AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480023286.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023286.01.T02 MTR_8g089920 91.045 67 6 0 1 67 83 149 2.19e-38 124
MsG0480023286.01.T01 MTR_8g089920 93.289 149 10 0 1 149 1 149 7.81e-102 288
MsG0480023286.01.T01 MTR_3g086830 43.137 153 75 4 1 143 4 154 3.46e-23 89.4
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 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATATGGTTAATTTCAATTA+TGG 0.201378 4:+83315960 MsG0480023286.01.T01:CDS
TGAACGTGTGAAAGCTTCTT+TGG 0.251848 4:-83316117 None:intergenic
TGATTTCCCTATCTCTGATT+TGG 0.302555 4:-83316022 None:intergenic
CAAGAAGCCAAATCAGAGAT+AGG 0.355674 4:+83316015 MsG0480023286.01.T01:CDS
ATCATAAGAAAAGAAGCTTT+TGG 0.366357 4:+83316063 MsG0480023286.01.T01:CDS
GAGAAGGTTTGAGGAGATTG+AGG 0.374689 4:-83315852 None:intergenic
AATCTGTCACACTAGAAGTT+TGG 0.436538 4:-83315926 None:intergenic
GATTTGGCTTCTTGAATCAA+AGG 0.476574 4:-83316006 None:intergenic
AATTGCTGAGGTTGAAGAGA+AGG 0.495615 4:-83315868 None:intergenic
GAGGTTGAAGAGAAGGTTTG+AGG 0.504838 4:-83315861 None:intergenic
AAGAAGCTTTCACACGTTCA+AGG 0.506620 4:+83316120 MsG0480023286.01.T01:CDS
TAGAAGTTTGGCGGCGGTGA+CGG 0.511622 4:-83315914 None:intergenic
GCTACTCAAATTGACAAGAA+AGG 0.520563 4:+83316091 MsG0480023286.01.T01:CDS
TTGTCAGAGTTAGAAGCAGC+AGG 0.525527 4:+83315723 MsG0480023286.01.T01:CDS
GGAAATCAATGGAGATAACC+AGG 0.535671 4:+83316037 MsG0480023286.01.T01:CDS
AAGAAGCCAAATCAGAGATA+GGG 0.536255 4:+83316016 MsG0480023286.01.T01:CDS
ATCAGAGATAGGGAAATCAA+TGG 0.542074 4:+83316026 MsG0480023286.01.T01:CDS
AAGTTTGGCGGCGGTGACGG+CGG 0.545140 4:-83315911 None:intergenic
CACACGTTCAAGGACAGTGA+GGG 0.564456 4:+83316130 MsG0480023286.01.T01:CDS
CTGTCACACTAGAAGTTTGG+CGG 0.564777 4:-83315923 None:intergenic
TCAGCAATTTATATGTCTCA+TGG 0.564801 4:+83315882 MsG0480023286.01.T01:CDS
TCAAATGACAAACAACTACC+TGG 0.600195 4:+83315765 MsG0480023286.01.T01:CDS
TCACACTAGAAGTTTGGCGG+CGG 0.649605 4:-83315920 None:intergenic
CACGTTCAAGGACAGTGAGG+GGG 0.652331 4:+83316132 MsG0480023286.01.T01:CDS
ATGAGACATATAAATTGCTG+AGG 0.658796 4:-83315880 None:intergenic
GAAATCAATGGAGATAACCA+GGG 0.659361 4:+83316038 MsG0480023286.01.T01:CDS
ACACGTTCAAGGACAGTGAG+GGG 0.663586 4:+83316131 MsG0480023286.01.T01:CDS
AAGCAATAACAACAAACACC+AGG 0.676498 4:-83315783 None:intergenic
TCACACGTTCAAGGACAGTG+AGG 0.684808 4:+83316129 MsG0480023286.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATGGTTAATTTCAATTA+TGG + Chr4:83315960-83315979 MsG0480023286.01.T01:CDS 15.0%
!!! AGATTCTTTTTCTTCAAATA+TGG + Chr4:83315944-83315963 MsG0480023286.01.T01:CDS 20.0%
!! ATCATAAGAAAAGAAGCTTT+TGG + Chr4:83316063-83316082 MsG0480023286.01.T01:CDS 25.0%
ATGAGACATATAAATTGCTG+AGG - Chr4:83315883-83315902 None:intergenic 30.0%
TCAGCAATTTATATGTCTCA+TGG + Chr4:83315882-83315901 MsG0480023286.01.T01:CDS 30.0%
! TTCTTTTCTTATGATTTCCC+TGG - Chr4:83316058-83316077 None:intergenic 30.0%
AAGAAGCCAAATCAGAGATA+GGG + Chr4:83316016-83316035 MsG0480023286.01.T01:CDS 35.0%
AAGCAATAACAACAAACACC+AGG - Chr4:83315786-83315805 None:intergenic 35.0%
AATCTGTCACACTAGAAGTT+TGG - Chr4:83315929-83315948 None:intergenic 35.0%
ATCAGAGATAGGGAAATCAA+TGG + Chr4:83316026-83316045 MsG0480023286.01.T01:CDS 35.0%
GAAATCAATGGAGATAACCA+GGG + Chr4:83316038-83316057 MsG0480023286.01.T01:CDS 35.0%
GCTACTCAAATTGACAAGAA+AGG + Chr4:83316091-83316110 MsG0480023286.01.T01:CDS 35.0%
TCAAATGACAAACAACTACC+TGG + Chr4:83315765-83315784 MsG0480023286.01.T01:CDS 35.0%
TGATTTCCCTATCTCTGATT+TGG - Chr4:83316025-83316044 None:intergenic 35.0%
! GATTTGGCTTCTTGAATCAA+AGG - Chr4:83316009-83316028 None:intergenic 35.0%
AAGAAGCTTTCACACGTTCA+AGG + Chr4:83316120-83316139 MsG0480023286.01.T01:CDS 40.0%
AATTGCTGAGGTTGAAGAGA+AGG - Chr4:83315871-83315890 None:intergenic 40.0%
CAAGAAGCCAAATCAGAGAT+AGG + Chr4:83316015-83316034 MsG0480023286.01.T01:CDS 40.0%
GGAAATCAATGGAGATAACC+AGG + Chr4:83316037-83316056 MsG0480023286.01.T01:CDS 40.0%
TGAACGTGTGAAAGCTTCTT+TGG - Chr4:83316120-83316139 None:intergenic 40.0%
CTGTCACACTAGAAGTTTGG+CGG - Chr4:83315926-83315945 None:intergenic 45.0%
GAGAAGGTTTGAGGAGATTG+AGG - Chr4:83315855-83315874 None:intergenic 45.0%
GAGGTTGAAGAGAAGGTTTG+AGG - Chr4:83315864-83315883 None:intergenic 45.0%
TTGTCAGAGTTAGAAGCAGC+AGG + Chr4:83315723-83315742 MsG0480023286.01.T01:CDS 45.0%
ACACGTTCAAGGACAGTGAG+GGG + Chr4:83316131-83316150 MsG0480023286.01.T01:CDS 50.0%
CACACGTTCAAGGACAGTGA+GGG + Chr4:83316130-83316149 MsG0480023286.01.T01:CDS 50.0%
TCACACGTTCAAGGACAGTG+AGG + Chr4:83316129-83316148 MsG0480023286.01.T01:CDS 50.0%
TCACACTAGAAGTTTGGCGG+CGG - Chr4:83315923-83315942 None:intergenic 50.0%
AAGGACAGTGAGGGGGAGAA+TGG + Chr4:83316139-83316158 MsG0480023286.01.T01:CDS 55.0%
AGGACAGTGAGGGGGAGAAT+GGG + Chr4:83316140-83316159 MsG0480023286.01.T01:CDS 55.0%
CACGTTCAAGGACAGTGAGG+GGG + Chr4:83316132-83316151 MsG0480023286.01.T01:CDS 55.0%
TAGAAGTTTGGCGGCGGTGA+CGG - Chr4:83315917-83315936 None:intergenic 55.0%
! AAGTTTGGCGGCGGTGACGG+CGG - Chr4:83315914-83315933 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 83315717 83316166 83315717 ID=MsG0480023286.01;Name=MsG0480023286.01
Chr4 mRNA 83315717 83316166 83315717 ID=MsG0480023286.01.T01;Parent=MsG0480023286.01;Name=MsG0480023286.01.T01;_AED=0.43;_eAED=0.43;_QI=0|-1|0|1|-1|0|1|0|149
Chr4 exon 83315717 83316166 83315717 ID=MsG0480023286.01.T01:exon:11649;Parent=MsG0480023286.01.T01
Chr4 CDS 83315717 83316166 83315717 ID=MsG0480023286.01.T01:cds;Parent=MsG0480023286.01.T01
Chr4 mRNA 83315963 83316166 83315963 ID=MsG0480023286.01.T02;Parent=MsG0480023286.01;Name=MsG0480023286.01.T02;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|0|1|0|67
Chr4 exon 83315963 83316166 83315963 ID=MsG0480023286.01.T02:exon:11650;Parent=MsG0480023286.01.T02
Chr4 CDS 83315963 83316166 83315963 ID=MsG0480023286.01.T02:cds;Parent=MsG0480023286.01.T02
Gene Sequence

