AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene39677


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene39677.t1 MTR_8g009090 85.271 129 12 1 1 122 1 129 3.17e-74 224
MS.gene39677.t1 MTR_8g008930 85.039 127 12 1 1 120 1 127 2.20e-72 220
MS.gene39677.t1 MTR_8g028435 81.395 129 17 1 1 122 1 129 1.09e-70 216
MS.gene39677.t1 MTR_8g009110 81.538 130 17 1 1 123 1 130 2.03e-70 215
MS.gene39677.t1 MTR_8g009160 80.620 129 18 1 1 122 1 129 6.80e-70 214
MS.gene39677.t1 MTR_8g009170 80.620 129 18 1 1 122 1 129 1.04e-69 211
MS.gene39677.t1 MTR_8g009170 80.620 129 18 1 1 122 1 129 4.69e-69 211
MS.gene39677.t1 MTR_8g009150 77.519 129 22 1 1 122 1 129 2.57e-65 201
MS.gene39677.t1 MTR_8g009120 77.519 129 22 1 1 122 1 129 6.19e-65 201
MS.gene39677.t1 MTR_4g117880 73.438 128 27 1 1 121 1 128 8.69e-64 198
MS.gene39677.t1 MTR_2g069090 67.241 116 27 2 17 122 22 136 1.05e-46 154
MS.gene39677.t1 MTR_2g069210 61.069 131 39 3 2 122 4 132 1.90e-44 148
MS.gene39677.t1 MTR_2g069190 64.035 114 30 2 19 122 24 136 4.36e-43 145
MS.gene39677.t1 MTR_2g069300 58.621 116 37 2 17 122 8 122 6.06e-40 136
MS.gene39677.t1 MTR_1g043770 57.143 112 39 2 19 122 11 121 7.90e-39 132
MS.gene39677.t1 MTR_1g043770 57.143 112 39 2 19 122 11 121 1.89e-38 132
MS.gene39677.t1 MTR_8g009080 54.331 127 46 3 6 122 38 162 3.51e-36 126
MS.gene39677.t1 MTR_1g043760 55.652 115 41 2 17 122 9 122 3.84e-36 126
MS.gene39677.t1 MTR_8g009080 54.331 127 46 3 6 122 38 162 5.56e-36 125
MS.gene39677.t1 MTR_8g009080 54.331 127 46 3 6 122 38 162 1.51e-35 125
MS.gene39677.t1 MTR_1g044105 50.000 120 45 2 17 122 9 127 3.46e-35 119
MS.gene39677.t1 MTR_1g043775 53.043 115 44 2 17 122 9 122 1.44e-33 119
MS.gene39677.t1 MTR_1g043810 50.435 115 47 2 17 122 9 122 3.36e-33 118
MS.gene39677.t1 MTR_1g093140 47.581 124 46 4 17 122 19 141 3.56e-33 119
MS.gene39677.t1 MTR_1g043775 53.043 115 44 2 17 122 9 122 3.63e-33 119
MS.gene39677.t1 MTR_1g043810 50.435 115 47 2 17 122 9 122 8.17e-33 118
MS.gene39677.t1 MTR_7g056347 47.826 115 50 2 17 122 22 135 1.21e-32 117
MS.gene39677.t1 MTR_7g078010 47.826 115 50 2 17 122 22 135 1.58e-32 116
MS.gene39677.t1 MTR_1g093120 47.059 119 49 4 17 122 18 135 2.26e-32 117
MS.gene39677.t1 MTR_4g119410 45.528 123 54 3 12 122 14 135 4.82e-32 116
MS.gene39677.t1 MTR_7g078010 47.826 115 50 2 17 122 22 135 7.81e-32 115
MS.gene39677.t1 MTR_8g006930 46.957 115 51 2 17 122 22 135 2.63e-31 114
MS.gene39677.t1 MTR_8g041620 51.282 117 46 2 17 122 22 138 2.35e-30 112
MS.gene39677.t1 MTR_1g093110 43.802 121 52 3 17 122 19 138 2.68e-30 111
MS.gene39677.t1 MTR_8g063070 43.966 116 55 2 16 122 21 135 4.05e-30 111
MS.gene39677.t1 MTR_4g099380 47.826 115 43 3 19 122 129 237 1.11e-29 108
