AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene040027

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene040027.t1 MTR_3g071420 98.400 125 2 0 1 125 1 125 1.39e-88 255
MS.gene040027.t1 MTR_5g083010 80.469 128 25 0 4 131 1 128 6.39e-73 215
MS.gene040027.t1 MTR_6g005070 57.600 125 51 1 11 133 6 130 2.00e-47 150
MS.gene040027.t1 MTR_7g033800 64.151 106 38 0 11 116 8 113 3.32e-47 150
MS.gene040027.t1 MTR_3g077240 62.857 105 39 0 12 116 8 112 1.28e-44 144
MS.gene040027.t1 MTR_6g005080 55.200 125 54 1 11 133 7 131 1.56e-44 142
MS.gene040027.t1 MTR_4g105170 60.952 105 41 0 12 116 9 113 4.14e-44 143
MS.gene040027.t1 MTR_5g083230 64.078 103 37 0 12 114 4 106 5.68e-44 142
MS.gene040027.t1 MTR_3g071590 62.500 104 39 0 11 114 5 108 2.04e-43 140
MS.gene040027.t1 MTR_4g083680 55.652 115 51 0 11 125 12 126 2.27e-42 138
MS.gene040027.t1 MTR_5g083960 54.464 112 51 0 11 122 36 147 1.10e-41 137
MS.gene040027.t1 MTR_2g068760 52.033 123 58 1 6 128 5 126 1.11e-41 135
MS.gene040027.t1 MTR_3g073690 61.905 105 40 0 11 115 6 110 1.75e-41 136
MS.gene040027.t1 MTR_3g031660 58.252 103 43 0 12 114 5 107 2.49e-41 135
MS.gene040027.t1 MTR_5g017950 52.672 131 54 2 11 133 5 135 4.13e-41 139
MS.gene040027.t1 MTR_3g452660 60.000 105 42 0 11 115 4 108 3.47e-40 135
MS.gene040027.t1 MTR_8g040900 57.500 120 49 1 11 128 4 123 4.89e-40 134
MS.gene040027.t1 MTR_3g094690 61.053 95 37 0 13 107 46 140 1.96e-37 127
MS.gene040027.t1 MTR_2g093310 54.902 102 46 0 13 114 32 133 1.35e-36 124
MS.gene040027.t1 MTR_5g075020 61.290 93 30 1 7 93 30 122 2.58e-36 124
MS.gene040027.t1 MTR_5g075020 61.290 93 30 1 7 93 34 126 3.86e-36 124
MS.gene040027.t1 MTR_1g095850 54.455 101 46 0 15 115 73 173 3.54e-35 121
MS.gene040027.t1 MTR_7g096530 48.276 116 59 1 1 115 1 116 5.02e-35 120
MS.gene040027.t1 MTR_4g060950 51.402 107 51 1 13 118 23 129 5.65e-35 119
MS.gene040027.t1 MTR_3g094690 60.000 95 37 1 13 107 46 139 6.93e-35 120
MS.gene040027.t1 MTR_1g070220 50.435 115 55 2 1 113 1 115 7.63e-35 120
MS.gene040027.t1 MTR_8g036105 49.558 113 56 1 4 115 8 120 5.43e-34 118
MS.gene040027.t1 MTR_8g036085 52.941 102 47 1 15 115 24 125 6.39e-34 118
MS.gene040027.t1 MTR_7g074990 51.485 101 48 1 15 114 21 121 1.41e-33 117
MS.gene040027.t1 MTR_7g028905 44.660 103 57 0 13 115 4 106 2.01e-32 111
MS.gene040027.t1 MTR_5g080470 41.045 134 66 3 13 133 6 139 8.67e-32 111
MS.gene040027.t1 MTR_7g096610 49.541 109 53 2 11 117 5 113 1.05e-31 112
MS.gene040027.t1 MTR_6g027710 43.860 114 63 1 13 125 39 152 5.96e-31 110
MS.gene040027.t1 MTR_1g070205 48.544 103 52 1 15 116 13 115 1.02e-30 110
MS.gene040027.t1 MTR_5g093010 43.564 101 57 0 15 115 6 106 3.44e-30 106
MS.gene040027.t1 MTR_7g075230 50.000 104 49 2 15 115 13 116 6.24e-29 104
MS.gene040027.t1 MTR_8g079660 49.020 102 52 0 15 116 9 110 1.53e-28 105
MS.gene040027.t1 MTR_6g027700 43.689 103 57 1 12 113 5 107 2.14e-25 95.9
MS.gene040027.t1 MTR_8g079620 45.098 102 56 0 15 116 9 110 8.92e-25 94.7
MS.gene040027.t1 MTR_4g107450 39.815 108 65 0 11 118 7 114 1.86e-24 95.5
MS.gene040027.t1 MTR_6g011230 36.066 122 78 0 11 132 8 129 3.72e-24 92.4
MS.gene040027.t1 MTR_2g100020 32.558 129 79 1 11 131 16 144 9.71e-23 90.5
MS.gene040027.t1 MTR_6g011200 37.273 110 68 1 10 118 5 114 7.67e-22 87.4
MS.gene040027.t1 MTR_8g079580 42.718 103 58 1 15 116 9 111 1.01e-21 86.7
MS.gene040027.t1 MTR_6g011250 36.364 110 69 1 10 118 5 114 3.64e-21 84.3
MS.gene040027.t1 MTR_4g099230 33.333 126 72 4 15 132 3 124 9.17e-20 80.1
