AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380014017.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014017.01.T01 MTR_2g062930 93.939 66 4 0 1 66 1 66 6.18e-40 127
MsG0380014017.01.T01 MTR_4g051375 98.039 51 1 0 1 51 1 51 1.82e-31 105
MsG0380014017.01.T01 MTR_1g007850 72.727 33 9 0 33 65 20 52 5.96e-11 53.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380014017.01.T01 ATCG00710 90.141 71 7 0 1 71 1 71 9.82e-42 130

Find 23 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAATTCTCTAATTAGAAATT+TGG 0.201810 3:-48662965 None:intergenic
AGAAATTTGGTCCAGTAAAA+TGG 0.222192 3:-48662952 None:intergenic
AAACCGTTGAATTCAGAATA+TGG 0.285183 3:+48662831 MsG0380014017.01.T01:CDS
ATGGGGAACTACCCCTTTGA+TGG 0.408879 3:+48662869 MsG0380014017.01.T01:CDS
GGTCCAAGACGAACTGTTGT+AGG 0.449268 3:+48662798 MsG0380014017.01.T01:CDS
CCCTTTGATGGGTATTGCAA+TGG 0.456957 3:+48662881 MsG0380014017.01.T01:CDS
TATTGCAATGGCTCTATTTG+CGG 0.465025 3:+48662893 MsG0380014017.01.T01:CDS
AGAATATGGTAAAGTAGCTC+CGG 0.467064 3:+48662845 MsG0380014017.01.T01:CDS
CCATTGCAATACCCATCAAA+GGG 0.506208 3:-48662881 None:intergenic
ATGGCTACACAAACCGTTGA+GGG 0.512439 3:+48662762 MsG0380014017.01.T01:CDS
GTTGAGGGTAGTTCTAGATC+TGG 0.522119 3:+48662777 MsG0380014017.01.T01:CDS
TGGTAAAGTAGCTCCGGGAT+GGG 0.527741 3:+48662851 MsG0380014017.01.T01:CDS
TCTCCTACAACAGTTCGTCT+TGG 0.532181 3:-48662801 None:intergenic
GCCATTGCAATACCCATCAA+AGG 0.539340 3:-48662882 None:intergenic
GGTAAAGTAGCTCCGGGATG+GGG 0.547587 3:+48662852 MsG0380014017.01.T01:CDS
TTACCATATTCTGAATTCAA+CGG 0.547816 3:-48662834 None:intergenic
TGGGGAACTACCCCTTTGAT+GGG 0.558023 3:+48662870 MsG0380014017.01.T01:CDS
ATGGTAAAGTAGCTCCGGGA+TGG 0.560142 3:+48662850 MsG0380014017.01.T01:CDS
GAATATGGTAAAGTAGCTCC+GGG 0.573000 3:+48662846 MsG0380014017.01.T01:CDS
AAAGGGGTAGTTCCCCATCC+CGG 0.593845 3:-48662864 None:intergenic
TATGGCTACACAAACCGTTG+AGG 0.620476 3:+48662761 None:intergenic
AGATCTAGAACTACCCTCAA+CGG 0.642132 3:-48662775 None:intergenic
CATTGCAATACCCATCAAAG+GGG 0.733375 3:-48662880 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTACCATATTCTGAATTCAA+CGG - Chr3:48662837-48662856 None:intergenic 25.0%
!! TTATAATTCGTCCATTTTAC+TGG + Chr3:48662941-48662960 MsG0380014017.01.T01:CDS 25.0%
AAACCGTTGAATTCAGAATA+TGG + Chr3:48662831-48662850 MsG0380014017.01.T01:CDS 30.0%
AGAAATTTGGTCCAGTAAAA+TGG - Chr3:48662955-48662974 None:intergenic 30.0%
AGAATATGGTAAAGTAGCTC+CGG + Chr3:48662845-48662864 MsG0380014017.01.T01:CDS 35.0%
! TATTGCAATGGCTCTATTTG+CGG + Chr3:48662893-48662912 MsG0380014017.01.T01:CDS 35.0%
CATTGCAATACCCATCAAAG+GGG - Chr3:48662883-48662902 None:intergenic 40.0%
CCATTGCAATACCCATCAAA+GGG - Chr3:48662884-48662903 None:intergenic 40.0%
GAATATGGTAAAGTAGCTCC+GGG + Chr3:48662846-48662865 MsG0380014017.01.T01:CDS 40.0%
! AGATCTAGAACTACCCTCAA+CGG - Chr3:48662778-48662797 None:intergenic 40.0%
ATGGCTACACAAACCGTTGA+GGG + Chr3:48662762-48662781 MsG0380014017.01.T01:CDS 45.0%
GCCATTGCAATACCCATCAA+AGG - Chr3:48662885-48662904 None:intergenic 45.0%
TCTCCTACAACAGTTCGTCT+TGG - Chr3:48662804-48662823 None:intergenic 45.0%
! CCCTTTGATGGGTATTGCAA+TGG + Chr3:48662881-48662900 MsG0380014017.01.T01:CDS 45.0%
!! GTTGAGGGTAGTTCTAGATC+TGG + Chr3:48662777-48662796 MsG0380014017.01.T01:CDS 45.0%
ATGGGGAACTACCCCTTTGA+TGG + Chr3:48662869-48662888 MsG0380014017.01.T01:CDS 50.0%
ATGGTAAAGTAGCTCCGGGA+TGG + Chr3:48662850-48662869 MsG0380014017.01.T01:CDS 50.0%
GGTCCAAGACGAACTGTTGT+AGG + Chr3:48662798-48662817 MsG0380014017.01.T01:CDS 50.0%
TGGGGAACTACCCCTTTGAT+GGG + Chr3:48662870-48662889 MsG0380014017.01.T01:CDS 50.0%
TGGTAAAGTAGCTCCGGGAT+GGG + Chr3:48662851-48662870 MsG0380014017.01.T01:CDS 50.0%
AAAGGGGTAGTTCCCCATCC+CGG - Chr3:48662867-48662886 None:intergenic 55.0%
GGTAAAGTAGCTCCGGGATG+GGG + Chr3:48662852-48662871 MsG0380014017.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr3 gene 48662762 48662980 48662762 ID=MsG0380014017.01;Name=MsG0380014017.01
Chr3 mRNA 48662762 48662980 48662762 ID=MsG0380014017.01.T01;Parent=MsG0380014017.01;Name=MsG0380014017.01.T01;_AED=0.51;_eAED=0.51;_QI=0|-1|0|1|-1|1|1|0|72
Chr3 exon 48662762 48662980 48662762 ID=MsG0380014017.01.T01:exon:11248;Parent=MsG0380014017.01.T01
Chr3 CDS 48662762 48662980 48662762 ID=MsG0380014017.01.T01:cds;Parent=MsG0380014017.01.T01
Gene Sequence

>MsG0380014017.01.T01

ATGGCTACACAAACCGTTGAGGGTAGTTCTAGATCTGGTCCAAGACGAACTGTTGTAGGAGATTTATTGAAACCGTTGAATTCAGAATATGGTAAAGTAGCTCCGGGATGGGGAACTACCCCTTTGATGGGTATTGCAATGGCTCTATTTGCGGTATTTCTCTCTATTATTTTAGAGATTTATAATTCGTCCATTTTACTGGACCAAATTTCTAATTAG

Protein sequence

>MsG0380014017.01.T01

MATQTVEGSSRSGPRRTVVGDLLKPLNSEYGKVAPGWGTTPLMGIAMALFAVFLSIILEIYNSSILLDQISN*