AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG042594

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042594 MtrunA17_Chr8g0353981 95.175 228 6 2 1 223 1 228 6.87e-160 441
MsaG042594 MtrunA17_Chr4g0058651 66.929 127 42 0 5 131 9 135 2.72e-59 185
MsaG042594 MtrunA17_Chr3g0117121 75.221 113 25 1 1 110 1 113 3.77e-58 182
MsaG042594 MtrunA17_Chr7g0227511 56.024 166 59 3 2 153 6 171 2.57e-57 179
MsaG042594 MtrunA17_Chr5g0402611 73.394 109 29 0 2 110 3 111 5.23e-54 175
MsaG042594 MtrunA17_Chr6g0449641 69.643 112 32 1 1 110 1 112 9.74e-54 169
MsaG042594 MtrunA17_Chr6g0449651 68.750 112 33 1 1 110 59 170 1.24e-52 168
MsaG042594 MtrunA17_Chr3g0097221 69.091 110 34 0 1 110 1 110 5.98e-51 167
MsaG042594 MtrunA17_Chr3g0115431 67.568 111 35 1 1 110 2 112 3.74e-48 157
MsaG042594 MtrunA17_Chr5g0437571 65.049 103 36 0 5 107 4 106 9.74e-47 152
MsaG042594 MtrunA17_Chr3g0106101 62.617 107 40 0 1 107 1 107 5.23e-46 150
MsaG042594 MtrunA17_Chr4g0043421 65.347 101 35 0 6 106 14 114 3.84e-45 148
MsaG042594 MtrunA17_Chr2g0311601 61.765 102 39 0 6 107 12 113 1.15e-43 144
MsaG042594 MtrunA17_Chr5g0437401 61.321 106 41 0 4 109 8 113 2.34e-43 144
MsaG042594 MtrunA17_Chr3g0114061 59.615 104 42 0 4 107 5 108 4.83e-42 140
MsaG042594 MtrunA17_Chr5g0438091 42.949 156 89 0 4 159 36 191 1.13e-41 140
MsaG042594 MtrunA17_Chr3g0113891 61.386 101 39 0 4 104 11 111 3.57e-41 138
MsaG042594 MtrunA17_Chr3g0129071 56.604 106 46 0 6 111 46 151 7.48e-41 139
MsaG042594 MtrunA17_Chr5g0432451 58.491 106 44 0 6 111 42 147 1.34e-37 130
MsaG042594 MtrunA17_Chr7g0260971 56.897 116 42 2 1 108 1 116 3.73e-37 129
MsaG042594 MtrunA17_Chr4g0030001 55.340 103 45 1 6 107 23 125 1.61e-36 127
MsaG042594 MtrunA17_Chr1g0200201 57.000 100 43 0 8 107 73 172 1.68e-35 125
MsaG042594 MtrunA17_Chr8g0374601 49.091 110 56 0 7 116 26 135 1.52e-34 124
MsaG042594 MtrunA17_Chr7g0225111 50.485 103 51 0 6 108 4 106 5.37e-34 118
MsaG042594 MtrunA17_Chr1g0184281 52.679 112 52 1 3 113 11 122 2.55e-33 119
MsaG042594 MtrunA17_Chr8g0351721 53.043 115 53 1 7 120 18 132 6.39e-33 118
MsaG042594 MtrunA17_Chr8g0351701 52.830 106 49 1 7 111 23 128 7.38e-33 118
MsaG042594 MtrunA17_Chr8g0374591 50.000 104 52 0 7 110 8 111 6.80e-31 110
MsaG042594 MtrunA17_Chr4g0059901 48.000 100 52 0 8 107 11 110 2.52e-30 112
MsaG042594 MtrunA17_Chr7g0245871 57.895 95 39 1 7 100 27 121 5.64e-30 111
MsaG042594 MtrunA17_Chr6g0460951 49.515 103 51 1 6 107 39 141 9.28e-30 110
MsaG042594 MtrunA17_Chr5g0444351 50.538 93 46 0 8 100 6 98 2.21e-29 107
MsaG042594 MtrunA17_Chr5g0435641 49.505 101 50 1 1 100 1 101 2.30e-29 108
MsaG042594 MtrunA17_Chr7g0261031 53.465 101 46 1 1 100 2 102 3.24e-28 106
MsaG042594 MtrunA17_Chr6g0452691 43.860 114 56 2 1 113 3 109 6.07e-28 104
MsaG042594 MtrunA17_Chr6g0452661 40.000 130 69 3 1 121 3 132 9.42e-28 105
