AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene82844

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82844.t1 MTR_6g005080 93.182 132 9 0 1 132 1 132 1.49e-91 261
MS.gene82844.t1 MTR_6g005070 88.550 131 15 0 2 132 1 131 3.67e-85 245
MS.gene82844.t1 MTR_7g033800 86.607 112 15 0 3 114 4 115 9.36e-70 207
MS.gene82844.t1 MTR_3g077240 79.130 115 24 0 1 115 1 115 5.49e-65 196
MS.gene82844.t1 MTR_4g105170 80.374 107 21 0 8 114 9 115 4.53e-63 191
MS.gene82844.t1 MTR_4g083680 58.678 121 49 1 9 128 14 134 1.43e-48 154
MS.gene82844.t1 MTR_3g073690 64.602 113 40 0 2 114 1 113 2.63e-48 154
MS.gene82844.t1 MTR_5g017950 65.455 110 38 0 4 113 2 111 9.63e-48 156
MS.gene82844.t1 MTR_8g040900 68.750 112 33 1 2 113 1 110 9.92e-48 153
MS.gene82844.t1 MTR_5g083230 57.377 122 52 0 8 129 4 125 2.25e-47 150
MS.gene82844.t1 MTR_2g068760 59.821 112 44 1 9 119 12 123 4.42e-47 149
MS.gene82844.t1 MTR_3g452660 64.545 110 39 0 5 114 2 111 2.07e-45 149
MS.gene82844.t1 MTR_3g031660 53.600 125 56 1 8 130 5 129 3.71e-45 145
MS.gene82844.t1 MTR_3g071590 62.857 105 39 0 7 111 5 109 1.21e-44 143
MS.gene82844.t1 MTR_5g083960 58.879 107 44 0 7 113 36 142 1.58e-42 139
MS.gene82844.t1 MTR_3g094690 60.000 105 42 0 9 113 46 150 1.80e-42 140
MS.gene82844.t1 MTR_3g071420 67.010 97 32 0 7 103 11 107 4.04e-42 137
MS.gene82844.t1 MTR_5g083010 63.208 106 39 0 7 112 8 113 5.17e-42 137
MS.gene82844.t1 MTR_2g093310 52.459 122 58 0 2 123 25 146 8.39e-42 137
MS.gene82844.t1 MTR_3g094690 59.048 105 42 1 9 113 46 149 6.41e-40 134
MS.gene82844.t1 MTR_4g060950 50.000 116 57 1 9 123 23 138 4.15e-38 127
MS.gene82844.t1 MTR_5g075020 56.637 113 49 0 9 121 42 154 6.28e-38 128
MS.gene82844.t1 MTR_5g075020 56.637 113 49 0 9 121 46 158 1.07e-37 128
MS.gene82844.t1 MTR_7g096530 58.333 108 44 1 4 110 8 115 4.97e-37 125
MS.gene82844.t1 MTR_1g095850 54.369 103 47 0 11 113 73 175 9.15e-37 125
MS.gene82844.t1 MTR_1g070220 58.491 106 43 1 7 111 12 117 9.59e-36 122
MS.gene82844.t1 MTR_7g074990 60.000 95 37 1 10 103 20 114 7.34e-34 118
MS.gene82844.t1 MTR_8g036085 55.046 109 46 2 10 117 23 129 1.68e-33 117
MS.gene82844.t1 MTR_8g036105 52.941 119 52 2 7 121 15 133 2.16e-33 116
MS.gene82844.t1 MTR_6g027710 48.276 116 57 2 9 121 39 154 4.68e-32 113
MS.gene82844.t1 MTR_5g080470 53.608 97 44 1 9 104 6 102 1.42e-31 111
MS.gene82844.t1 MTR_5g093010 49.000 100 51 0 11 110 6 105 1.67e-31 109
MS.gene82844.t1 MTR_7g028905 46.078 102 55 0 9 110 4 105 2.14e-31 108
MS.gene82844.t1 MTR_8g079660 47.115 104 55 0 10 113 8 111 7.74e-31 111
MS.gene82844.t1 MTR_7g096610 55.102 98 43 1 7 103 5 102 2.42e-30 108
MS.gene82844.t1 MTR_7g075230 53.774 106 46 2 8 110 10 115 1.63e-29 105
MS.gene82844.t1 MTR_1g070205 52.632 95 44 1 10 103 12 106 2.45e-29 106
MS.gene82844.t1 MTR_8g079620 44.231 104 58 0 10 113 8 111 8.62e-29 105
