AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG020688

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020688 MtrunA17_Chr4g0030001 92.147 191 8 2 1 185 1 190 2.47e-129 360
MsaG020688 MtrunA17_Chr1g0200201 72.024 168 35 6 19 185 73 229 1.68e-77 231
MsaG020688 MtrunA17_Chr2g0326051 69.841 126 37 1 60 185 1 125 2.71e-61 186
MsaG020688 MtrunA17_Chr2g0311601 72.321 112 30 1 15 126 10 120 1.68e-55 172
MsaG020688 MtrunA17_Chr3g0114061 56.000 150 57 3 17 164 7 149 3.55e-50 159
MsaG020688 MtrunA17_Chr4g0043421 66.364 110 36 1 17 126 14 122 1.73e-49 158
MsaG020688 MtrunA17_Chr5g0437571 64.035 114 40 1 17 130 5 117 2.03e-49 157
MsaG020688 MtrunA17_Chr3g0106101 63.636 110 39 1 17 126 6 114 1.90e-47 153
MsaG020688 MtrunA17_Chr5g0438091 56.140 114 49 1 17 130 38 150 6.27e-42 139
MsaG020688 MtrunA17_Chr3g0129071 55.752 113 49 1 15 127 44 155 3.33e-40 136
MsaG020688 MtrunA17_Chr6g0449641 49.180 122 61 1 11 132 2 122 7.65e-40 132
MsaG020688 MtrunA17_Chr7g0227511 54.955 111 49 1 10 120 3 112 1.22e-39 132
MsaG020688 MtrunA17_Chr3g0117121 55.455 110 48 1 17 126 9 117 1.62e-39 133
MsaG020688 MtrunA17_Chr4g0058651 56.481 108 46 1 17 124 10 116 4.13e-39 132
MsaG020688 MtrunA17_Chr3g0115431 56.311 103 44 1 17 119 8 109 2.44e-38 131
MsaG020688 MtrunA17_Chr6g0449651 43.357 143 67 2 17 159 66 194 6.42e-38 129
MsaG020688 MtrunA17_Chr5g0432451 57.522 113 47 1 15 127 40 151 1.68e-37 129
MsaG020688 MtrunA17_Chr5g0402611 53.153 111 51 1 17 127 7 116 3.89e-36 128
MsaG020688 MtrunA17_Chr7g0225111 47.321 112 58 1 14 125 1 111 5.97e-35 119
MsaG020688 MtrunA17_Chr3g0113891 57.732 97 40 1 17 113 13 108 2.52e-34 119
MsaG020688 MtrunA17_Chr3g0097221 50.926 108 52 1 17 124 6 112 6.93e-34 121
MsaG020688 MtrunA17_Chr5g0437401 56.701 97 41 1 17 113 10 105 1.85e-32 114
MsaG020688 MtrunA17_Chr6g0460951 44.118 136 66 4 15 148 37 164 4.18e-32 115
MsaG020688 MtrunA17_Chr7g0260971 52.885 104 47 2 17 119 13 115 4.52e-32 115
MsaG020688 MtrunA17_Chr8g0353981 60.976 82 31 1 17 98 6 86 7.09e-32 114
MsaG020688 MtrunA17_Chr5g0444351 41.964 112 64 1 14 125 1 111 3.13e-31 110
MsaG020688 MtrunA17_Chr1g0184271 40.854 164 80 6 18 175 12 164 2.68e-30 110
MsaG020688 MtrunA17_Chr1g0184281 48.214 112 55 3 18 127 15 125 7.52e-30 108
MsaG020688 MtrunA17_Chr8g0374601 46.667 105 55 1 15 119 23 126 1.16e-29 110
MsaG020688 MtrunA17_Chr8g0374591 41.732 127 70 2 15 138 5 130 1.95e-29 105
MsaG020688 MtrunA17_Chr7g0245871 49.515 103 50 2 18 119 27 128 3.10e-29 108
MsaG020688 MtrunA17_Chr2g0326041 87.273 55 6 1 11 65 26 79 7.54e-29 102
MsaG020688 MtrunA17_Chr8g0351721 49.074 108 53 2 17 123 17 123 1.39e-28 105
