AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013997.01


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 32 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCGCGGGTACTTCGTTCTA+AGG 0.329525 3:+48609001 None:intergenic
CTCTTGCGCCGAAGATGAAC+GGG 0.343608 3:-48609082 None:intergenic
TTGTCCACGGAGGGTGAGTC+AGG 0.351069 3:-48608876 MsG0380013997.01.T01:CDS
TACGCCTTTCGGCCTGATCT+AGG 0.398245 3:+48608852 None:intergenic
AACGAAGTACCCGCGCGAGC+AGG 0.426901 3:-48608995 MsG0380013997.01.T01:CDS
GGTGAGTCAGGGCCTAGATC+AGG 0.455336 3:-48608864 MsG0380013997.01.T01:CDS
TGTCCATCGACTACGCCTTT+CGG 0.477754 3:+48608841 None:intergenic
TCCAATGCCCCGAAAACCTA+AGG 0.481914 3:-48608913 MsG0380013997.01.T01:CDS
GGTTGACGAAGCGGAGGAAG+CGG 0.484990 3:-48608973 MsG0380013997.01.T01:CDS
CTTCGTCAACCCTGCTCGCG+CGG 0.492303 3:+48608985 None:intergenic
TTCGTCAACCCTGCTCGCGC+GGG 0.505591 3:+48608986 None:intergenic
GCTCTTGCGCCGAAGATGAA+CGG 0.513512 3:-48609083 None:intergenic
AACCTTGCGGAGGAACCCTT+AGG 0.515988 3:+48608897 None:intergenic
TAAGCGATCTGCCGAAGCTG+TGG 0.542461 3:-48609057 MsG0380013997.01.T01:CDS
TTCCTCCGCAAGGTTGTCCA+CGG 0.546127 3:-48608889 MsG0380013997.01.T01:CDS
TCCGCAAGGTTGTCCACGGA+GGG 0.546922 3:-48608885 MsG0380013997.01.T01:CDS
GCGGAGGAAGCGGAGAATGT+CGG 0.549458 3:-48608963 MsG0380013997.01.T01:CDS
ACGAAGTACCCGCGCGAGCA+GGG 0.565436 3:-48608994 MsG0380013997.01.T01:CDS
AACCTAAGGGTTCCTCCGCA+AGG 0.569054 3:-48608899 MsG0380013997.01.T01:CDS
CGCGAGCAGGGTTGACGAAG+CGG 0.569362 3:-48608982 MsG0380013997.01.T01:CDS
AAGCGATCTGCCGAAGCTGT+GGG 0.575599 3:-48609056 MsG0380013997.01.T01:CDS
TGTCCACGGAGGGTGAGTCA+GGG 0.595822 3:-48608875 MsG0380013997.01.T01:CDS
CTCCGCAAGGTTGTCCACGG+AGG 0.600224 3:-48608886 MsG0380013997.01.T01:CDS
ACCCTCCGTGGACAACCTTG+CGG 0.605962 3:+48608884 None:intergenic
AGGGCCTAGATCAGGCCGAA+AGG 0.608247 3:-48608856 MsG0380013997.01.T01:CDS
GGCTTGAGTAACGCAAACAT+TGG 0.611831 3:-48608942 MsG0380013997.01.T01:CDS
CCAATGCCCCGAAAACCTAA+GGG 0.629622 3:-48608912 MsG0380013997.01.T01:CDS
CTCCGTGGACAACCTTGCGG+AGG 0.639861 3:+48608887 None:intergenic
GAGCAGGGTTGACGAAGCGG+AGG 0.645624 3:-48608979 MsG0380013997.01.T01:CDS
AGGCCCTGACTCACCCTCCG+TGG 0.662428 3:+48608872 None:intergenic
GCGGGTACTTCGTTCTAAGG+CGG 0.671857 3:+48609004 None:intergenic
TCTTGCGCCGAAGATGAACG+GGG 0.682086 3:-48609081 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATGTAAAAATGAATCGGTAG+GGG - Chr3:48608886-48608905 MsG0380013997.01.T01:CDS 30.0%
GATGTAAAAATGAATCGGTA+GGG - Chr3:48608885-48608904 MsG0380013997.01.T01:CDS 30.0%
TGTGGGATGTAAAAATGAAT+CGG - Chr3:48608880-48608899 MsG0380013997.01.T01:CDS 30.0%
GGATGTAAAAATGAATCGGT+AGG - Chr3:48608884-48608903 MsG0380013997.01.T01:CDS 35.0%
! ATTTTTACATCCCACAGCTT+CGG + Chr3:48608876-48608895 None:intergenic 35.0%
GGCTTGAGTAACGCAAACAT+TGG - Chr3:48608977-48608996 MsG0380013997.01.T01:CDS 45.0%
CCAATGCCCCGAAAACCTAA+GGG - Chr3:48609007-48609026 MsG0380013997.01.T01:CDS 50.0%
TCCAATGCCCCGAAAACCTA+AGG - Chr3:48609006-48609025 MsG0380013997.01.T01:CDS 50.0%
! CGGAGGAACCCTTAGGTTTT+CGG + Chr3:48609018-48609037 None:intergenic 50.0%
