACCTTTTGGGAGGCCTACGCCCCATAGAAACTGTCTACCTGAGACTGTCCCTTGGTCTGTACTGGCACAAGAGTGGTATCTCACTGATGGCTCGAGCCCCCCCGGAAGGAGGCCTTCTTTGCCTTCCACCTAAGCTGCGCAGGAAAAGCCCAAAGCCAATCCCAGGGAACAGTGAAGCTTCA

Protein sequence

>Msa1087080

QAPFCLCTRGPISVWPEETFARLRYLLGGLRPIETVYLRLSLGLYWHKSGISLMARAPPEGGLLCLPPKLRRKSPKPIPGNSEAS