MS.gene040027.t1 MTR_8g017090 33.333 108 72 0 11 118 9 116 1.62e-19 82.0
MS.gene040027.t1 MTR_5g085390 36.207 116 65 3 10 120 5 116 1.04e-17 76.3
MS.gene040027.t1 MTR_4g088035 31.818 88 60 0 13 100 5 92 6.59e-14 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene040027.t1 AT3G11090 78.378 111 24 0 4 114 1 111 2.90e-62 188
MS.gene040027.t1 AT3G27650 64.151 106 38 0 11 116 36 141 5.21e-46 147
MS.gene040027.t1 AT5G66870 62.857 105 39 0 11 115 4 108 3.95e-44 146
MS.gene040027.t1 AT2G23660 60.000 105 42 0 11 115 2 106 1.33e-43 145
MS.gene040027.t1 AT2G23660 60.000 105 42 0 11 115 2 106 1.33e-43 145
MS.gene040027.t1 AT2G23660 60.000 105 42 0 11 115 2 106 1.33e-43 145
MS.gene040027.t1 AT5G63090 58.407 113 47 0 12 124 9 121 2.36e-43 141
MS.gene040027.t1 AT5G63090 58.407 113 47 0 12 124 9 121 2.36e-43 141
MS.gene040027.t1 AT5G63090 58.407 113 47 0 12 124 9 121 2.36e-43 141
MS.gene040027.t1 AT5G63090 58.407 113 47 0 12 124 9 121 2.36e-43 141
MS.gene040027.t1 AT2G30130 53.782 119 55 0 12 130 6 124 2.83e-41 135
MS.gene040027.t1 AT1G65620 55.085 118 53 0 11 128 6 123 3.51e-40 133
MS.gene040027.t1 AT1G65620 55.085 118 53 0 11 128 6 123 3.51e-40 133
MS.gene040027.t1 AT1G65620 55.085 118 53 0 11 128 6 123 3.51e-40 133
MS.gene040027.t1 AT1G65620 55.085 118 53 0 11 128 6 123 3.51e-40 133
MS.gene040027.t1 AT1G65620 55.085 118 53 0 11 128 6 123 3.51e-40 133
MS.gene040027.t1 AT2G30340 52.101 119 57 0 13 131 51 169 3.56e-39 132
MS.gene040027.t1 AT2G30340 52.101 119 57 0 13 131 52 170 3.73e-39 132
MS.gene040027.t1 AT1G16530 53.571 112 51 1 10 120 10 121 3.18e-38 127
MS.gene040027.t1 AT1G07900 58.586 99 41 0 13 111 32 130 7.12e-38 127
MS.gene040027.t1 AT2G40470 55.752 113 50 0 13 125 19 131 1.36e-37 127
MS.gene040027.t1 AT1G31320 60.000 90 36 0 11 100 10 99 1.60e-37 125
MS.gene040027.t1 AT2G40470 55.752 113 50 0 13 125 44 156 2.66e-37 127
MS.gene040027.t1 AT2G28500 55.882 102 45 0 13 114 54 155 1.64e-36 125
MS.gene040027.t1 AT4G00210 49.580 119 56 2 15 132 12 127 3.22e-35 121
MS.gene040027.t1 AT3G26660 44.538 119 62 1 15 133 6 120 5.42e-35 117
MS.gene040027.t1 AT3G26620 44.538 119 62 1 15 133 6 120 1.96e-34 116
MS.gene040027.t1 AT2G42430 46.774 124 65 1 5 127 6 129 3.05e-34 119
MS.gene040027.t1 AT3G03760 48.649 111 56 1 13 122 50 160 5.82e-34 119
MS.gene040027.t1 AT4G00220 53.000 100 46 1 17 115 20 119 1.79e-32 114
MS.gene040027.t1 AT2G45420 50.000 100 49 1 17 115 40 139 2.35e-32 115
MS.gene040027.t1 AT2G45410 44.915 118 64 1 17 133 19 136 1.24e-30 108
MS.gene040027.t1 AT3G58190 42.500 120 68 1 15 133 12 131 2.06e-30 108
MS.gene040027.t1 AT5G06080 48.958 96 48 1 13 107 6 101 3.97e-30 107
MS.gene040027.t1 AT2G42440 44.860 107 58 1 11 116 4 110 1.62e-29 107
MS.gene040027.t1 AT2G31310 43.396 106 59 1 12 116 5 110 5.88e-29 104
MS.gene040027.t1 AT5G35900 42.857 105 60 0 11 115 2 106 1.40e-27 101
MS.gene040027.t1 AT3G50510 45.283 106 58 0 10 115 8 113 2.25e-27 100
MS.gene040027.t1 AT3G50510 45.283 106 58 0 10 115 8 113 2.25e-27 100
MS.gene040027.t1 AT3G13850 37.069 116 70 1 14 129 36 148 1.38e-23 92.4
MS.gene040027.t1 AT1G72980 35.156 128 78 1 11 133 10 137 1.25e-21 86.3
MS.gene040027.t1 AT3G47870 34.862 109 71 0 11 119 33 141 2.54e-20 84.7
MS.gene040027.t1 AT4G22700 40.187 107 60 3 11 115 2 106 9.13e-20 80.9
MS.gene040027.t1 AT1G06280 44.872 78 43 0 14 91 24 101 1.22e-18 78.2
MS.gene040027.t1 AT2G19820 34.831 89 57 1 13 100 11 99 8.21e-13 61.2
MS.gene040027.t1 AT5G15060 40.541 74 40 2 15 85 18 90 1.94e-12 60.5