MS.gene82844.t1 MTR_6g011200 45.918 98 52 1 8 104 7 104 9.94e-29 105
MS.gene82844.t1 MTR_4g107450 47.000 100 53 0 11 110 11 110 4.68e-28 104
MS.gene82844.t1 MTR_6g011230 42.000 100 58 0 7 106 8 107 1.15e-26 99.0
MS.gene82844.t1 MTR_6g011250 43.689 103 57 1 7 108 6 108 1.58e-26 98.2
MS.gene82844.t1 MTR_6g027700 48.000 100 51 1 10 108 7 106 2.12e-26 98.2
MS.gene82844.t1 MTR_8g079580 46.667 105 55 1 10 113 8 112 4.86e-26 97.8
MS.gene82844.t1 MTR_8g017090 40.777 103 61 0 11 113 13 115 1.09e-23 93.2
MS.gene82844.t1 MTR_2g100020 42.708 96 55 0 11 106 20 115 2.69e-23 91.7
MS.gene82844.t1 MTR_5g085390 42.857 98 55 1 8 104 7 104 5.56e-22 87.4
MS.gene82844.t1 MTR_4g099230 40.000 95 56 1 11 104 3 97 1.32e-21 84.7
MS.gene82844.t1 MTR_4g088035 32.955 88 59 0 11 98 7 94 3.62e-15 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene82844.t1 AT3G27650 73.984 123 28 1 4 122 33 155 8.94e-66 197
MS.gene82844.t1 AT5G63090 74.400 125 31 1 1 124 1 125 7.99e-64 192
MS.gene82844.t1 AT5G63090 74.400 125 31 1 1 124 1 125 7.99e-64 192
MS.gene82844.t1 AT5G63090 74.400 125 31 1 1 124 1 125 7.99e-64 192
MS.gene82844.t1 AT5G63090 74.400 125 31 1 1 124 1 125 7.99e-64 192
MS.gene82844.t1 AT1G65620 64.754 122 38 1 2 123 1 117 1.03e-48 155
MS.gene82844.t1 AT1G65620 64.754 122 38 1 2 123 1 117 1.03e-48 155
MS.gene82844.t1 AT1G65620 64.754 122 38 1 2 123 1 117 1.03e-48 155
MS.gene82844.t1 AT1G65620 64.754 122 38 1 2 123 1 117 1.03e-48 155
MS.gene82844.t1 AT1G65620 64.754 122 38 1 2 123 1 117 1.03e-48 155
MS.gene82844.t1 AT2G30130 65.385 104 36 0 8 111 6 109 3.33e-48 153
MS.gene82844.t1 AT5G66870 63.717 113 39 1 2 114 1 111 1.05e-46 153
MS.gene82844.t1 AT2G23660 62.617 107 40 0 7 113 2 108 1.81e-46 152
MS.gene82844.t1 AT2G23660 62.617 107 40 0 7 113 2 108 1.81e-46 152
MS.gene82844.t1 AT2G23660 62.617 107 40 0 7 113 2 108 1.81e-46 152
MS.gene82844.t1 AT1G31320 69.318 88 27 0 9 96 12 99 7.92e-44 141
MS.gene82844.t1 AT2G30340 55.752 113 50 0 9 121 51 163 9.10e-43 142
MS.gene82844.t1 AT2G30340 55.752 113 50 0 9 121 52 164 1.18e-42 141
MS.gene82844.t1 AT1G16530 57.895 114 45 2 9 119 13 126 1.06e-41 136
MS.gene82844.t1 AT1G07900 53.043 115 54 0 9 123 32 146 8.01e-41 134
MS.gene82844.t1 AT3G11090 59.048 105 43 0 7 111 8 112 8.80e-41 134
MS.gene82844.t1 AT2G40470 62.857 105 39 0 9 113 19 123 1.70e-40 134
MS.gene82844.t1 AT2G40470 62.857 105 39 0 9 113 44 148 3.53e-40 134
MS.gene82844.t1 AT2G28500 53.913 115 53 0 9 123 54 168 4.56e-40 134
MS.gene82844.t1 AT3G26620 46.721 122 59 1 11 132 6 121 1.15e-38 127
MS.gene82844.t1 AT3G26660 45.902 122 60 1 11 132 6 121 4.70e-38 125
MS.gene82844.t1 AT3G03760 55.769 104 45 1 9 111 50 153 5.24e-35 122
MS.gene82844.t1 AT2G42430 56.190 105 45 1 7 110 12 116 4.38e-34 119
MS.gene82844.t1 AT5G06080 50.926 108 52 1 9 115 6 113 3.70e-33 114
