AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040412

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040412 MtrunA17_Chr7g0269951 82.781 151 12 2 1 151 1 137 1.50e-75 221
MsaG040412 MtrunA17_Chr1g0194681 52.055 146 60 3 1 140 1 142 1.08e-40 133
MsaG040412 MtrunA17_Chr3g0144941 41.985 131 72 1 19 149 27 153 1.02e-20 82.8
MsaG040412 MtrunA17_Chr4g0035414 48.387 93 47 1 10 101 17 109 8.26e-20 80.5
MsaG040412 MtrunA17_Chr1g0155551 41.606 137 71 4 19 150 27 159 7.40e-18 75.5
MsaG040412 MtrunA17_Chr8g0378901 40.594 101 55 1 10 105 18 118 7.42e-16 70.1
MsaG040412 MtrunA17_Chr5g0400901 52.857 70 24 1 2 62 32 101 4.75e-13 62.8
MsaG040412 MtrunA17_Chr4g0054291 39.823 113 40 3 7 94 45 154 6.93e-12 60.1
MsaG040412 MtrunA17_Chr7g0225661 47.887 71 22 1 19 74 81 151 7.88e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040412 AT3G62420.1 46.053 152 71 3 1 149 1 144 5.26e-33 114
MsaG040412 AT1G75390.1 38.849 139 72 3 19 149 38 171 1.79e-21 85.5
MsaG040412 AT2G18160.1 38.849 139 71 4 18 142 27 165 6.23e-21 84.0
MsaG040412 AT4G34590.1 48.810 84 43 0 19 102 24 107 1.65e-19 80.1
MsaG040412 AT1G75390.2 49.254 67 34 0 19 85 38 104 5.24e-12 59.7