MsaG020688 MtrunA17_Chr8g0351701 46.789 109 56 2 17 124 22 129 1.79e-28 105
MsaG020688 MtrunA17_Chr5g0435641 45.378 119 56 3 17 127 6 123 4.95e-27 101
MsaG020688 MtrunA17_Chr7g0261031 52.041 98 45 2 17 113 7 103 8.85e-27 101
MsaG020688 MtrunA17_Chr8g0374581 43.396 106 60 0 15 120 5 110 1.26e-26 101
MsaG020688 MtrunA17_Chr7g0245861 41.525 118 67 1 17 132 11 128 1.28e-25 96.3
MsaG020688 MtrunA17_Chr6g0452691 35.714 168 89 6 19 181 10 163 3.10e-25 96.3
MsaG020688 MtrunA17_Chr6g0460941 44.944 89 47 2 18 105 7 94 7.48e-24 90.1
MsaG020688 MtrunA17_Chr4g0059901 43.617 94 52 1 19 112 11 103 5.99e-23 92.4
MsaG020688 MtrunA17_Chr6g0452661 42.149 121 58 4 19 131 10 126 6.23e-23 92.0
MsaG020688 MtrunA17_Chr4g0040831 32.215 149 90 4 15 162 12 150 6.49e-21 85.5
MsaG020688 MtrunA17_Chr6g0452671 42.553 94 53 1 19 112 12 104 7.53e-21 85.5
MsaG020688 MtrunA17_Chr4g0055441 44.211 95 47 3 19 108 3 96 7.75e-20 81.6
MsaG020688 MtrunA17_Chr2g0330201 37.624 101 62 1 19 119 20 119 1.40e-19 84.0
MsaG020688 MtrunA17_Chr8g0342351 41.489 94 54 1 19 112 13 105 5.93e-19 81.6
MsaG020688 MtrunA17_Chr5g0439111 45.679 81 42 2 19 98 10 89 5.46e-16 73.2
MsaG020688 MtrunA17_Chr4g0046201 34.483 87 56 1 19 105 7 92 4.41e-14 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG020688 AT2G28500.1 66.129 186 45 6 14 185 51 232 1.03e-75 227
MsaG020688 AT1G07900.1 62.500 176 47 4 14 185 29 189 2.31e-72 217
MsaG020688 AT2G30130.1 67.890 109 34 1 17 125 7 114 7.97e-50 160
MsaG020688 AT1G16530.1 58.716 109 45 0 15 123 11 119 6.27e-46 149
MsaG020688 AT1G31320.1 68.468 111 34 1 17 127 12 121 5.82e-44 144
MsaG020688 AT5G63090.4 57.407 108 45 1 17 124 10 116 3.71e-40 135
MsaG020688 AT5G63090.3 57.407 108 45 1 17 124 10 116 3.71e-40 135
MsaG020688 AT5G63090.2 57.407 108 45 1 17 124 10 116 3.71e-40 135
MsaG020688 AT5G63090.1 57.407 108 45 1 17 124 10 116 3.71e-40 135
MsaG020688 AT3G27650.1 58.654 104 42 1 17 120 38 140 3.77e-40 134
MsaG020688 AT2G30340.1 50.862 116 56 1 15 130 49 163 7.07e-40 136
MsaG020688 AT2G30340.2 50.862 116 56 1 15 130 50 164 7.56e-40 136
MsaG020688 AT2G23660.2 55.238 105 46 1 17 121 4 107 9.71e-39 135
MsaG020688 AT2G23660.3 55.238 105 46 1 17 121 4 107 9.71e-39 135
MsaG020688 AT2G23660.1 55.238 105 46 1 17 121 4 107 9.71e-39 135
MsaG020688 AT3G26620.1 54.237 118 49 3 16 129 1 117 1.05e-38 129
MsaG020688 AT3G26660.1 56.604 106 43 2 16 119 1 105 2.70e-38 128
MsaG020688 AT5G66870.1 51.128 133 62 2 17 149 6 135 4.56e-37 130
MsaG020688 AT2G40470.2 57.143 112 47 1 16 127 18 128 2.08e-36 125
MsaG020688 AT2G40470.1 56.637 113 48 1 15 127 42 153 3.75e-36 125
