AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene46228

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46228.t1 MTR_5g083010 98.305 177 2 1 1 176 1 177 1.41e-127 355
MS.gene46228.t1 MTR_3g071420 74.725 182 40 1 1 176 4 185 7.87e-89 258
MS.gene46228.t1 MTR_7g033800 50.000 150 68 1 8 150 8 157 8.93e-48 153
MS.gene46228.t1 MTR_4g105170 46.108 167 79 2 9 174 9 165 1.05e-45 149
MS.gene46228.t1 MTR_6g005070 64.151 106 38 0 8 113 6 111 1.53e-44 144
MS.gene46228.t1 MTR_3g077240 63.551 107 39 0 9 115 8 114 2.43e-44 145
MS.gene46228.t1 MTR_3g031660 54.545 121 54 1 8 128 4 123 9.22e-43 140
MS.gene46228.t1 MTR_6g005080 51.471 136 51 1 8 128 7 142 1.87e-42 139
MS.gene46228.t1 MTR_5g083230 63.366 101 37 0 8 108 3 103 3.04e-42 139
MS.gene46228.t1 MTR_3g071590 46.358 151 81 0 8 158 5 155 8.38e-42 137
MS.gene46228.t1 MTR_4g083680 60.396 101 40 0 8 108 12 112 1.16e-41 138
MS.gene46228.t1 MTR_2g068760 58.491 106 44 0 3 108 5 110 6.27e-41 135
MS.gene46228.t1 MTR_3g073690 60.952 105 41 0 8 112 6 110 4.59e-40 134
MS.gene46228.t1 MTR_5g083960 50.769 130 62 1 8 137 36 163 8.65e-40 134
MS.gene46228.t1 MTR_5g017950 60.952 105 41 0 8 112 5 109 9.86e-40 137
MS.gene46228.t1 MTR_3g452660 49.231 130 63 1 8 137 4 130 1.62e-38 133
MS.gene46228.t1 MTR_8g040900 53.788 132 56 1 8 134 4 135 2.14e-38 131
MS.gene46228.t1 MTR_2g093310 43.226 155 71 2 10 152 32 181 1.68e-36 125
MS.gene46228.t1 MTR_3g094690 56.863 102 44 0 12 113 48 149 4.72e-36 125
MS.gene46228.t1 MTR_7g096530 51.327 113 54 1 2 113 5 117 1.23e-35 124
MS.gene46228.t1 MTR_5g075020 49.640 139 58 2 4 136 30 162 3.96e-35 123
MS.gene46228.t1 MTR_8g036085 54.902 102 45 1 12 112 24 125 5.33e-35 122
MS.gene46228.t1 MTR_5g075020 49.640 139 58 2 4 136 34 166 5.61e-35 122
MS.gene46228.t1 MTR_8g036105 50.442 113 55 1 1 112 8 120 7.06e-35 122
MS.gene46228.t1 MTR_1g095850 55.446 101 45 0 12 112 73 173 1.05e-34 122
MS.gene46228.t1 MTR_7g074990 51.485 101 48 1 12 111 21 121 2.96e-34 120
MS.gene46228.t1 MTR_3g094690 55.882 102 44 1 12 113 48 148 1.67e-33 119
MS.gene46228.t1 MTR_1g070220 52.294 109 50 2 2 108 5 113 3.74e-33 117
MS.gene46228.t1 MTR_1g070205 38.095 168 91 4 12 167 13 179 4.59e-33 117
MS.gene46228.t1 MTR_4g060950 56.701 97 41 1 10 105 23 119 4.67e-33 116
MS.gene46228.t1 MTR_7g096610 50.893 112 53 2 8 117 5 116 5.12e-33 117
MS.gene46228.t1 MTR_6g027710 50.495 101 49 1 12 111 41 141 5.82e-33 117