! GAGGAACCCTTAGGTTTTCG+GGG + Chr3:48609016-48609035 None:intergenic 50.0%
! GGAGGAACCCTTAGGTTTTC+GGG + Chr3:48609017-48609036 None:intergenic 50.0%
AACCTAAGGGTTCCTCCGCA+AGG - Chr3:48609020-48609039 MsG0380013997.01.T01:CDS 55.0%
AACCTTGCGGAGGAACCCTT+AGG + Chr3:48609025-48609044 None:intergenic 55.0%
AAGCGATCTGCCGAAGCTGT+GGG - Chr3:48608863-48608882 MsG0380013997.01.T01:CDS 55.0%
TAAGCGATCTGCCGAAGCTG+TGG - Chr3:48608862-48608881 MsG0380013997.01.T01:CDS 55.0%
TACGCCTTTCGGCCTGATCT+AGG + Chr3:48609070-48609089 None:intergenic 55.0%
TTCCTCCGCAAGGTTGTCCA+CGG - Chr3:48609030-48609049 MsG0380013997.01.T01:CDS 55.0%
!! CCCTTAGGTTTTCGGGGCAT+TGG + Chr3:48609010-48609029 None:intergenic 55.0%
!! GCGGGTACTTCGTTCTAAGG+CGG + Chr3:48608918-48608937 None:intergenic 55.0%
ACCCTCCGTGGACAACCTTG+CGG + Chr3:48609038-48609057 None:intergenic 60.0%
AGGGCCTAGATCAGGCCGAA+AGG - Chr3:48609063-48609082 MsG0380013997.01.T01:CDS 60.0%
CGCGCGGGTACTTCGTTCTA+AGG + Chr3:48608921-48608940 None:intergenic 60.0%
GCGGAGGAAGCGGAGAATGT+CGG - Chr3:48608956-48608975 MsG0380013997.01.T01:CDS 60.0%
GGTGAGTCAGGGCCTAGATC+AGG - Chr3:48609055-48609074 MsG0380013997.01.T01:CDS 60.0%
GGTTGACGAAGCGGAGGAAG+CGG - Chr3:48608946-48608965 MsG0380013997.01.T01:CDS 60.0%
TCCGCAAGGTTGTCCACGGA+GGG - Chr3:48609034-48609053 MsG0380013997.01.T01:CDS 60.0%
TGTCCACGGAGGGTGAGTCA+GGG - Chr3:48609044-48609063 MsG0380013997.01.T01:CDS 60.0%
TTGTCCACGGAGGGTGAGTC+AGG - Chr3:48609043-48609062 MsG0380013997.01.T01:CDS 60.0%
CGCGAGCAGGGTTGACGAAG+CGG - Chr3:48608937-48608956 MsG0380013997.01.T01:CDS 65.0%
CTCCGCAAGGTTGTCCACGG+AGG - Chr3:48609033-48609052 MsG0380013997.01.T01:CDS 65.0%
CTCCGTGGACAACCTTGCGG+AGG + Chr3:48609035-48609054 None:intergenic 65.0%
CTTCGTCAACCCTGCTCGCG+CGG + Chr3:48608937-48608956 None:intergenic 65.0%
GAGCAGGGTTGACGAAGCGG+AGG - Chr3:48608940-48608959 MsG0380013997.01.T01:CDS 65.0%
TTCGTCAACCCTGCTCGCGC+GGG + Chr3:48608936-48608955 None:intergenic 65.0%
! AACGAAGTACCCGCGCGAGC+AGG - Chr3:48608924-48608943 MsG0380013997.01.T01:CDS 65.0%
! ACGAAGTACCCGCGCGAGCA+GGG - Chr3:48608925-48608944 MsG0380013997.01.T01:CDS 65.0%
AGGCCCTGACTCACCCTCCG+TGG + Chr3:48609050-48609069 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr3 gene 48608851 48609090 48608851 ID=MsG0380013997.01;Name=MsG0380013997.01
Chr3 mRNA 48608851 48609090 48608851 ID=MsG0380013997.01.T01;Parent=MsG0380013997.01;Name=MsG0380013997.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|79
Chr3 exon 48608851 48609090 48608851 ID=MsG0380013997.01.T01:exon:9239;Parent=MsG0380013997.01.T01
Chr3 CDS 48608851 48609090 48608851 ID=MsG0380013997.01.T01:cds;Parent=MsG0380013997.01.T01
Gene Sequence

>MsG0380013997.01.T01

ATGAACGGGGCTAAGCGATCTGCCGAAGCTGTGGGATGTAAAAATGAATCGGTAGGGGAGCGTTCCGCCTTAGAACGAAGTACCCGCGCGAGCAGGGTTGACGAAGCGGAGGAAGCGGAGAATGTCGGCTTGAGTAACGCAAACATTGGTGAGAATCCAATGCCCCGAAAACCTAAGGGTTCCTCCGCAAGGTTGTCCACGGAGGGTGAGTCAGGGCCTAGATCAGGCCGAAAGGCGTAG

Protein sequence

>MsG0380013997.01.T01

MNGAKRSAEAVGCKNESVGERSALERSTRASRVDEAEEAENVGLSNANIGENPMPRKPKGSSARLSTEGESGPRSGRKA*