MsaG042594 MtrunA17_Chr6g0452671 42.574 101 58 0 4 104 8 108 2.14e-27 103
MsaG042594 MtrunA17_Chr1g0184271 48.246 114 56 2 7 119 12 123 2.17e-27 104
MsaG042594 MtrunA17_Chr4g0055441 37.671 146 71 4 8 152 3 129 2.01e-26 99.8
MsaG042594 MtrunA17_Chr8g0374581 45.455 110 59 1 7 115 8 117 4.62e-26 100
MsaG042594 MtrunA17_Chr8g0342351 40.385 104 62 0 8 111 13 116 1.21e-25 100
MsaG042594 MtrunA17_Chr7g0245861 54.444 90 38 2 7 93 12 101 4.91e-24 93.2
MsaG042594 MtrunA17_Chr6g0460941 44.211 95 52 1 1 94 1 95 5.55e-24 91.7
MsaG042594 MtrunA17_Chr2g0330201 39.604 101 61 0 8 108 20 120 9.87e-24 96.3
MsaG042594 MtrunA17_Chr5g0439111 41.228 114 66 1 1 113 3 116 1.54e-22 91.7
MsaG042594 MtrunA17_Chr4g0040831 32.215 149 87 3 8 156 16 150 3.15e-20 84.7
MsaG042594 MtrunA17_Chr2g0326041 63.830 47 17 0 6 52 32 78 2.60e-18 76.6
MsaG042594 MtrunA17_Chr4g0046201 33.721 86 57 0 8 93 7 92 8.62e-16 74.3
MsaG042594 MtrunA17_Chr2g0326051 50.000 60 30 0 52 111 5 64 1.54e-12 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042594 AT1G65620.1 59.912 227 55 5 2 223 4 199 2.32e-75 226
MsaG042594 AT1G65620.4 59.912 227 55 5 2 223 4 199 2.32e-75 226
MsaG042594 AT1G65620.3 59.912 227 55 5 2 223 4 199 2.32e-75 226
MsaG042594 AT1G65620.5 59.912 227 55 5 2 223 4 199 2.32e-75 226
MsaG042594 AT1G65620.2 59.912 227 55 5 2 223 4 199 2.32e-75 226
MsaG042594 AT5G63090.4 69.291 127 34 2 1 123 1 126 7.63e-57 179
MsaG042594 AT5G63090.3 69.291 127 34 2 1 123 1 126 7.63e-57 179
MsaG042594 AT5G63090.2 69.291 127 34 2 1 123 1 126 7.63e-57 179
MsaG042594 AT5G63090.1 69.291 127 34 2 1 123 1 126 7.63e-57 179
MsaG042594 AT5G66870.1 75.455 110 27 0 1 110 1 110 1.05e-55 180
MsaG042594 AT3G27650.1 70.093 107 32 0 4 110 36 142 8.11e-54 170
MsaG042594 AT2G23660.2 70.192 104 31 0 4 107 2 105 1.43e-50 167
MsaG042594 AT2G23660.3 70.192 104 31 0 4 107 2 105 1.43e-50 167
MsaG042594 AT2G23660.1 70.192 104 31 0 4 107 2 105 1.43e-50 167
MsaG042594 AT2G30130.1 65.049 103 36 0 5 107 6 108 4.74e-46 151
MsaG042594 AT1G31320.1 69.318 88 27 0 6 93 12 99 7.99e-42 140
MsaG042594 AT2G30340.2 57.692 104 44 0 6 109 52 155 6.54e-41 140
MsaG042594 AT2G30340.1 57.692 104 44 0 6 109 51 154 7.49e-41 140
MsaG042594 AT1G07900.1 57.547 106 45 0 6 111 32 137 1.05e-39 135
MsaG042594 AT3G11090.1 56.731 104 45 0 4 107 8 111 1.02e-38 132
MsaG042594 AT1G16530.1 57.798 109 45 1 6 113 13 121 2.02e-38 131
MsaG042594 AT2G28500.1 56.604 106 46 0 6 111 54 159 4.37e-38 132
MsaG042594 AT2G40470.2 57.547 106 45 0 6 111 19 124 1.58e-37 130
MsaG042594 AT2G40470.1 51.200 125 60 1 6 129 44 168 3.00e-37 130
MsaG042594 AT3G26660.1 52.679 112 46 1 8 112 6 117 3.85e-37 126
MsaG042594 AT3G26620.1 53.333 105 49 0 8 112 6 110 5.21e-37 126
MsaG042594 AT3G03760.1 55.340 103 45 1 6 107 50 152 4.02e-33 120
MsaG042594 AT4G00210.1 54.630 108 48 1 7 113 11 118 7.89e-33 118