MS.gene46228.t1 MTR_5g080470 40.000 125 74 1 9 132 5 129 1.12e-30 110
MS.gene46228.t1 MTR_7g075230 50.000 108 51 2 8 112 9 116 1.83e-30 110
MS.gene46228.t1 MTR_7g028905 43.689 103 58 0 10 112 4 106 1.47e-29 105
MS.gene46228.t1 MTR_8g079660 49.020 102 52 0 12 113 9 110 8.72e-29 107
MS.gene46228.t1 MTR_5g093010 42.574 101 58 0 12 112 6 106 5.52e-28 102
MS.gene46228.t1 MTR_8g079620 47.059 102 54 0 12 113 9 110 3.25e-27 102
MS.gene46228.t1 MTR_6g027700 44.898 98 53 1 12 108 8 105 3.90e-26 99.4
MS.gene46228.t1 MTR_4g099230 36.090 133 71 4 12 134 3 131 1.29e-23 91.3
MS.gene46228.t1 MTR_4g107450 32.075 159 104 2 8 166 7 161 1.77e-23 94.4
MS.gene46228.t1 MTR_6g011230 34.266 143 94 0 8 150 8 150 3.78e-23 91.3
MS.gene46228.t1 MTR_8g079580 43.689 103 57 1 12 113 9 111 9.90e-23 90.9
MS.gene46228.t1 MTR_2g100020 33.846 130 77 1 8 128 16 145 1.55e-22 91.3
MS.gene46228.t1 MTR_6g011200 37.615 109 67 1 7 114 5 113 1.02e-21 88.6
MS.gene46228.t1 MTR_8g017090 35.238 105 68 0 8 112 9 113 9.73e-21 87.0
MS.gene46228.t1 MTR_6g011250 36.697 109 68 1 7 114 5 113 4.81e-20 82.8
MS.gene46228.t1 MTR_5g085390 36.283 113 63 3 7 114 5 113 5.47e-18 78.6
MS.gene46228.t1 MTR_4g088035 31.111 90 62 0 8 97 3 92 2.26e-14 69.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46228.t1 AT3G11090 63.399 153 53 2 1 151 1 152 1.55e-63 193
MS.gene46228.t1 AT5G63090 58.475 118 46 1 9 123 9 126 3.26e-44 145
MS.gene46228.t1 AT5G63090 58.475 118 46 1 9 123 9 126 3.26e-44 145
MS.gene46228.t1 AT5G63090 58.475 118 46 1 9 123 9 126 3.26e-44 145
MS.gene46228.t1 AT5G63090 58.475 118 46 1 9 123 9 126 3.26e-44 145
MS.gene46228.t1 AT5G66870 54.887 133 56 1 8 140 4 132 4.59e-44 148
MS.gene46228.t1 AT3G27650 57.759 116 49 0 8 123 36 151 1.30e-43 142
MS.gene46228.t1 AT2G30130 57.391 115 48 1 8 122 5 118 2.64e-41 137
MS.gene46228.t1 AT1G65620 56.800 125 51 1 8 129 6 130 1.54e-39 133
MS.gene46228.t1 AT1G65620 56.800 125 51 1 8 129 6 130 1.54e-39 133
MS.gene46228.t1 AT1G65620 56.800 125 51 1 8 129 6 130 1.54e-39 133
MS.gene46228.t1 AT1G65620 56.800 125 51 1 8 129 6 130 1.54e-39 133
MS.gene46228.t1 AT1G65620 56.800 125 51 1 8 129 6 130 1.54e-39 133
MS.gene46228.t1 AT2G23660 56.731 104 45 0 8 111 2 105 2.08e-39 136
MS.gene46228.t1 AT2G23660 56.731 104 45 0 8 111 2 105 2.08e-39 136
MS.gene46228.t1 AT2G23660 56.731 104 45 0 8 111 2 105 2.08e-39 136
