AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene032615

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene032615.t1 MTR_6g005080 94.366 142 8 0 1 142 1 142 1.50e-100 284
MS.gene032615.t1 MTR_6g005070 89.286 140 15 0 2 141 1 140 5.06e-92 263
MS.gene032615.t1 MTR_7g033800 86.607 112 15 0 3 114 4 115 1.34e-69 207
MS.gene032615.t1 MTR_3g077240 79.130 115 24 0 1 115 1 115 8.64e-65 196
MS.gene032615.t1 MTR_4g105170 80.374 107 21 0 8 114 9 115 7.60e-63 191
MS.gene032615.t1 MTR_5g083230 52.055 146 59 1 8 142 4 149 3.37e-49 155
MS.gene032615.t1 MTR_4g083680 63.810 105 38 0 9 113 14 118 2.42e-48 153
MS.gene032615.t1 MTR_3g073690 64.602 113 40 0 2 114 1 113 3.03e-48 154
MS.gene032615.t1 MTR_8g040900 68.750 112 33 1 2 113 1 110 1.20e-47 153
MS.gene032615.t1 MTR_5g017950 65.455 110 38 0 4 113 2 111 1.48e-47 156
MS.gene032615.t1 MTR_2g068760 56.198 121 45 1 9 129 12 124 6.62e-47 149
MS.gene032615.t1 MTR_3g031660 53.600 125 56 1 8 130 5 129 1.65e-45 146
MS.gene032615.t1 MTR_3g452660 65.138 109 38 0 5 113 2 110 2.55e-45 149
MS.gene032615.t1 MTR_3g071590 60.714 112 42 1 7 116 5 116 1.07e-44 144
MS.gene032615.t1 MTR_5g083960 58.879 107 44 0 7 113 36 142 1.49e-42 139
MS.gene032615.t1 MTR_3g094690 60.000 105 42 0 9 113 46 150 1.87e-42 140
MS.gene032615.t1 MTR_2g093310 52.459 122 58 0 2 123 25 146 3.24e-42 139
MS.gene032615.t1 MTR_3g071420 67.010 97 32 0 7 103 11 107 3.53e-42 138
MS.gene032615.t1 MTR_5g083010 63.208 106 39 0 7 112 8 113 3.71e-42 138
MS.gene032615.t1 MTR_3g094690 59.048 105 42 1 9 113 46 149 6.45e-40 134
MS.gene032615.t1 MTR_4g060950 45.070 142 65 2 9 137 23 164 8.97e-40 132
MS.gene032615.t1 MTR_5g075020 57.143 112 48 0 9 120 42 153 5.72e-38 129
MS.gene032615.t1 MTR_5g075020 57.143 112 48 0 9 120 46 157 9.25e-38 128
MS.gene032615.t1 MTR_7g096530 58.333 108 44 1 4 110 8 115 2.71e-37 127
MS.gene032615.t1 MTR_1g095850 50.442 113 56 0 11 123 73 185 6.34e-37 126
MS.gene032615.t1 MTR_1g070220 55.085 118 50 2 7 121 12 129 3.61e-36 124
MS.gene032615.t1 MTR_7g074990 60.000 95 37 1 10 103 20 114 6.72e-34 119
MS.gene032615.t1 MTR_8g036105 56.731 104 44 1 8 110 16 119 1.83e-33 117
MS.gene032615.t1 MTR_8g036085 54.286 105 47 1 10 113 23 127 1.84e-33 117
MS.gene032615.t1 MTR_6g027710 48.276 116 57 2 9 121 39 154 1.29e-32 115
MS.gene032615.t1 MTR_5g080470 53.608 97 44 1 9 104 6 102 1.18e-31 111