MsaG042594 AT3G50510.1 48.182 110 57 0 1 110 6 115 9.35e-33 117
MsaG042594 AT3G50510.2 48.182 110 57 0 1 110 6 115 9.35e-33 117
MsaG042594 AT2G42430.1 50.893 112 54 1 2 112 10 121 1.66e-32 118
MsaG042594 AT5G06080.1 50.450 111 54 1 1 110 1 111 3.95e-30 110
MsaG042594 AT2G45420.1 51.456 103 49 1 10 111 40 142 1.38e-29 111
MsaG042594 AT2G31310.1 49.091 110 55 1 1 109 1 110 1.66e-29 108
MsaG042594 AT4G00220.1 52.427 103 48 1 10 111 20 122 1.69e-29 110
MsaG042594 AT2G45410.1 52.336 107 50 1 10 115 19 125 3.09e-29 108
MsaG042594 AT5G35900.1 48.113 106 55 0 8 113 6 111 3.64e-29 108
MsaG042594 AT3G58190.1 49.038 104 52 1 7 109 11 114 3.84e-28 106
MsaG042594 AT2G42440.1 47.273 110 57 1 1 109 1 110 5.99e-28 106
MsaG042594 AT3G13850.1 40.952 105 62 0 8 112 37 141 4.38e-27 104
MsaG042594 AT3G47870.1 40.000 105 63 0 8 112 37 141 1.12e-25 102
MsaG042594 AT1G72980.1 37.838 111 69 0 4 114 10 120 9.72e-21 87.0
MsaG042594 AT4G22700.1 40.385 104 60 2 8 110 6 108 1.59e-19 83.2
MsaG042594 AT1G06280.1 39.080 87 53 0 8 94 25 111 1.38e-18 80.9
MsaG042594 AT2G19820.1 33.708 89 58 1 6 93 11 99 3.16e-14 67.4
MsaG042594 AT5G15060.1 39.726 73 42 1 8 78 18 90 7.99e-14 66.6
MsaG042594 AT3G27940.3 42.424 66 38 0 7 72 5 70 4.83e-11 59.3
MsaG042594 AT3G27940.1 42.424 66 38 0 7 72 5 70 4.83e-11 59.3
MsaG042594 AT3G27940.2 42.424 66 38 0 7 72 5 70 4.83e-11 59.3

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGACTTCGCGATCCTGTTTA+TGG 0.125304 8:+24599966 MsaT042594.1:CDS
TCAACATCAACAACATAATT+TGG 0.253618 8:+24600256 MsaT042594.1:CDS
CACATTCTGGTTGGCATTTG+CGG 0.315598 8:-24599791 None:intergenic
GTGCTAAATCCGAACTTTCT+CGG 0.374243 8:+24600051 MsaT042594.1:CDS
TAAGGTGCAAATGCACATTC+TGG 0.376608 8:-24599804 None:intergenic
GGCTGATCAGGTGGAAAATA+AGG 0.377629 8:-24599822 None:intergenic
ATGAATATTTCTGCTAGCTT+AGG 0.398380 8:+24600332 MsaT042594.1:CDS
TACCACCACACGCAGAATAC+TGG 0.411353 8:+24600167 MsaT042594.1:CDS
TGTTGTTGATGTTGATCCCT+TGG 0.455156 8:-24600248 None:intergenic
ACACCAACACAACCATAAAC+AGG 0.455574 8:-24599978 None:intergenic
ATCGCAGCAGCGGCTACCGC+CGG 0.464845 8:+24600089 MsaT042594.1:CDS
GCAGCGGCTACCGCCGGTCA+TGG 0.465391 8:+24600095 MsaT042594.1:CDS
CCAACTTCGTCAGCTTCAAA+TGG 0.466283 8:+24600019 MsaT042594.1:CDS
GCCGGTCATGGACTCATAAC+CGG 0.468446 8:+24600107 MsaT042594.1:CDS
CAACTATGATGCTAGTCTCT+TGG 0.489577 8:+24600307 MsaT042594.1:CDS
GGACTCATAACCGGCATGAC+AGG 0.499561 8:+24600116 MsaT042594.1:CDS
GCTGACGAAGTTGGTGTTGA+AGG 0.501764 8:-24600010 None:intergenic
CCATTTGAAGCTGACGAAGT+TGG 0.517758 8:-24600019 None:intergenic
TGCTGCACATGGTGAATTTG+AGG 0.533620 8:-24599754 None:intergenic
GACAGATTCACCTGTCATGC+CGG 0.536335 8:-24600126 None:intergenic
GCTAGGAGCGGTTAACAGTA+CGG 0.540067 8:-24600397 None:intergenic
GCCGGTTATGAGTCCATGAC+CGG 0.545186 8:-24600108 None:intergenic