MS.gene82844.t1 AT4G00210 60.000 95 37 1 10 103 11 105 9.52e-33 115
MS.gene82844.t1 AT4G00220 57.576 99 41 1 13 110 20 118 1.18e-32 115
MS.gene82844.t1 AT2G45420 57.576 99 41 1 13 110 40 138 6.21e-32 114
MS.gene82844.t1 AT3G58190 53.125 96 44 1 10 104 11 106 1.59e-30 109
MS.gene82844.t1 AT2G45410 56.566 99 42 1 13 110 19 117 1.64e-30 108
MS.gene82844.t1 AT2G31310 52.083 96 45 1 9 103 6 101 1.69e-30 108
MS.gene82844.t1 AT3G50510 45.283 106 58 0 8 113 10 115 6.78e-30 107
MS.gene82844.t1 AT3G50510 45.283 106 58 0 8 113 10 115 6.78e-30 107
MS.gene82844.t1 AT2G42440 49.495 99 49 1 7 104 4 102 1.72e-29 107
MS.gene82844.t1 AT3G47870 38.182 110 68 0 1 110 27 136 1.90e-25 98.6
MS.gene82844.t1 AT3G13850 40.777 103 61 0 11 113 37 139 1.92e-25 97.4
MS.gene82844.t1 AT5G35900 43.000 100 57 0 11 110 6 105 8.33e-25 94.4
MS.gene82844.t1 AT1G72980 40.187 107 64 0 4 110 7 113 9.85e-23 89.0
MS.gene82844.t1 AT1G06280 48.052 77 40 0 11 87 25 101 3.07e-20 82.4
MS.gene82844.t1 AT4G22700 38.614 101 60 2 11 110 6 105 2.03e-17 74.7
MS.gene82844.t1 AT2G19820 37.079 89 55 1 9 96 11 99 3.04e-16 70.1
MS.gene82844.t1 AT5G15060 36.986 73 44 1 11 81 18 90 1.93e-12 60.5
MS.gene82844.t1 AT3G27940 28.972 107 76 0 9 115 4 110 4.50e-12 60.1
MS.gene82844.t1 AT3G27940 28.972 107 76 0 9 115 4 110 4.50e-12 60.1
MS.gene82844.t1 AT3G27940 28.972 107 76 0 9 115 4 110 4.50e-12 60.1

Find 22 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAATGTTCACAAAGTATT+TGG 0.212072 6.1:+1117834 MS.gene82844:CDS
GCAAACTTATGAGGCTCTTC+TGG 0.277156 6.1:-1117813 None:intergenic
GTTTCTTCTTCTCTTGGTCT+TGG 0.291584 6.1:+1118065 MS.gene82844:CDS
AATCCTTGCTTCAGCTTCAT+AGG 0.299183 6.1:-1117928 None:intergenic
CATGAAGTTTCTTCTTCTCT+TGG 0.303347 6.1:+1118059 MS.gene82844:CDS
GGCTCTTCTGGTGGGAAATA+AGG 0.304156 6.1:-1117801 None:intergenic
TTGTAGCATCAAGTTCCTTT+TGG 0.323860 6.1:-1118013 None:intergenic
CGCTTCAAGGACAACTCTTT+AGG 0.341714 6.1:+1117988 MS.gene82844:CDS
TGAACATTTGCAAACTTATG+AGG 0.383834 6.1:-1117822 None:intergenic
GGAGCTATTTCAGCGCTTCA+AGG 0.465943 6.1:+1117975 MS.gene82844:CDS
ATGAAGTCTTACCTCATCAA+AGG 0.530030 6.1:+1117883 MS.gene82844:CDS
ACAACTCTTTAGGCTCCAAA+AGG 0.536437 6.1:+1117998 MS.gene82844:CDS
AACTTATGAGGCTCTTCTGG+TGG 0.540828 6.1:-1117810 None:intergenic
TGAAGTCTTACCTCATCAAA+GGG 0.542775 6.1:+1117884 MS.gene82844:CDS
AATCCAGTGTATGGTTGTGT+TGG 0.555823 6.1:+1117954 MS.gene82844:CDS
AGAAACTTGCAAGCAGCACA+TGG 0.591215 6.1:-1117744 None:intergenic
ACTTATGAGGCTCTTCTGGT+GGG 0.610191 6.1:-1117809 None:intergenic
ACTGTATCCTCCCTTTGATG+AGG 0.610482 6.1:-1117894 None:intergenic
GCTCCAACACAACCATACAC+TGG 0.615806 6.1:-1117957 None:intergenic
TTGCCTATGAAGCTGAAGCA+AGG 0.624248 6.1:+1117925 MS.gene82844:CDS
TGGAGAATTTGAGTAGCTTG+AGG 0.626001 6.1:-1117724 None:intergenic
