AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025376

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025376 MtrunA17_Chr5g0400901 95.541 157 7 0 1 157 1 157 4.16e-109 307
MsaG025376 MtrunA17_Chr4g0054291 55.747 174 60 6 1 157 1 174 3.81e-54 169
MsaG025376 MtrunA17_Chr3g0135061 38.346 133 70 2 7 136 8 131 1.22e-17 74.7
MsaG025376 MtrunA17_Chr1g0152241 63.636 66 24 0 60 125 59 124 4.91e-16 70.5
MsaG025376 MtrunA17_Chr7g0225661 41.667 96 49 1 58 153 81 169 2.49e-15 69.7
MsaG025376 MtrunA17_Chr4g0035414 44.444 81 45 0 58 138 27 107 6.29e-15 67.8
MsaG025376 MtrunA17_Chr8g0341311 40.625 96 50 1 58 153 71 159 2.32e-14 67.0
MsaG025376 MtrunA17_Chr8g0378901 34.545 110 65 2 28 136 7 110 1.10e-13 64.7
MsaG025376 MtrunA17_Chr3g0144941 38.542 96 51 1 58 145 27 122 6.51e-13 62.8
MsaG025376 MtrunA17_Chr1g0155551 38.095 105 61 1 36 136 1 105 1.54e-12 61.6
MsaG025376 MtrunA17_Chr1g0194681 36.667 90 42 2 36 125 8 82 7.66e-12 59.7
MsaG025376 MtrunA17_Chr6g0456061 46.753 77 41 0 60 136 89 165 2.76e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025376 AT3G49760.1 41.727 139 80 1 5 142 15 153 9.04e-32 111
MsaG025376 AT4G37730.1 41.304 138 73 2 7 136 135 272 2.55e-20 85.5
MsaG025376 AT2G22850.1 48.235 85 44 0 59 143 127 211 6.55e-19 80.5
MsaG025376 AT2G22850.2 48.235 85 44 0 59 143 127 211 6.55e-19 80.5
MsaG025376 AT3G30530.1 38.255 149 86 3 1 146 18 163 8.37e-16 70.9
MsaG025376 AT1G75390.1 38.333 120 73 1 31 149 10 129 2.41e-15 69.7
MsaG025376 AT1G75390.2 42.708 96 54 1 31 125 10 105 1.25e-14 66.6
MsaG025376 AT2G18160.1 39.130 92 49 1 52 136 15 106 1.96e-13 64.7
MsaG025376 AT4G34590.1 41.176 85 50 0 58 142 24 108 7.87e-13 62.8
MsaG025376 AT1G13600.1 49.367 79 40 0 58 136 83 161 2.33e-12 62.4
MsaG025376 AT5G38800.1 41.818 110 54 3 38 146 56 156 2.59e-12 61.6
MsaG025376 AT4G36730.2 34.513 113 55 2 48 141 192 304 3.23e-12 63.2
MsaG025376 AT4G36730.1 34.513 113 55 2 48 141 194 306 3.33e-12 63.2
MsaG025376 AT2G04038.1 43.750 96 49 1 36 131 54 144 5.30e-12 60.8
MsaG025376 AT5G15830.1 45.570 79 43 0 58 136 71 149 1.89e-11 59.7