GATCCTGTTTATGGTTGTGT+TGG 0.550389 8:+24599975 MsaT042594.1:CDS
CAGCATCTTCACGTTGGTGA+GGG 0.561735 8:-24599914 None:intergenic
CAACTTCAACATGGTGGTGG+TGG 0.569174 8:+24600365 MsaT042594.1:CDS
ACAGCATCTTCACGTTGGTG+AGG 0.580209 8:-24599915 None:intergenic
AAACTTGAGCATCGCAGCAG+CGG 0.588874 8:+24600079 MsaT042594.1:CDS
GATGTTGATGATGATGTTGA+CGG 0.590678 8:-24600214 None:intergenic
ACGCAGAATACTGGTGGTGG+TGG 0.591657 8:+24600176 MsaT042594.1:CDS
GTGCAAATGCACATTCTGGT+TGG 0.592305 8:-24599800 None:intergenic
AATCAACTTCAACATGGTGG+TGG 0.618002 8:+24600362 MsaT042594.1:CDS
CACCAGTATTCTGCGTGTGG+TGG 0.620228 8:-24600169 None:intergenic
CACCACCAGTATTCTGCGTG+TGG 0.621135 8:-24600172 None:intergenic
GGTGGTGGTAATAACAGTAA+CGG 0.628758 8:+24600191 MsaT042594.1:CDS
TGGTGAATTTGAGGATGCCA+TGG 0.633685 8:-24599745 None:intergenic
CACACGCAGAATACTGGTGG+TGG 0.636478 8:+24600173 MsaT042594.1:CDS
AGAAACTTGCATGCTGCACA+TGG 0.636607 8:-24599765 None:intergenic
CATGACAGGTGAATCTGTCA+CGG 0.646689 8:+24600130 MsaT042594.1:CDS
CACCACACGCAGAATACTGG+TGG 0.670129 8:+24600170 MsaT042594.1:CDS
CAGATCAATCAACTTCAACA+TGG 0.677493 8:+24600356 MsaT042594.1:CDS
AATTAACAGCATCTTCACGT+TGG 0.680722 8:-24599920 None:intergenic
ATCAATCAACTTCAACATGG+TGG 0.690801 8:+24600359 MsaT042594.1:CDS
TTAGAAACCCTAGCTAGGAG+CGG 0.696119 8:-24600409 None:intergenic
GTGGTGGTAATTACTTGCAG+CGG 0.706895 8:-24600153 None:intergenic
GGTTATGAGTCCATGACCGG+CGG 0.721098 8:-24600105 None:intergenic
AGGAGCGGTTAACAGTACGG+AGG 0.803339 8:-24600394 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 24599747 24600418 24599747 ID=MsaG042594
Chr8 mRNA 24599747 24600418 24599747 ID=MsaT042594.1;Parent=MsaG042594
Chr8 exon 24599747 24600418 24599747 ID=MsaT042594.1.exon1;Parent=MsaT042594.1
Chr8 CDS 24599747 24600418 24599747 ID=cds.MsaT042594.1;Parent=MsaT042594.1
Gene Sequence

>MsaT042594.1

ATGGCATCCTCAAATTCACCATGTGCAGCATGCAAGTTTCTACGCCGCAAATGCCAACCAGAATGTGCATTTGCACCTTATTTTCCACCTGATCAGCCACAAAAATTTGCAAATGTTCATAGAATTTTTGGAGCAAGTAATGTTACAAAGCTTCTCAATGATTTACACCCTCACCAACGTGAAGATGCTGTTAATTCACTTGCTTATGAAGCTGAGATGCGACTTCGCGATCCTGTTTATGGTTGTGTTGGTGTAATTTCTCTCCTTCAACACCAACTTCGTCAGCTTCAAATGGATCTTTATTGTGCTAAATCCGAACTTTCTCGGTTTCAAAACTTGAGCATCGCAGCAGCGGCTACCGCCGGTCATGGACTCATAACCGGCATGACAGGTGAATCTGTCACGGCCGCTGCAAGTAATTACCACCACACGCAGAATACTGGTGGTGGTGGTAATAACAGTAACGGCCGTCAACATCATCATCAACATCATCAGTTTTTTCCAAGGGATCAACATCAACAACATAATTTGGTAAGAAATTTTGATGGTGGAATTGGGAACAACTATGATGCTAGTCTCTTGGCTATGAATATTTCTGCTAGCTTAGGACAGATCAATCAACTTCAACATGGTGGTGGTGGTGACGACCTCCGTACTGTTAACCGCTCCTAG
Protein sequence

>MsaT042594.1

MASSNSPCAACKFLRRKCQPECAFAPYFPPDQPQKFANVHRIFGASNVTKLLNDLHPHQREDAVNSLAYEAEMRLRDPVYGCVGVISLLQHQLRQLQMDLYCAKSELSRFQNLSIAAAATAGHGLITGMTGESVTAAASNYHHTQNTGGGGNNSNGRQHHHQHHQFFPRDQHQQHNLVRNFDGGIGNNYDASLLAMNISASLGQINQLQHGGGGDDLRTVNRS*