MsaG020688 AT3G11090.1 51.923 104 49 1 17 120 10 112 3.58e-33 116
MsaG020688 AT4G00210.1 52.778 108 49 2 17 123 10 116 6.74e-33 117
MsaG020688 AT1G65620.1 60.227 88 34 1 11 98 2 88 2.00e-32 115
MsaG020688 AT1G65620.4 60.227 88 34 1 11 98 2 88 2.00e-32 115
MsaG020688 AT1G65620.3 60.227 88 34 1 11 98 2 88 2.00e-32 115
MsaG020688 AT1G65620.5 60.227 88 34 1 11 98 2 88 2.00e-32 115
MsaG020688 AT1G65620.2 60.227 88 34 1 11 98 2 88 2.00e-32 115
MsaG020688 AT3G03760.1 47.788 113 57 2 17 128 50 161 1.68e-31 115
MsaG020688 AT2G42430.1 46.154 117 61 2 13 128 10 125 1.90e-29 109
MsaG020688 AT4G00220.1 49.524 105 51 2 21 124 20 123 3.75e-29 108
MsaG020688 AT2G45410.1 42.105 152 69 4 21 171 19 152 5.70e-29 106
MsaG020688 AT2G45420.1 47.619 105 53 2 21 124 40 143 4.60e-27 103
MsaG020688 AT2G42440.1 53.608 97 43 2 17 112 6 101 1.02e-26 102
MsaG020688 AT2G31310.1 47.573 103 52 2 17 118 6 107 1.16e-26 100
MsaG020688 AT3G58190.1 38.125 160 83 5 18 176 11 155 1.62e-26 100
MsaG020688 AT5G06080.1 43.363 113 62 2 17 128 6 117 1.21e-25 97.4
MsaG020688 AT3G47870.1 44.860 107 53 2 19 125 37 137 6.88e-25 99.0
MsaG020688 AT3G50510.1 41.441 111 64 1 9 119 3 112 3.02e-24 94.4
MsaG020688 AT3G50510.2 41.441 111 64 1 9 119 3 112 3.02e-24 94.4
MsaG020688 AT1G72980.1 36.232 138 77 3 8 145 5 131 1.93e-22 90.1
MsaG020688 AT5G35900.1 39.604 101 60 1 19 119 6 105 4.40e-22 89.0
MsaG020688 AT3G13850.1 35.256 156 84 5 19 169 37 180 2.13e-21 88.6
MsaG020688 AT1G06280.1 38.824 85 48 2 19 100 25 108 1.91e-15 71.6
MsaG020688 AT4G22700.1 37.864 103 59 4 19 119 6 105 2.88e-15 70.9
MsaG020688 AT2G19820.1 37.634 93 56 2 14 105 8 99 9.80e-14 65.1

Find 35 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCATCAGCTCTTTGAGCTTC+TGG 0.203584 4:+57173825 None:intergenic
GAAGCTCATTGACTTGCTTT+TGG 0.237617 4:+57173724 None:intergenic
AGAGTTAGAGACCCAGTTTA+TGG 0.300502 4:-57173771 MsaT020688.1:CDS
GAGCAACAAGATTGGCTTGC+TGG 0.325135 4:+57173655 None:intergenic
GCTCCTGCACAACCATAAAC+TGG 0.336614 4:+57173759 None:intergenic
CAACATCATCAAATTCTTAC+AGG 0.339119 4:-57175174 MsaT020688.1:intron
TACAACCTCAGCTTGTGATT+TGG 0.347506 4:+57173689 None:intergenic
TGCTGCTGATAAATGTGTTT+TGG 0.380702 4:-57175261 MsaT020688.1:CDS
CATAGCAATGGACATCATAT+CGG 0.414964 4:-57173552 MsaT020688.1:CDS
GGATCAGTAGGAGGAAAATA+AGG 0.417860 4:+57175236 None:intergenic
GCAAAATAGAGCAACAAGAT+TGG 0.441636 4:+57173647 None:intergenic
CGATATGATGTCCATTGCTA+TGG 0.449199 4:+57173553 None:intergenic
GACCCAGTTTATGGTTGTGC+AGG 0.466543 4:-57173762 MsaT020688.1:CDS
TCTATGAGCAATGGTAAACT+TGG 0.485039 4:+57175211 None:intergenic