MS.gene032615.t1 MTR_5g093010 49.000 100 51 0 11 110 6 105 1.66e-31 110
MS.gene032615.t1 MTR_7g028905 46.078 102 55 0 9 110 4 105 2.53e-31 108
MS.gene032615.t1 MTR_8g079660 47.115 104 55 0 10 113 8 111 9.24e-31 111
MS.gene032615.t1 MTR_7g096610 55.102 98 43 1 7 103 5 102 1.51e-30 109
MS.gene032615.t1 MTR_7g075230 53.774 106 46 2 8 110 10 115 8.08e-30 107
MS.gene032615.t1 MTR_1g070205 52.632 95 44 1 10 103 12 106 1.58e-29 107
MS.gene032615.t1 MTR_6g011200 45.918 98 52 1 8 104 7 104 7.70e-29 106
MS.gene032615.t1 MTR_8g079620 44.231 104 58 0 10 113 8 111 8.90e-29 105
MS.gene032615.t1 MTR_4g107450 47.000 100 53 0 11 110 11 110 3.08e-28 105
MS.gene032615.t1 MTR_6g011230 42.000 100 58 0 7 106 8 107 1.26e-26 99.4
MS.gene032615.t1 MTR_6g027700 47.525 101 52 1 10 109 7 107 1.61e-26 99.0
MS.gene032615.t1 MTR_6g011250 43.689 103 57 1 7 108 6 108 2.01e-26 98.2
MS.gene032615.t1 MTR_8g079580 46.667 105 55 1 10 113 8 112 5.91e-26 98.2
MS.gene032615.t1 MTR_8g017090 39.252 107 65 0 7 113 9 115 1.08e-23 93.6
MS.gene032615.t1 MTR_2g100020 42.708 96 55 0 11 106 20 115 2.35e-23 92.4
MS.gene032615.t1 MTR_5g085390 42.857 98 55 1 8 104 7 104 4.72e-22 88.2
MS.gene032615.t1 MTR_4g099230 40.000 95 56 1 11 104 3 97 1.30e-21 85.1
MS.gene032615.t1 MTR_4g088035 32.222 90 61 0 9 98 5 94 3.27e-15 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene032615.t1 AT3G27650 80.000 110 22 0 4 113 33 142 1.41e-65 197
MS.gene032615.t1 AT5G63090 74.400 125 30 1 2 124 1 125 3.01e-63 192
MS.gene032615.t1 AT5G63090 74.400 125 30 1 2 124 1 125 3.01e-63 192
MS.gene032615.t1 AT5G63090 74.400 125 30 1 2 124 1 125 3.01e-63 192
MS.gene032615.t1 AT5G63090 74.400 125 30 1 2 124 1 125 3.01e-63 192
MS.gene032615.t1 AT1G65620 66.379 116 39 0 2 117 1 116 1.18e-48 155
MS.gene032615.t1 AT1G65620 66.379 116 39 0 2 117 1 116 1.18e-48 155
MS.gene032615.t1 AT1G65620 66.379 116 39 0 2 117 1 116 1.18e-48 155
MS.gene032615.t1 AT1G65620 66.379 116 39 0 2 117 1 116 1.18e-48 155
MS.gene032615.t1 AT1G65620 66.379 116 39 0 2 117 1 116 1.18e-48 155
MS.gene032615.t1 AT2G30130 60.526 114 45 0 8 121 6 119 2.87e-48 154
MS.gene032615.t1 AT5G66870 63.717 113 39 1 2 114 1 111 1.42e-46 153
MS.gene032615.t1 AT2G23660 62.617 107 40 0 7 113 2 108 2.03e-46 153
MS.gene032615.t1 AT2G23660 62.617 107 40 0 7 113 2 108 2.03e-46 153