Find 41 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATCCGAATCAAGCGATTA+AGG 0.281934 7:+99956161 MsaT040412.1:CDS
GGCGATTGTTGGAGAACATT+AGG 0.296251 7:+99955938 MsaT040412.1:CDS
CAGATTGGTTCTTGCATTGA+TGG 0.301394 7:+99956196 MsaT040412.1:CDS
GGTTCAACGTGTGACGAGTT+CGG 0.348908 7:+99955768 MsaT040412.1:CDS
CACGGGTTCAGTTGCGGATC+TGG 0.352056 7:-99956129 None:intergenic
GAGCGATGGACGAGAGAAAA+AGG 0.360427 7:+99955809 MsaT040412.1:CDS
GTTCAACGTGTGACGAGTTC+GGG 0.369000 7:+99955769 MsaT040412.1:CDS
TGAATCAATTTGAATGGCTT+CGG 0.385700 7:+99955747 None:intergenic
GCGATTGTTGGAGAACATTA+GGG 0.409944 7:+99955939 MsaT040412.1:CDS
GTGATCGCCGTGCGGATTCA+CGG 0.422997 7:-99955849 None:intergenic
AAACGAGAATCGGCGATTGT+TGG 0.446153 7:+99955927 MsaT040412.1:CDS
AATGCAAACGAAGCCGCTAA+TGG 0.446683 7:+99955979 MsaT040412.1:CDS
ATCTTCAAGATGAGACAAAC+AGG 0.448219 7:+99955899 MsaT040412.1:CDS
AACATTAGGGCGAGGGAAGA+AGG 0.454886 7:+99955952 MsaT040412.1:CDS
ACGTGTGACGAGTTCGGGTT+CGG 0.460336 7:+99955774 MsaT040412.1:CDS
GACGCCTTAATCGCTTGATT+CGG 0.460457 7:-99956165 None:intergenic
AGTTGCGGATCTGGAATCTT+CGG 0.470204 7:-99956120 None:intergenic
AGGCGTCTTCGTCTTCAGAT+TGG 0.488511 7:+99956181 MsaT040412.1:CDS
TGTCCTCGGAGCTCGGATAC+AGG 0.488969 7:+99956002 MsaT040412.1:CDS
AAAGCTGAGAGGGAAAAGAA+TGG 0.490064 7:+99956081 MsaT040412.1:CDS
TCGGGTTCGGACGGTGTGAA+TGG 0.491849 7:+99955787 MsaT040412.1:CDS
GTGAATCCGCACGGCGATCA+CGG 0.512811 7:+99955851 MsaT040412.1:CDS
CTAATGGTGTCCTCGGAGCT+CGG 0.524737 7:+99955995 MsaT040412.1:CDS
TGAATCCGCACGGCGATCAC+GGG 0.531059 7:+99955852 MsaT040412.1:CDS
ACAGGTTGCGAAACGAGAAT+CGG 0.540937 7:+99955917 MsaT040412.1:CDS
CCGCACGGCGATCACGGGAG+AGG 0.550454 7:+99955857 MsaT040412.1:CDS
TGTTGGAGAACATTAGGGCG+AGG 0.554484 7:+99955944 MsaT040412.1:CDS
ATCTGCCACGGGTTCAGTTG+CGG 0.557161 7:-99956135 None:intergenic
AGCTCCGAGGACACCATTAG+CGG 0.564090 7:-99955992 None:intergenic
GAAGCCGCTAATGGTGTCCT+CGG 0.572523 7:+99955988 MsaT040412.1:CDS
TCGGATAAAGCATCTGCCAC+GGG 0.577662 7:-99956146 None:intergenic
GTTGGAGAACATTAGGGCGA+GGG 0.586730 7:+99955945 MsaT040412.1:CDS
GGAGAGGAAGCAGAAACTGA+TGG 0.591146 7:+99955873 MsaT040412.1:CDS
TTCGGATAAAGCATCTGCCA+CGG 0.595446 7:-99956147 None:intergenic
GGACGGTGTGAATGGAGCGA+TGG 0.618123 7:+99955795 MsaT040412.1:CDS
GTGACGAGTTCGGGTTCGGA+CGG 0.621958 7:+99955778 MsaT040412.1:CDS
CAGATCCGCAACTGAACCCG+TGG 0.634504 7:+99956130 MsaT040412.1:CDS
TTTCGAACCGTGAATCCGCA+CGG 0.677805 7:+99955842 MsaT040412.1:CDS
CCTCTCCCGTGATCGCCGTG+CGG 0.684095 7:-99955857 None:intergenic
GAGGAAGCAGAAACTGATGG+AGG 0.689697 7:+99955876 MsaT040412.1:CDS
ATTCCTGTATCCGAGCTCCG+AGG 0.746883 7:-99956005 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 99955760 99956215 99955760 ID=MsaG040412
Chr7 mRNA 99955760 99956215 99955760 ID=MsaT040412.1;Parent=MsaG040412
Chr7 exon 99955760 99956215 99955760 ID=MsaT040412.1.exon1;Parent=MsaT040412.1
Chr7 CDS 99955760 99956215 99955760 ID=cds.MsaT040412.1;Parent=MsaT040412.1
Gene Sequence

>MsaT040412.1

ATGGCTTCGGTTCAACGTGTGACGAGTTCGGGTTCGGACGGTGTGAATGGAGCGATGGACGAGAGAAAAAGGAAGAGAATGATTTCGAACCGTGAATCCGCACGGCGATCACGGGAGAGGAAGCAGAAACTGATGGAGGATCTTCAAGATGAGACAAACAGGTTGCGAAACGAGAATCGGCGATTGTTGGAGAACATTAGGGCGAGGGAAGAAGGTTTCAATGCAAACGAAGCCGCTAATGGTGTCCTCGGAGCTCGGATACAGGAATTGACAGATCAATTGAAGTTTCTGAACTCAATCATTGAAAAAGCTGAGAGAGAAAAAGCTGAGAGGGAAAAGAATGGATTTTCTGTTGAGATTCCGAAGATTCCAGATCCGCAACTGAACCCGTGGCAGATGCTTTATCCGAATCAAGCGATTAAGGCGTCTTCGTCTTCAGATTGGTTCTTGCATTGA
Protein sequence

>MsaT040412.1

MASVQRVTSSGSDGVNGAMDERKRKRMISNRESARRSRERKQKLMEDLQDETNRLRNENRRLLENIRAREEGFNANEAANGVLGARIQELTDQLKFLNSIIEKAEREKAEREKNGFSVEIPKIPDPQLNPWQMLYPNQAIKASSSSDWFLH*