MS.gene46228.t1 AT2G30340 54.701 117 52 1 12 127 53 169 4.52e-38 131
MS.gene46228.t1 AT2G30340 54.701 117 52 1 12 127 54 170 4.93e-38 131
MS.gene46228.t1 AT1G31320 60.000 90 36 0 8 97 10 99 1.22e-36 125
MS.gene46228.t1 AT1G07900 58.586 99 41 0 10 108 32 130 4.69e-36 124
MS.gene46228.t1 AT1G16530 51.786 112 52 2 2 111 4 115 1.10e-35 122
MS.gene46228.t1 AT2G28500 56.863 102 44 0 10 111 54 155 1.88e-35 124
MS.gene46228.t1 AT3G03760 52.427 103 48 1 10 111 50 152 3.37e-35 124
MS.gene46228.t1 AT2G40470 68.750 80 25 0 12 91 21 100 5.44e-35 122
MS.gene46228.t1 AT4G00210 50.442 113 55 1 1 112 1 113 6.40e-35 122
MS.gene46228.t1 AT2G40470 68.750 80 25 0 12 91 46 125 1.27e-34 121
MS.gene46228.t1 AT4G00220 56.000 100 43 1 14 112 20 119 1.92e-34 121
MS.gene46228.t1 AT2G42430 49.580 119 59 1 2 119 6 124 3.35e-34 121
MS.gene46228.t1 AT2G45420 53.000 100 46 1 14 112 40 139 7.52e-34 120
MS.gene46228.t1 AT3G58190 43.750 128 71 1 12 138 12 139 4.10e-33 117
MS.gene46228.t1 AT2G42440 46.552 116 61 1 8 122 4 119 4.68e-33 118
MS.gene46228.t1 AT3G26660 48.515 101 52 0 12 112 6 106 1.56e-32 113
MS.gene46228.t1 AT3G26620 48.515 101 52 0 12 112 6 106 1.98e-32 112
MS.gene46228.t1 AT5G06080 42.017 119 68 1 9 126 5 123 2.14e-31 112
MS.gene46228.t1 AT2G45410 51.000 100 48 1 14 112 19 118 6.37e-31 111
MS.gene46228.t1 AT2G31310 44.340 106 58 1 9 113 5 110 3.88e-30 108
MS.gene46228.t1 AT3G50510 40.602 133 77 2 7 137 8 140 1.62e-27 102
MS.gene46228.t1 AT3G50510 40.602 133 77 2 7 137 8 140 1.62e-27 102
MS.gene46228.t1 AT5G35900 38.686 137 80 1 8 140 2 138 2.46e-27 102
MS.gene46228.t1 AT3G13850 38.235 102 63 0 11 112 36 137 8.24e-24 94.7
MS.gene46228.t1 AT1G72980 38.739 111 68 0 8 118 10 120 4.76e-22 89.0
MS.gene46228.t1 AT3G47870 41.379 87 51 0 8 94 33 119 6.39e-20 85.1
MS.gene46228.t1 AT4G22700 35.036 137 81 4 8 138 2 136 2.18e-18 79.0
MS.gene46228.t1 AT1G06280 46.154 78 42 0 11 88 24 101 3.39e-18 78.6
MS.gene46228.t1 AT2G19820 35.165 91 57 2 12 101 13 102 3.02e-12 60.8
MS.gene46228.t1 AT5G15060 38.158 76 43 2 10 82 16 90 5.58e-12 60.8

Find 25 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCGAAAGTGCACAAAGTATT+TGG 0.201773 5.3:-67198246 MS.gene46228:CDS
GGAAGAAACTGTGAATTCTT+TGG 0.269255 5.3:-67198175 MS.gene46228:CDS
TATGGCGCAAATATACAATT+TGG 0.301099 5.3:+67198297 None:intergenic
CACTCATCGGAGCGAAAGTA+TGG 0.344487 5.3:+67198279 None:intergenic