Find 0 sgRNAs with CRISPR-Local

Find 17 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GCTAAAGTTCACAAAGTATT+TGG + 24028:11805-11824 MS.gene040027:CDS 30.0%
AACCAATGCATCCATAAACT+GGG - 24028:11930-11949 None:intergenic 35.0%
ATTTCTTGCACTCGTTAGAA+TGG - 24028:11783-11802 MS.gene040027:intergenic 35.0%
GATGGAACTTCAACATGATT+TGG + 24028:11975-11994 MS.gene040027:CDS 35.0%
TAAGGTGCAAATAAGCAATC+TGG - 24028:11757-11776 MS.gene040027:intergenic 35.0%
TATGTTGCAAAGGAAGATGA+TGG + 24028:11957-11976 MS.gene040027:CDS 35.0%
!!! GTGTCTTCTCTTTGTTTTTC+TGG - 24028:11865-11884 MS.gene040027:intergenic 35.0%
AGGCTTAAAGACCCAGTTTA+TGG + 24028:11916-11935 MS.gene040027:CDS 40.0%
CACTCGTTAGAATGGAAGTA+AGG - 24028:11775-11794 MS.gene040027:intergenic 40.0%
CTTCCTTTGCAACATAGCTA+TGG - 24028:11953-11972 MS.gene040027:intergenic 40.0%
GAACCAATGCATCCATAAAC+TGG - 24028:11931-11950 MS.gene040027:intergenic 40.0%
GTTCCATAGCTATGTTGCAA+AGG + 24028:11947-11966 MS.gene040027:CDS 40.0%
TTGCTTATGAAGCAGAAGCA+AGG + 24028:11896-11915 MS.gene040027:CDS 40.0%
GACCCAGTTTATGGATGCAT+TGG + 24028:11925-11944 MS.gene040027:CDS 45.0%
! ACATGATTTGGCCAGTGCTA+AGG + 24028:11987-12006 MS.gene040027:CDS 45.0%
AGCAAGACGTTCCTTAGCAC+TGG - 24028:12001-12020 None:intergenic 50.0%
GCACAAGATGAGCTTGAACG+TGG - 24028:11703-11722 MS.gene040027:intergenic 50.0%


Chromosome Type Strat End Strand Name
24028 gene 11676 12075 11676 ID=MS.gene040027
24028 mRNA 11676 12075 11676 ID=MS.gene040027.t1;Parent=MS.gene040027
24028 exon 11676 12075 11676 ID=MS.gene040027.t1.exon1;Parent=MS.gene040027.t1
24028 CDS 11676 12075 11676 ID=cds.MS.gene040027.t1;Parent=MS.gene040027.t1
Gene Sequence

>MS.gene040027

ATGAAAGGCATAAAGGGTTATGAGCCACGTTCAAGCTCATCTTGTGCAGCTTGCAAATTATTGAAAAGAAGATGCACACCAGATTGCTTATTTGCACCTTACTTCCATTCTAACGAGTGCAAGAAATTTGCTAAAGTTCACAAAGTATTTGGAGCAAGCAATGTTAGCAAGATACTCATTGAAGTACCAGAAAAACAAAGAGAAGACACAGTGAATTCTCTTGCTTATGAAGCAGAAGCAAGGCTTAAAGACCCAGTTTATGGATGCATTGGTTCCATAGCTATGTTGCAAAGGAAGATGATGGAACTTCAACATGATTTGGCCAGTGCTAAGGAACGTCTTGCTCGCTGTCGTGCTGTTGCTGCAGCTGCTACAAATCACCACCACAACAACTCCTTCT
Protein sequence

>MS.gene040027.t1

MKGIKGYEPRSSSSCAACKLLKRRCTPDCLFAPYFHSNECKKFAKVHKVFGASNVSKILIEVPEKQREDTVNSLAYEAEARLKDPVYGCIGSIAMLQRKMMELQHDLASAKERLARCRAVAAAATNHHHNNSF