MS.gene39677.t1 MTR_8g041600 49.573 117 48 2 17 122 22 138 1.13e-29 108
MS.gene39677.t1 MTR_2g068950 42.105 133 64 3 1 122 1 131 2.40e-29 108
MS.gene39677.t1 MTR_8g062600 44.000 125 57 4 10 122 12 135 2.70e-29 108
MS.gene39677.t1 MTR_2g068960 43.609 133 62 4 1 122 1 131 5.72e-29 108
MS.gene39677.t1 MTR_8g041600 49.573 117 48 2 17 122 22 138 6.27e-29 108
MS.gene39677.t1 MTR_4g024660 42.276 123 58 3 12 122 14 135 1.58e-28 107
MS.gene39677.t1 MTR_7g056393 43.478 115 55 2 17 122 22 135 7.17e-27 102
MS.gene39677.t1 MTR_2g069010 38.686 137 68 4 1 122 2 137 1.26e-26 102
MS.gene39677.t1 MTR_2g069020 42.735 117 55 2 17 122 20 135 2.42e-26 101
MS.gene39677.t1 MTR_2g069020 42.735 117 55 2 17 122 20 135 4.10e-26 100
MS.gene39677.t1 MTR_7g029655 43.333 120 50 2 17 122 17 132 1.67e-25 99.0
MS.gene39677.t1 MTR_0032s0040 47.154 123 44 3 17 122 17 135 3.76e-25 97.8
MS.gene39677.t1 MTR_7g056370 37.069 116 63 2 18 124 2 116 4.88e-24 92.4
MS.gene39677.t1 MTR_1g070185 41.593 113 59 1 17 122 23 135 1.34e-23 93.6
MS.gene39677.t1 MTR_8g469400 38.462 130 55 4 5 122 7 123 1.15e-21 88.2
MS.gene39677.t1 MTR_1g032250 39.130 115 55 2 19 122 28 138 1.73e-21 88.2
MS.gene39677.t1 MTR_7g105070 39.474 114 57 2 19 122 15 126 1.96e-21 87.8
MS.gene39677.t1 MTR_1g032140 36.923 130 67 2 4 122 6 131 8.46e-21 85.9
MS.gene39677.t1 MTR_2g069070 41.905 105 51 2 17 121 22 116 8.86e-21 83.2
MS.gene39677.t1 MTR_1g032220 37.391 115 57 2 19 122 28 138 3.71e-20 84.3
MS.gene39677.t1 MTR_2g069060 42.453 106 51 2 17 122 22 117 7.77e-20 83.2
MS.gene39677.t1 MTR_1g043840 57.627 59 25 0 64 122 256 314 7.94e-19 80.5
MS.gene39677.t1 MTR_7g068650 34.783 115 61 2 19 119 6 120 8.92e-18 77.8
MS.gene39677.t1 MTR_2g069060 50.000 70 34 1 53 122 27 95 3.47e-16 72.4
MS.gene39677.t1 MTR_2g068850 39.394 99 47 3 27 116 21 115 3.49e-16 71.6
MS.gene39677.t1 MTR_2g068840 36.364 132 64 6 1 123 1 121 3.41e-15 70.5
MS.gene39677.t1 MTR_3g091350 34.286 105 58 2 26 119 21 125 4.13e-15 70.5
MS.gene39677.t1 MTR_2g068800 39.560 91 42 3 27 108 21 107 1.15e-13 65.9
MS.gene39677.t1 MTR_5g032880 40.741 81 42 2 44 119 362 441 8.63e-13 63.9
MS.gene39677.t1 MTR_5g032880 39.506 81 35 2 44 119 24 95 3.97e-11 59.3
MS.gene39677.t1 MTR_3g070860 30.000 110 67 2 19 118 6 115 1.95e-12 62.8
MS.gene39677.t1 MTR_5g032870 39.506 81 43 2 44 119 24 103 2.70e-12 62.4
MS.gene39677.t1 MTR_4g015790 35.000 80 48 1 43 118 48 127 4.27e-12 62.0
MS.gene39677.t1 MTR_1g034140 44.776 67 31 1 53 119 27 87 7.08e-12 61.2
MS.gene39677.t1 MTR_0009s0050 42.647 68 35 1 53 120 47 110 7.67e-12 61.2
MS.gene39677.t1 MTR_0009s0050 42.647 68 35 1 53 120 47 110 7.74e-12 61.2
MS.gene39677.t1 MTR_3g091360 35.165 91 49 2 39 119 28 118 8.42e-12 60.8
MS.gene39677.t1 MTR_4g087090 37.500 80 42 2 45 116 18 97 1.70e-11 60.1