CGCGAATTTCTTGCACTCAT+CGG 0.347852 5.3:+67198266 None:intergenic
GTTTCTTCCCTTTGTTCCTC+TGG 0.351316 5.3:+67198189 None:intergenic
AGGCTTAGAGACCCCGTCTA+TGG 0.370197 5.3:-67198135 MS.gene46228:CDS
ATTCGAACTCATCATATCAT+TGG 0.425834 5.3:+67197993 None:intergenic
TGCCATTGCAAAGGATCGTC+TGG 0.428280 5.3:-67198055 MS.gene46228:CDS
TAACAGCATTAAAATATGTA+AGG 0.494256 5.3:+67197850 None:intergenic
GCACCTATGCATCCATAGAC+GGG 0.499649 5.3:+67198123 None:intergenic
CGAAGTTCCAGAGGAACAAA+GGG 0.517072 5.3:-67198196 MS.gene46228:CDS
AAATTTGCAGGCTGCACAAG+AGG 0.545401 5.3:+67198338 None:intergenic
AGCACCTATGCATCCATAGA+CGG 0.565869 5.3:+67198122 None:intergenic
GCACAAGAGGAACTTGACCT+TGG 0.570179 5.3:+67198351 None:intergenic
TCGAAGTTCCAGAGGAACAA+AGG 0.580233 5.3:-67198197 MS.gene46228:CDS
TGGCTTATGAAGCTGATGCA+AGG 0.584407 5.3:-67198155 MS.gene46228:CDS
ACATGATCTTGCCATTGCAA+AGG 0.585696 5.3:-67198064 MS.gene46228:CDS
CACTCTAGAGAAATCATGAA+GGG 0.616662 5.3:-67198381 None:intergenic
AGCCAGACGATCCTTTGCAA+TGG 0.625442 5.3:+67198053 None:intergenic
GACCCCGTCTATGGATGCAT+AGG 0.633413 5.3:-67198126 MS.gene46228:CDS
TCATGAAGGGTTATGAACCA+AGG 0.655644 5.3:-67198368 MS.gene46228:CDS
CACCTATGCATCCATAGACG+GGG 0.668606 5.3:+67198124 None:intergenic
GATTCTGATCGAAGTTCCAG+AGG 0.676488 5.3:-67198205 MS.gene46228:CDS
TCGTCTGGCTCGTTGCGCTG+CGG 0.690033 5.3:-67198040 MS.gene46228:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATATCATTGGAAAAAGAAGT+AGG + chr5.3:67198221-67198240 None:intergenic 25.0%
ATTCGAACTCATCATATCAT+TGG + chr5.3:67198234-67198253 None:intergenic 30.0%
TATGGCGCAAATATACAATT+TGG + chr5.3:67197930-67197949 None:intergenic 30.0%
!! TCTTCTTTTGAGAAATTTGC+AGG + chr5.3:67197901-67197920 None:intergenic 30.0%
CAAGTGAAAAACTCAGGAAA+AGG + chr5.3:67198269-67198288 None:intergenic 35.0%
GGAAGAAACTGTGAATTCTT+TGG - chr5.3:67198049-67198068 MS.gene46228:CDS 35.0%
ACATGATCTTGCCATTGCAA+AGG - chr5.3:67198160-67198179 MS.gene46228:CDS 40.0%
GTGAAAAACTCAGGAAAAGG+TGG + chr5.3:67198266-67198285 None:intergenic 40.0%
TCACTGCAAGTGAAAAACTC+AGG + chr5.3:67198275-67198294 None:intergenic 40.0%
! AGCACTTTTGCAAAGGAAGA+TGG - chr5.3:67198127-67198146 MS.gene46228:CDS 40.0%
! GCGAAAGTGCACAAAGTATT+TGG - chr5.3:67197978-67197997 MS.gene46228:CDS 40.0%
! GTGCTATAGCACTTTTGCAA+AGG - chr5.3:67198120-67198139 MS.gene46228:CDS 40.0%
AAATTTGCAGGCTGCACAAG+AGG + chr5.3:67197889-67197908 None:intergenic 45.0%