MS.gene032615.t1 AT2G23660 62.617 107 40 0 7 113 2 108 2.03e-46 153
MS.gene032615.t1 AT1G31320 69.318 88 27 0 9 96 12 99 1.12e-43 142
MS.gene032615.t1 AT2G30340 55.752 113 50 0 9 121 51 163 7.02e-43 142
MS.gene032615.t1 AT2G30340 55.752 113 50 0 9 121 52 164 7.68e-43 142
MS.gene032615.t1 AT1G16530 61.538 104 39 1 9 111 13 116 1.41e-41 136
MS.gene032615.t1 AT1G07900 48.148 135 64 1 9 137 32 166 2.86e-41 136
MS.gene032615.t1 AT3G11090 57.658 111 45 1 7 117 8 116 5.41e-41 134
MS.gene032615.t1 AT2G28500 45.860 157 62 3 9 142 54 210 8.57e-41 136
MS.gene032615.t1 AT2G40470 62.857 105 39 0 9 113 19 123 1.91e-40 134
MS.gene032615.t1 AT2G40470 62.857 105 39 0 9 113 44 148 3.51e-40 134
MS.gene032615.t1 AT3G26620 46.721 122 59 1 11 132 6 121 6.50e-39 128
MS.gene032615.t1 AT3G26660 45.902 122 60 1 11 132 6 121 3.69e-38 126
MS.gene032615.t1 AT3G03760 55.769 104 45 1 9 111 50 153 3.73e-35 123
MS.gene032615.t1 AT2G42430 47.287 129 67 1 7 134 12 140 2.20e-34 120
MS.gene032615.t1 AT5G06080 50.926 108 52 1 9 115 6 113 2.83e-33 115
MS.gene032615.t1 AT4G00210 56.863 102 43 1 10 110 11 112 8.51e-33 115
MS.gene032615.t1 AT4G00220 57.576 99 41 1 13 110 20 118 1.02e-32 115
MS.gene032615.t1 AT2G45420 57.576 99 41 1 13 110 40 138 5.39e-32 114
MS.gene032615.t1 AT2G45410 46.667 135 65 3 13 140 19 153 3.93e-31 110
MS.gene032615.t1 AT3G58190 53.125 96 44 1 10 104 11 106 1.22e-30 110
MS.gene032615.t1 AT2G31310 52.083 96 45 1 9 103 6 101 1.55e-30 108
MS.gene032615.t1 AT3G50510 45.283 106 58 0 8 113 10 115 6.84e-30 107
MS.gene032615.t1 AT3G50510 45.283 106 58 0 8 113 10 115 6.84e-30 107
MS.gene032615.t1 AT2G42440 49.495 99 49 1 7 104 4 102 1.31e-29 107
MS.gene032615.t1 AT3G47870 38.182 110 68 0 1 110 27 136 1.30e-25 99.4
MS.gene032615.t1 AT3G13850 40.777 103 61 0 11 113 37 139 1.99e-25 97.8
MS.gene032615.t1 AT5G35900 43.000 100 57 0 11 110 6 105 1.38e-24 94.0
MS.gene032615.t1 AT1G72980 40.187 107 64 0 4 110 7 113 1.16e-22 89.4
MS.gene032615.t1 AT1G06280 48.052 77 40 0 11 87 25 101 3.02e-20 82.8
MS.gene032615.t1 AT4G22700 34.921 126 80 2 11 135 6 130 5.20e-18 76.6
MS.gene032615.t1 AT2G19820 36.264 91 57 1 7 96 9 99 4.54e-16 70.1
MS.gene032615.t1 AT5G15060 36.986 73 44 1 11 81 18 90 2.00e-12 60.8
MS.gene032615.t1 AT3G27940 29.245 106 75 0 10 115 5 110 9.15e-12 59.3
MS.gene032615.t1 AT3G27940 29.245 106 75 0 10 115 5 110 9.15e-12 59.3