MS.gene39677.t1 MTR_1g032230 35.238 105 54 3 19 122 22 113 1.76e-11 59.7
MS.gene39677.t1 MTR_5g025050 40.909 66 33 1 52 117 4 63 2.44e-11 59.7
MS.gene39677.t1 MTR_4g087130 36.585 82 45 2 45 119 14 95 2.61e-11 59.7
MS.gene39677.t1 MTR_3g045230 35.135 111 51 3 27 123 17 120 3.56e-11 59.3
MS.gene39677.t1 MTR_3g464530 35.135 74 38 1 50 123 31 94 4.21e-11 58.5
MS.gene39677.t1 MTR_7g102720 37.113 97 48 3 27 123 18 101 4.56e-11 58.9
MS.gene39677.t1 MTR_3g043900 34.579 107 49 3 27 119 17 116 5.25e-11 58.5
MS.gene39677.t1 MTR_5g082750 35.526 76 48 1 48 123 44 118 5.34e-11 58.5
MS.gene39677.t1 MTR_7g062570 38.667 75 42 1 44 118 46 116 5.60e-11 58.5
MS.gene39677.t1 MTR_3g464530 35.211 71 36 1 53 123 34 94 6.11e-11 58.5
MS.gene39677.t1 MTR_5g055690 31.132 106 60 3 27 123 12 113 6.88e-11 58.2
MS.gene39677.t1 MTR_4g087140 41.667 72 39 1 53 121 26 97 6.88e-11 58.5
MS.gene39677.t1 MTR_5g048550 37.037 81 39 2 48 120 34 110 6.96e-11 58.5
MS.gene39677.t1 MTR_5g055690 31.132 106 60 3 27 123 12 113 7.26e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene39677.t1 AT5G59540 50.420 119 47 3 15 122 12 129 5.10e-35 122
MS.gene39677.t1 AT5G59540 50.420 119 47 3 15 122 12 129 1.72e-34 122
MS.gene39677.t1 AT1G06640 50.413 121 47 2 17 124 15 135 3.04e-33 117
MS.gene39677.t1 AT1G06640 47.794 136 55 4 4 124 1 135 4.57e-33 118
MS.gene39677.t1 AT1G06640 50.413 121 47 2 17 124 15 135 8.60e-33 118
MS.gene39677.t1 AT5G59530 50.000 120 49 3 15 124 11 129 5.96e-32 115
MS.gene39677.t1 AT1G06620 50.877 114 45 2 19 122 18 130 7.42e-32 114
MS.gene39677.t1 AT1G06645 49.580 119 47 2 17 122 28 146 8.66e-32 115
MS.gene39677.t1 AT1G03410 48.305 118 48 2 17 122 46 162 1.27e-31 115
MS.gene39677.t1 AT1G06620 50.877 114 45 2 19 122 18 130 2.13e-31 114
MS.gene39677.t1 AT1G03410 48.305 118 48 2 17 122 9 125 5.15e-31 113
MS.gene39677.t1 AT1G06650 47.107 121 51 2 17 124 15 135 9.77e-31 111
MS.gene39677.t1 AT2G30830 46.491 114 53 1 17 122 10 123 1.63e-30 112
MS.gene39677.t1 AT1G06650 47.107 121 51 2 17 124 15 135 1.95e-30 112
MS.gene39677.t1 AT3G61400 41.353 133 64 2 4 122 1 133 1.33e-29 108
MS.gene39677.t1 AT3G61400 41.353 133 64 2 4 122 1 133 3.11e-29 108
MS.gene39677.t1 AT5G43440 45.082 122 50 3 17 124 13 131 1.69e-27 102
MS.gene39677.t1 AT1G04350 45.000 120 51 3 14 122 8 123 1.98e-27 103
MS.gene39677.t1 AT2G30840 44.068 118 54 2 17 122 10 127 2.18e-27 102
MS.gene39677.t1 AT5G43440 45.082 122 50 3 17 124 13 131 4.89e-27 102
MS.gene39677.t1 AT2G30840 44.068 118 54 2 17 122 10 127 4.96e-27 102
MS.gene39677.t1 AT2G30840 44.068 118 54 2 17 122 10 127 5.04e-27 102
MS.gene39677.t1 AT2G25450 44.348 115 54 3 17 122 10 123 8.90e-27 102
MS.gene39677.t1 AT1G03400 45.299 117 44 3 17 122 9 116 4.89e-26 100