AGCACCTATGCATCCATAGA+CGG + chr5.3:67198105-67198124 None:intergenic 45.0%
CGAAGTTCCAGAGGAACAAA+GGG - chr5.3:67198028-67198047 MS.gene46228:CDS 45.0%
CGCGAATTTCTTGCACTCAT+CGG + chr5.3:67197961-67197980 None:intergenic 45.0%
GATTCTGATCGAAGTTCCAG+AGG - chr5.3:67198019-67198038 MS.gene46228:CDS 45.0%
GTTTCTTCCCTTTGTTCCTC+TGG + chr5.3:67198038-67198057 None:intergenic 45.0%
TCGAAGTTCCAGAGGAACAA+AGG - chr5.3:67198027-67198046 MS.gene46228:CDS 45.0%
TGGCTTATGAAGCTGATGCA+AGG - chr5.3:67198069-67198088 MS.gene46228:CDS 45.0%
AGCCAGACGATCCTTTGCAA+TGG + chr5.3:67198174-67198193 None:intergenic 50.0%
CACCTATGCATCCATAGACG+GGG + chr5.3:67198103-67198122 None:intergenic 50.0%
CACTCATCGGAGCGAAAGTA+TGG + chr5.3:67197948-67197967 None:intergenic 50.0%
GCACAAGAGGAACTTGACCT+TGG + chr5.3:67197876-67197895 None:intergenic 50.0%
GCACCTATGCATCCATAGAC+GGG + chr5.3:67198104-67198123 None:intergenic 50.0%
TGCCATTGCAAAGGATCGTC+TGG - chr5.3:67198169-67198188 MS.gene46228:CDS 50.0%
AGGCTTAGAGACCCCGTCTA+TGG - chr5.3:67198089-67198108 MS.gene46228:CDS 55.0%
GACCCCGTCTATGGATGCAT+AGG - chr5.3:67198098-67198117 MS.gene46228:CDS 55.0%
! TCGTCTGGCTCGTTGCGCTG+CGG - chr5.3:67198184-67198203 MS.gene46228:CDS 65.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 67197858 67198388 67197858 ID=MS.gene46228
chr5.3 mRNA 67197858 67198388 67197858 ID=MS.gene46228.t1;Parent=MS.gene46228
chr5.3 exon 67197858 67198388 67197858 ID=MS.gene46228.t1.exon1;Parent=MS.gene46228.t1
chr5.3 CDS 67197858 67198388 67197858 ID=cds.MS.gene46228.t1;Parent=MS.gene46228.t1
Gene Sequence

>MS.gene46228

ATGAAGGGTTATGAACCAAGGTCAAGTTCCTCTTGTGCAGCCTGCAAATTTCTCAAAAGAAGATGCATACCAAATTGTATATTTGCGCCATACTTTCGCTCCGATGAGTGCAAGAAATTCGCGAAAGTGCACAAAGTATTTGGAGCAAGCAATGTGAGCAAGATTCTGATCGAAGTTCCAGAGGAACAAAGGGAAGAAACTGTGAATTCTTTGGCTTATGAAGCTGATGCAAGGCTTAGAGACCCCGTCTATGGATGCATAGGTGCTATAGCACTTTTGCAAAGGAAGATGGTTGAACTTCAACATGATCTTGCCATTGCAAAGGATCGTCTGGCTCGTTGCGCTGCGGCTGCTGCTACTCCTACTTCTTTTTCCAATGATATGATGAGTTCGAATGTTAGTTTGCCACCTTTTCCTGAGTTTTTCACTTGCAGTGACTTCAGTGATAATTTAAGTCACAGTTCTTCGTCTCAATCGTTTAGTCGAAATGAAACTGTTGATGATTTCGTTCAAATTCCTTACATATTTTAA
Protein sequence

>MS.gene46228.t1

MKGYEPRSSSSCAACKFLKRRCIPNCIFAPYFRSDECKKFAKVHKVFGASNVSKILIEVPEEQREETVNSLAYEADARLRDPVYGCIGAIALLQRKMVELQHDLAIAKDRLARCAAAAATPTSFSNDMMSSNVSLPPFPEFFTCSDFSDNLSHSSSSQSFSRNETVDDFVQIPYIF