AGTGACAAGCATGGTTTATG+AGG 0.515235 4:-57173802 MsaT020688.1:CDS
TGAGCAATGGTAAACTTGGC+AGG 0.527769 4:+57175215 None:intergenic
GCTCAGGGTGGGATACACTT+TGG 0.537894 4:-57173497 MsaT020688.1:CDS
GACAACACTAGCCTATGCTC+AGG 0.542861 4:-57173513 MsaT020688.1:CDS
CTCCTGCACAACCATAAACT+GGG 0.571360 4:+57173760 None:intergenic
GTAAACTTGGCAGGATCAGT+AGG 0.577739 4:+57175224 None:intergenic
AAAATCTTGCAAGCAGCACA+AGG 0.584368 4:+57175296 None:intergenic
TGATGTCCATTGCTATGGGA+AGG 0.587814 4:+57173558 None:intergenic
AACTGTTGTGGTGATTCCTG+TGG 0.589765 4:+57173606 None:intergenic
GTGTATCCCACCCTGAGCAT+AGG 0.591383 4:+57173502 None:intergenic
GATATGATGTCCATTGCTAT+GGG 0.597738 4:+57173554 None:intergenic
CACTAGCCTATGCTCAGGGT+GGG 0.599833 4:-57173508 MsaT020688.1:CDS
GGAAATGTCACAAAGTCCAC+AGG 0.603176 4:-57173622 MsaT020688.1:CDS
CAAAGTCCTTCCCATAGCAA+TGG 0.614127 4:-57173564 MsaT020688.1:CDS
AGCTGATGCAGTGACAAGCA+TGG 0.615883 4:-57173811 MsaT020688.1:CDS
AACTTGGCAGGATCAGTAGG+AGG 0.640755 4:+57175227 None:intergenic
ATCACCACAACAGTTATCAG+TGG 0.656563 4:-57173598 MsaT020688.1:CDS
ACTAGCCAAATCACAAGCTG+AGG 0.662044 4:-57173694 MsaT020688.1:CDS
ACAACACTAGCCTATGCTCA+GGG 0.673423 4:-57173512 MsaT020688.1:CDS
TCATCCACTGATAACTGTTG+TGG 0.694554 4:+57173594 None:intergenic
ACACTAGCCTATGCTCAGGG+TGG 0.697314 4:-57173509 MsaT020688.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 57173491 57175369 57173491 ID=MsaG020688
Chr4 mRNA 57173491 57175369 57173491 ID=MsaT020688.1;Parent=MsaG020688
Chr4 exon 57173491 57173853 57173491 ID=MsaT020688.1.exon2;Parent=MsaT020688.1
Chr4 CDS 57173491 57173853 57173491 ID=cds.MsaT020688.1;Parent=MsaT020688.1
Chr4 exon 57175175 57175369 57175175 ID=MsaT020688.1.exon1;Parent=MsaT020688.1
Chr4 CDS 57175175 57175369 57175175 ID=cds.MsaT020688.1;Parent=MsaT020688.1
Gene Sequence

>MsaT020688.1

ATGGAGAGTGCTACTAGTGACACTTTCTCTGCTCAAGCTGTTGTTATGAGTCCTTGTGCTGCTTGCAAGATTTTGAGGAGAAGATGTGCTGCTGATAAATGTGTTTTGGCACCTTATTTTCCTCCTACTGATCCTGCCAAGTTTACCATTGCTCATAGAGTTTTTGGTGCTAGCAACATCATCAAATTCTTACAGGAACTTCCAGAAGCTCAAAGAGCTGATGCAGTGACAAGCATGGTTTATGAGGCTAGTGCAAGAGTTAGAGACCCAGTTTATGGTTGTGCAGGAGCAATTTGTCAACTCCAAAAGCAAGTCAATGAGCTTCAAGCACAACTAGCCAAATCACAAGCTGAGGTTGTAAACATGAAACTCCAGCAAGCCAATCTTGTTGCTCTATTTTGCATGGAAATGTCACAAAGTCCACAGGAATCACCACAACAGTTATCAGTGGATGATTTCATTCAAAGTCCTTCCCATAGCAATGGACATCATATCGGTTTGAACTTTCTTGATGACAACACTAGCCTATGCTCAGGGTGGGATACACTTTGGACATGA
Protein sequence

>MsaT020688.1

MESATSDTFSAQAVVMSPCAACKILRRRCAADKCVLAPYFPPTDPAKFTIAHRVFGASNIIKFLQELPEAQRADAVTSMVYEASARVRDPVYGCAGAICQLQKQVNELQAQLAKSQAEVVNMKLQQANLVALFCMEMSQSPQESPQQLSVDDFIQSPSHSNGHHIGLNFLDDNTSLCSGWDTLWT*