MS.gene39677.t1 AT1G03400 45.299 117 44 3 17 122 9 116 6.52e-26 100
MS.gene39677.t1 AT5G43450 41.818 110 49 3 21 118 17 123 3.85e-23 91.3
MS.gene39677.t1 AT5G43450 41.441 111 50 3 20 118 16 123 5.96e-23 92.0
MS.gene39677.t1 AT1G04380 37.190 121 47 4 17 125 14 117 3.71e-19 80.5
MS.gene39677.t1 AT1G04380 37.190 121 47 4 17 125 14 117 6.38e-19 80.9
MS.gene39677.t1 AT1G55290 36.538 104 49 3 27 119 25 122 7.49e-15 69.7
MS.gene39677.t1 AT3G13610 34.615 104 50 3 27 119 26 122 1.18e-13 66.2
MS.gene39677.t1 AT3G19010 42.857 70 38 1 47 116 22 89 1.23e-12 63.5
MS.gene39677.t1 AT3G19010 42.857 70 38 1 47 116 22 89 1.23e-12 63.5
MS.gene39677.t1 AT3G19010 42.857 70 38 1 47 116 22 89 1.32e-12 63.2
MS.gene39677.t1 AT3G19010 42.857 70 38 1 47 116 22 89 1.40e-12 63.2
MS.gene39677.t1 AT3G12900 37.383 107 50 5 27 122 21 121 2.21e-11 59.7
MS.gene39677.t1 AT1G14120 42.029 69 34 1 48 116 3 65 2.25e-11 59.7
MS.gene39677.t1 AT1G14120 42.029 69 34 1 48 116 3 65 2.25e-11 59.7
MS.gene39677.t1 AT1G14120 42.029 69 34 1 48 116 3 65 2.25e-11 59.7
MS.gene39677.t1 AT2G38240 28.182 110 63 3 20 118 4 108 2.75e-11 59.7

Find 29 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTTGTTATCAATATCTTTA+AGG 0.109801 8.3:+79830846 None:intergenic
GAAACAAAAGCAGGTGTAAA+AGG 0.298787 8.3:-79830950 MS.gene39677:CDS
TCAAGGAAGCATGTGAAACT+TGG 0.407695 8.3:-79830790 MS.gene39677:CDS
GGTGTAAAAGGATTTGTTGA+TGG 0.428824 8.3:-79830938 MS.gene39677:CDS
ACAATCCCTTGATGAATACT+TGG 0.481285 8.3:+79830821 None:intergenic
ATGAATGTGGAGTCAAGGTT+AGG 0.482514 8.3:+79830992 None:intergenic
CAAGGAAGCATGTGAAACTT+GGG 0.488613 8.3:-79830789 MS.gene39677:CDS
GGAATAACATGGCTTGTGTC+TGG 0.501989 8.3:+79830878 None:intergenic
ATCTCCTCAAGAACACTCAA+AGG 0.510634 8.3:+79830737 None:intergenic
GAGTGTTCTTGAGGAGATGA+AGG 0.513387 8.3:-79830732 MS.gene39677:CDS
AAAGATCCAAGTATTCATCA+AGG 0.518202 8.3:-79830827 MS.gene39677:CDS
TCTCCTCAAGAACACTCAAA+GGG 0.535297 8.3:+79830738 None:intergenic
GGCTTGTGTCTGGTTGATGA+TGG 0.537784 8.3:+79830888 None:intergenic
CCATCCTTCATCTCAAACAA+AGG 0.545049 8.3:+79830649 None:intergenic
GTAAAAGGATTTGTTGATGG+AGG 0.549204 8.3:-79830935 MS.gene39677:CDS
AGGGATTGTTGACAAAATCA+AGG 0.552396 8.3:-79830807 MS.gene39677:CDS
AATCCCTTTGAGTGTTCTTG+AGG 0.553310 8.3:-79830741 MS.gene39677:CDS
TGCTTTGCGTTCAATGAATG+TGG 0.574285 8.3:+79830979 None:intergenic
TGTGAAGAAGTTTCATGAGA+TGG 0.585093 8.3:-79830705 MS.gene39677:CDS
GCATTTGATGAAACAAAAGC+AGG 0.595830 8.3:-79830959 MS.gene39677:CDS
TGTGGAGTCAAGGTTAGGCT+TGG 0.595998 8.3:+79830997 None:intergenic
AAGGAAGCATGTGAAACTTG+GGG 0.598891 8.3:-79830788 MS.gene39677:CDS
ATATCTTTAAGGTCTATGAC+AGG 0.600704 8.3:+79830857 None:intergenic
GGTTGATGATGGAATAAGCT+TGG 0.607370 8.3:+79830899 None:intergenic