Find 53 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGACATCTAGAGAATTTA+CGG 0.286559 5:-7556766 MsaT025376.1:CDS
GTCAAACATAGGTCAAAATA+TGG 0.308208 5:-7556609 MsaT025376.1:CDS
GGATGGCTCGAACCGGAATA+TGG 0.309967 5:-7556855 MsaT025376.1:CDS
ATATCATTCTCCTCCGCTTT+CGG 0.329484 5:+7556828 None:intergenic
GCAACCCGTTGTTCAATTCC+CGG 0.358900 5:+7556714 None:intergenic
CCTCTATGCCTCTGATTTCA+CGG 0.361395 5:-7556996 MsaT025376.1:CDS
GTGACCTCCGTGCCGATTCC+CGG 0.363167 5:+7556801 None:intergenic
GCTTTCGGTCCTCCATATTC+CGG 0.399400 5:+7556843 None:intergenic
CTTAGGGCTGGTGGATTGGA+AGG 0.405550 5:+7556925 None:intergenic
ACCGGTTTAGAGTTGAAAAC+CGG 0.409929 5:-7556733 MsaT025376.1:CDS
CCGGTTGGAACGAACCATGC+TGG 0.411515 5:-7556642 MsaT025376.1:CDS
CCAGAGCTTGAAGTGAGCTT+AGG 0.420132 5:+7556908 None:intergenic
CTCACTTCAAGCTCTGGTTC+AGG 0.435261 5:-7556902 MsaT025376.1:CDS
TGAGCTTAGGGCTGGTGGAT+TGG 0.452930 5:+7556921 None:intergenic
AAAACCGGGAATTGAACAAC+GGG 0.452979 5:-7556718 MsaT025376.1:CDS
ATTTACGGAACCAGGTGAAC+CGG 0.455271 5:-7556751 MsaT025376.1:CDS
CCAGCATGGTTCGTTCCAAC+CGG 0.461195 5:+7556642 None:intergenic
CAACTCTAAACCGGTTCACC+TGG 0.478647 5:+7556741 None:intergenic
CAGAGCTTGAAGTGAGCTTA+GGG 0.481961 5:+7556909 None:intergenic
CCTAAGCTCACTTCAAGCTC+TGG 0.485944 5:-7556908 MsaT025376.1:CDS
CGGTCATGGATGGCTCGAAC+CGG 0.489104 5:-7556862 MsaT025376.1:CDS
CGGTTCGAGCCATCCATGAC+CGG 0.490515 5:+7556863 None:intergenic
TTCAACCTTTCTCATCTGCA+TGG 0.491200 5:-7556583 MsaT025376.1:CDS
GGAGGAGAATGATATCAAAC+CGG 0.491685 5:-7556820 MsaT025376.1:CDS
AATGATATCAAACCGGGAAT+CGG 0.493933 5:-7556813 MsaT025376.1:CDS
GGCATAGAGGGAAGAGAGCA+TGG 0.513902 5:+7557009 None:intergenic
TGAAGTGAGCTTAGGGCTGG+TGG 0.522392 5:+7556916 None:intergenic
CGGTTGGAACGAACCATGCT+GGG 0.526524 5:-7556641 MsaT025376.1:CDS
GAACCGAAAATGAGTGGCTC+CGG 0.546667 5:-7556661 MsaT025376.1:CDS
CCGTGAAATCAGAGGCATAG+AGG 0.553569 5:+7556996 None:intergenic
CGTGAAATCAGAGGCATAGA+GGG 0.563127 5:+7556997 None:intergenic
CGAAAATGAGTGGCTCCGGT+TGG 0.563412 5:-7556657 MsaT025376.1:CDS
GCTTGAAGTGAGCTTAGGGC+TGG 0.566940 5:+7556913 None:intergenic
CATGGCCATGCAGATGAGAA+AGG 0.571565 5:+7556578 None:intergenic
CCGGTTTAGAGTTGAAAACC+GGG 0.582456 5:-7556732 MsaT025376.1:CDS
TCTAGAGAATTTACGGAACC+AGG 0.588686 5:-7556759 MsaT025376.1:CDS
GTCTAACGCCGTGAAATCAG+AGG 0.590668 5:+7556988 None:intergenic
TATCAAACCGGGAATCGGCA+CGG 0.599707 5:-7556808 MsaT025376.1:CDS
GGTCAAAAGTTGTCAAACAT+AGG 0.610074 5:-7556620 MsaT025376.1:CDS
GGAATATGGAGGACCGAAAG+CGG 0.611264 5:-7556841 MsaT025376.1:CDS
GAATGTTAGAAATATCCCAC+GGG 0.613842 5:+7556954 None:intergenic
GAGGAGAATGATATCAAACC+GGG 0.616694 5:-7556819 MsaT025376.1:CDS
AGACGAAAGTTTAACCCCGT+GGG 0.627155 5:-7556969 MsaT025376.1:CDS
TTAGGGCTGGTGGATTGGAA+GGG 0.629980 5:+7556926 None:intergenic
TCAGCTGTGACAATATTGCA+TGG 0.636378 5:+7556560 None:intergenic
TAGACGAAAGTTTAACCCCG+TGG 0.639794 5:-7556970 MsaT025376.1:CDS
AGAATGTTAGAAATATCCCA+CGG 0.649981 5:+7556953 None:intergenic
GAAAACCGGGAATTGAACAA+CGG 0.656607 5:-7556719 MsaT025376.1:CDS
GCCTACGAACCGAAAATGAG+TGG 0.658730 5:-7556667 MsaT025376.1:CDS
ATATGGAGGACCGAAAGCGG+AGG 0.670255 5:-7556838 MsaT025376.1:CDS
TGGCTCGAACCGGAATATGG+AGG 0.676236 5:-7556852 MsaT025376.1:CDS
CAAACCGGGAATCGGCACGG+AGG 0.765542 5:-7556805 MsaT025376.1:CDS
AATGTTAGAAATATCCCACG+GGG 0.803619 5:+7556955 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 7556556 7557029 7556556 ID=MsaG025376
Chr5 mRNA 7556556 7557029 7556556 ID=MsaT025376.1;Parent=MsaG025376
Chr5 exon 7556556 7557029 7556556 ID=MsaT025376.1.exon1;Parent=MsaT025376.1
Chr5 CDS 7556556 7557029 7556556 ID=cds.MsaT025376.1;Parent=MsaT025376.1
Gene Sequence

>MsaT025376.1

ATGCTCTCTTCCCTCTATGCCTCTGATTTCACGGCGTTAGACGAAAGTTTAACCCCGTGGGATATTTCTAACATTCTCTCACCCTTCCAATCCACCAGCCCTAAGCTCACTTCAAGCTCTGGTTCAGGCGAACCAAACGAAAAACCGGTCATGGATGGCTCGAACCGGAATATGGAGGACCGAAAGCGGAGGAGAATGATATCAAACCGGGAATCGGCACGGAGGTCACGTATGAGAAAACAAAGACATCTAGAGAATTTACGGAACCAGGTGAACCGGTTTAGAGTTGAAAACCGGGAATTGAACAACGGGTTGCAGTTTTTGCTGTATCAATGCAATCGCCTACGAACCGAAAATGAGTGGCTCCGGTTGGAACGAACCATGCTGGGTCAAAAGTTGTCAAACATAGGTCAAAATATGGTTTTTCAACCTTTCTCATCTGCATGGCCATGCAATATTGTCACAGCTGAATAA
Protein sequence

>MsaT025376.1

MLSSLYASDFTALDESLTPWDISNILSPFQSTSPKLTSSSGSGEPNEKPVMDGSNRNMEDRKRRRMISNRESARRSRMRKQRHLENLRNQVNRFRVENRELNNGLQFLLYQCNRLRTENEWLRLERTMLGQKLSNIGQNMVFQPFSSAWPCNIVTAE*