MS.gene032615.t1 AT3G27940 29.245 106 75 0 10 115 5 110 9.15e-12 59.3

Find 24 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAATGTTCACAAAGTATT+TGG 0.212072 6.3:+1173089 MS.gene032615:CDS
GCAAACTTATGAGGCTCTTC+TGG 0.277156 6.3:-1173068 None:intergenic
AATCCTTGCTTCAGCTTCAT+AGG 0.299183 6.3:-1173183 None:intergenic
GGCTCTTCTGGTGGGAAATA+AGG 0.304156 6.3:-1173056 None:intergenic
GGTTCTTCTTCTCTTGGTCT+TGG 0.305065 6.3:+1173320 MS.gene032615:CDS
CATGAAGGTTCTTCTTCTCT+TGG 0.312102 6.3:+1173314 MS.gene032615:CDS
TTGTAGCATCAAGTTCCTTT+TGG 0.323860 6.3:-1173268 None:intergenic
CGCTTCAAGGACAACTCTTT+AGG 0.341714 6.3:+1173243 MS.gene032615:CDS
TGAACATTTGCAAACTTATG+AGG 0.383834 6.3:-1173077 None:intergenic
ATGTCATTGCTGAAATTTGA+AGG 0.464467 6.3:-1173374 None:intergenic
GGAGCTATTTCAGCGCTTCA+AGG 0.465943 6.3:+1173230 MS.gene032615:CDS
ATGAAGTCTTACCTCATCAA+AGG 0.530030 6.3:+1173138 MS.gene032615:CDS
ACAACTCTTTAGGCTCCAAA+AGG 0.536437 6.3:+1173253 MS.gene032615:CDS
AACTTATGAGGCTCTTCTGG+TGG 0.540828 6.3:-1173065 None:intergenic
TGAAGTCTTACCTCATCAAA+GGG 0.542775 6.3:+1173139 MS.gene032615:CDS
AATCCAGTGTATGGTTGTGT+TGG 0.555823 6.3:+1173209 MS.gene032615:CDS
TGTCATTGCTGAAATTTGAA+GGG 0.589927 6.3:-1173373 None:intergenic
AGAAACTTGCAAGCAGCACA+TGG 0.591215 6.3:-1172999 None:intergenic
ACTTATGAGGCTCTTCTGGT+GGG 0.610191 6.3:-1173064 None:intergenic
ACTGTATCCTCCCTTTGATG+AGG 0.610482 6.3:-1173149 None:intergenic
GCTCCAACACAACCATACAC+TGG 0.615806 6.3:-1173212 None:intergenic
TTGCCTATGAAGCTGAAGCA+AGG 0.624248 6.3:+1173180 MS.gene032615:CDS
TGGAGAATTTGAGTAGCTTG+AGG 0.626001 6.3:-1172979 None:intergenic
AGTCTTACCTCATCAAAGGG+AGG 0.699522 6.3:+1173142 MS.gene032615:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGGATTAAAAATCCAGTGTA+TGG + chr6.3:1173200-1173219 MS.gene032615:CDS 30.0%
ATGTCATTGCTGAAATTTGA+AGG - chr6.3:1173377-1173396 None:intergenic 30.0%
TGAACATTTGCAAACTTATG+AGG - chr6.3:1173080-1173099 None:intergenic 30.0%
TGTCATTGCTGAAATTTGAA+GGG - chr6.3:1173376-1173395 None:intergenic 30.0%
! GCAAATGTTCACAAAGTATT+TGG + chr6.3:1173089-1173108 MS.gene032615:CDS 30.0%
!! TTGATTCGTTTTACTCATGA+AGG + chr6.3:1173299-1173318 MS.gene032615:CDS 30.0%
AAGGTGCAAAAATGCAATCT+TGG - chr6.3:1173040-1173059 None:intergenic 35.0%
ATGAAGTCTTACCTCATCAA+AGG + chr6.3:1173138-1173157 MS.gene032615:CDS 35.0%
TGAAGTCTTACCTCATCAAA+GGG + chr6.3:1173139-1173158 MS.gene032615:CDS 35.0%