>MsG0480023286.01.T02

ATGGTTAATTTCAATTATGGTTTAAAGAAGAGCAATTCGATTGCCTTTGATTCAAGAAGCCAAATCAGAGATAGGGAAATCAATGGAGATAACCAGGGAAATCATAAGAAAAGAAGCTTTTGGTCAAAGCTACTCAAATTGACAAGAAAGGACTCCAAAGAAGCTTTCACACGTTCAAGGACAGTGAGGGGGAGAATGGGTTGA

>MsG0480023286.01.T01

ATGAAGTTGTCAGAGTTAGAAGCAGCAGGAACAAAGTGCAAAGAGCACTCAAATGACAAACAACTACCTGGTGTTTGTTGTTATTGCTTAAGAGACAAACTCTCAAAGCTCAATAACAGACAAATTCATCATGTACCTCAATCTCCTCAAACCTTCTCTTCAACCTCAGCAATTTATATGTCTCATGGTCATAGCCGCCGTCACCGCCGCCAAACTTCTAGTGTGACAGATTCTTTTTCTTCAAATATGGTTAATTTCAATTATGGTTTAAAGAAGAGCAATTCGATTGCCTTTGATTCAAGAAGCCAAATCAGAGATAGGGAAATCAATGGAGATAACCAGGGAAATCATAAGAAAAGAAGCTTTTGGTCAAAGCTACTCAAATTGACAAGAAAGGACTCCAAAGAAGCTTTCACACGTTCAAGGACAGTGAGGGGGAGAATGGGTTGA
Protein sequence

>MsG0480023286.01.T02

MVNFNYGLKKSNSIAFDSRSQIRDREINGDNQGNHKKRSFWSKLLKLTRKDSKEAFTRSRTVRGRMG*

>MsG0480023286.01.T01

MKLSELEAAGTKCKEHSNDKQLPGVCCYCLRDKLSKLNNRQIHHVPQSPQTFSSTSAIYMSHGHSRRHRRQTSSVTDSFSSNMVNFNYGLKKSNSIAFDSRSQIRDREINGDNQGNHKKRSFWSKLLKLTRKDSKEAFTRSRTVRGRMG*