AGTCTTACCTCATCAAAGGG+AGG 0.699522 6.1:+1117887 MS.gene82844:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGGATTAAAAATCCAGTGTA+TGG + chr6.1:1117945-1117964 MS.gene82844:CDS 30.0%
TGAACATTTGCAAACTTATG+AGG - chr6.1:1117825-1117844 None:intergenic 30.0%
! GCAAATGTTCACAAAGTATT+TGG + chr6.1:1117834-1117853 MS.gene82844:CDS 30.0%
AAGGTGCAAAAATGCAATCT+TGG - chr6.1:1117785-1117804 None:intergenic 35.0%
ATGAAGTCTTACCTCATCAA+AGG + chr6.1:1117883-1117902 MS.gene82844:CDS 35.0%
CATGAAGTTTCTTCTTCTCT+TGG + chr6.1:1118059-1118078 MS.gene82844:CDS 35.0%
TGAAGTCTTACCTCATCAAA+GGG + chr6.1:1117884-1117903 MS.gene82844:CDS 35.0%
! TTGTAGCATCAAGTTCCTTT+TGG - chr6.1:1118016-1118035 None:intergenic 35.0%
AATCCAGTGTATGGTTGTGT+TGG + chr6.1:1117954-1117973 MS.gene82844:CDS 40.0%
AATCCTTGCTTCAGCTTCAT+AGG - chr6.1:1117931-1117950 None:intergenic 40.0%
ACAACTCTTTAGGCTCCAAA+AGG + chr6.1:1117998-1118017 MS.gene82844:CDS 40.0%
GTTTCTTCTTCTCTTGGTCT+TGG + chr6.1:1118065-1118084 MS.gene82844:CDS 40.0%
TGGAGAATTTGAGTAGCTTG+AGG - chr6.1:1117727-1117746 None:intergenic 40.0%
AACTTATGAGGCTCTTCTGG+TGG - chr6.1:1117813-1117832 None:intergenic 45.0%
ACTGTATCCTCCCTTTGATG+AGG - chr6.1:1117897-1117916 None:intergenic 45.0%
ACTTATGAGGCTCTTCTGGT+GGG - chr6.1:1117812-1117831 None:intergenic 45.0%
AGAAACTTGCAAGCAGCACA+TGG - chr6.1:1117747-1117766 None:intergenic 45.0%
AGTCTTACCTCATCAAAGGG+AGG + chr6.1:1117887-1117906 MS.gene82844:CDS 45.0%
CGCTTCAAGGACAACTCTTT+AGG + chr6.1:1117988-1118007 MS.gene82844:CDS 45.0%
GCAAACTTATGAGGCTCTTC+TGG - chr6.1:1117816-1117835 None:intergenic 45.0%
TTGCCTATGAAGCTGAAGCA+AGG + chr6.1:1117925-1117944 MS.gene82844:CDS 45.0%
GCTCCAACACAACCATACAC+TGG - chr6.1:1117960-1117979 None:intergenic 50.0%
GGCTCTTCTGGTGGGAAATA+AGG - chr6.1:1117804-1117823 None:intergenic 50.0%
! GGAGCTATTTCAGCGCTTCA+AGG + chr6.1:1117975-1117994 MS.gene82844:CDS 50.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 1117717 1118115 1117717 ID=MS.gene82844
chr6.1 mRNA 1117717 1118115 1117717 ID=MS.gene82844.t1;Parent=MS.gene82844
chr6.1 exon 1117717 1118115 1117717 ID=MS.gene82844.t1.exon1;Parent=MS.gene82844.t1
chr6.1 CDS 1117717 1118115 1117717 ID=cds.MS.gene82844.t1;Parent=MS.gene82844.t1
Gene Sequence

>MS.gene82844

ATGATGGCCTCAAGCTACTCAAATTCTCCATGTGCTGCTTGCAAGTTTCTAAGAAGAAAATGCAACCAAGATTGCATTTTTGCACCTTATTTCCCACCAGAAGAGCCTCATAAGTTTGCAAATGTTCACAAAGTATTTGGTGCAAGCAATGTTAGCAAAATTCTTAATGAAGTCTTACCTCATCAAAGGGAGGATACAGTGAATTCTCTTGCCTATGAAGCTGAAGCAAGGATTAAAAATCCAGTGTATGGTTGTGTTGGAGCTATTTCAGCGCTTCAAGGACAACTCTTTAGGCTCCAAAAGGAACTTGATGCTACAAATGCTGATTTGATTCGTTTTACTCATGAAGTTTCTTCTTCTCTTGGTCTTGGACAATTTCACTCTGATGACTACATGTGA
Protein sequence

>MS.gene82844.t1

MMASSYSNSPCAACKFLRRKCNQDCIFAPYFPPEEPHKFANVHKVFGASNVSKILNEVLPHQREDTVNSLAYEAEARIKNPVYGCVGAISALQGQLFRLQKELDATNADLIRFTHEVSSSLGLGQFHSDDYM