! TTGTAGCATCAAGTTCCTTT+TGG - chr6.3:1173271-1173290 None:intergenic 35.0%
AATCCAGTGTATGGTTGTGT+TGG + chr6.3:1173209-1173228 MS.gene032615:CDS 40.0%
AATCCTTGCTTCAGCTTCAT+AGG - chr6.3:1173186-1173205 None:intergenic 40.0%
ACAACTCTTTAGGCTCCAAA+AGG + chr6.3:1173253-1173272 MS.gene032615:CDS 40.0%
CATGAAGGTTCTTCTTCTCT+TGG + chr6.3:1173314-1173333 MS.gene032615:CDS 40.0%
TGGAGAATTTGAGTAGCTTG+AGG - chr6.3:1172982-1173001 None:intergenic 40.0%
AACTTATGAGGCTCTTCTGG+TGG - chr6.3:1173068-1173087 None:intergenic 45.0%
ACTGTATCCTCCCTTTGATG+AGG - chr6.3:1173152-1173171 None:intergenic 45.0%
ACTTATGAGGCTCTTCTGGT+GGG - chr6.3:1173067-1173086 None:intergenic 45.0%
AGAAACTTGCAAGCAGCACA+TGG - chr6.3:1173002-1173021 None:intergenic 45.0%
AGTCTTACCTCATCAAAGGG+AGG + chr6.3:1173142-1173161 MS.gene032615:CDS 45.0%
CGCTTCAAGGACAACTCTTT+AGG + chr6.3:1173243-1173262 MS.gene032615:CDS 45.0%
GCAAACTTATGAGGCTCTTC+TGG - chr6.3:1173071-1173090 None:intergenic 45.0%
GGTTCTTCTTCTCTTGGTCT+TGG + chr6.3:1173320-1173339 MS.gene032615:CDS 45.0%
TTGCCTATGAAGCTGAAGCA+AGG + chr6.3:1173180-1173199 MS.gene032615:CDS 45.0%
GCTCCAACACAACCATACAC+TGG - chr6.3:1173215-1173234 None:intergenic 50.0%
GGCTCTTCTGGTGGGAAATA+AGG - chr6.3:1173059-1173078 None:intergenic 50.0%
! GGAGCTATTTCAGCGCTTCA+AGG + chr6.3:1173230-1173249 MS.gene032615:CDS 50.0%


Chromosome Type Strat End Strand Name
chr6.3 gene 1172972 1173400 1172972 ID=MS.gene032615
chr6.3 mRNA 1172972 1173400 1172972 ID=MS.gene032615.t1;Parent=MS.gene032615
chr6.3 exon 1172972 1173400 1172972 ID=MS.gene032615.t1.exon1;Parent=MS.gene032615.t1
chr6.3 CDS 1172972 1173400 1172972 ID=cds.MS.gene032615.t1;Parent=MS.gene032615.t1
Gene Sequence

>MS.gene032615

ATGATGGCCTCAAGCTACTCAAATTCTCCATGTGCTGCTTGCAAGTTTCTAAGAAGAAAATGCAACCAAGATTGCATTTTTGCACCTTATTTCCCACCAGAAGAGCCTCATAAGTTTGCAAATGTTCACAAAGTATTTGGTGCAAGCAATGTTAGCAAAATTCTTAATGAAGTCTTACCTCATCAAAGGGAGGATACAGTGAATTCTCTTGCCTATGAAGCTGAAGCAAGGATTAAAAATCCAGTGTATGGTTGTGTTGGAGCTATTTCAGCGCTTCAAGGACAACTCTTTAGGCTCCAAAAGGAACTTGATGCTACAAATGCTGATTTGATTCGTTTTACTCATGAAGGTTCTTCTTCTCTTGGTCTTGGACAATTTCACTCTGATGACTTTTTAAATTACCCTTCAAATTTCAGCAATGACATGTGA
Protein sequence

>MS.gene032615.t1

MMASSYSNSPCAACKFLRRKCNQDCIFAPYFPPEEPHKFANVHKVFGASNVSKILNEVLPHQREDTVNSLAYEAEARIKNPVYGCVGAISALQGQLFRLQKELDATNADLIRFTHEGSSSLGLGQFHSDDFLNYPSNFSNDM