AAGATCCAAGTATTCATCAA+GGG 0.612697 8.3:-79830826 MS.gene39677:CDS
GTTCAATGAATGTGGAGTCA+AGG 0.624039 8.3:+79830987 None:intergenic
GTTCTTGAGGAGATGAAGGA+TGG 0.628456 8.3:-79830728 MS.gene39677:CDS
GGTCTATGACAGGAATAACA+TGG 0.670694 8.3:+79830867 None:intergenic
AGGAAGCATGTGAAACTTGG+GGG 0.692972 8.3:-79830787 MS.gene39677:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTTTGTTATCAATATCTTTA+AGG + chr8.3:79830834-79830853 None:intergenic 20.0%
!!! TTTTTTCAAGTTGTTAATCA+TGG - chr8.3:79830913-79830932 MS.gene39677:CDS 20.0%
AAAGATCCAAGTATTCATCA+AGG - chr8.3:79830850-79830869 MS.gene39677:CDS 30.0%
AAGATCCAAGTATTCATCAA+GGG - chr8.3:79830851-79830870 MS.gene39677:CDS 30.0%
!! ATATCTTTAAGGTCTATGAC+AGG + chr8.3:79830823-79830842 None:intergenic 30.0%
ACAATCCCTTGATGAATACT+TGG + chr8.3:79830859-79830878 None:intergenic 35.0%
AGGGATTGTTGACAAAATCA+AGG - chr8.3:79830870-79830889 MS.gene39677:CDS 35.0%
GAAACAAAAGCAGGTGTAAA+AGG - chr8.3:79830727-79830746 MS.gene39677:CDS 35.0%
GCATTTGATGAAACAAAAGC+AGG - chr8.3:79830718-79830737 MS.gene39677:CDS 35.0%
TGTGAAGAAGTTTCATGAGA+TGG - chr8.3:79830972-79830991 MS.gene39677:CDS 35.0%
!! GGTGTAAAAGGATTTGTTGA+TGG - chr8.3:79830739-79830758 MS.gene39677:CDS 35.0%
!! GTAAAAGGATTTGTTGATGG+AGG - chr8.3:79830742-79830761 MS.gene39677:CDS 35.0%
AATCCCTTTGAGTGTTCTTG+AGG - chr8.3:79830936-79830955 MS.gene39677:CDS 40.0%
ATCTCCTCAAGAACACTCAA+AGG + chr8.3:79830943-79830962 None:intergenic 40.0%
ATGAATGTGGAGTCAAGGTT+AGG + chr8.3:79830688-79830707 None:intergenic 40.0%
GGTCTATGACAGGAATAACA+TGG + chr8.3:79830813-79830832 None:intergenic 40.0%
GTTCAATGAATGTGGAGTCA+AGG + chr8.3:79830693-79830712 None:intergenic 40.0%
TCTCCTCAAGAACACTCAAA+GGG + chr8.3:79830942-79830961 None:intergenic 40.0%
TGCTTTGCGTTCAATGAATG+TGG + chr8.3:79830701-79830720 None:intergenic 40.0%
! AAGGAAGCATGTGAAACTTG+GGG - chr8.3:79830889-79830908 MS.gene39677:CDS 40.0%
! CAAGGAAGCATGTGAAACTT+GGG - chr8.3:79830888-79830907 MS.gene39677:CDS 40.0%
! TCAAGGAAGCATGTGAAACT+TGG - chr8.3:79830887-79830906 MS.gene39677:CDS 40.0%
!! GGTTGATGATGGAATAAGCT+TGG + chr8.3:79830781-79830800 None:intergenic 40.0%
GAGTGTTCTTGAGGAGATGA+AGG - chr8.3:79830945-79830964 MS.gene39677:CDS 45.0%
GTTCTTGAGGAGATGAAGGA+TGG - chr8.3:79830949-79830968 MS.gene39677:CDS 45.0%
! AGGAAGCATGTGAAACTTGG+GGG - chr8.3:79830890-79830909 MS.gene39677:CDS 45.0%
! GGAATAACATGGCTTGTGTC+TGG + chr8.3:79830802-79830821 None:intergenic 45.0%
TGTGGAGTCAAGGTTAGGCT+TGG + chr8.3:79830683-79830702 None:intergenic 50.0%
!! GGCTTGTGTCTGGTTGATGA+TGG + chr8.3:79830792-79830811 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 79830661 79831038 79830661 ID=MS.gene39677
chr8.3 mRNA 79830661 79831038 79830661 ID=MS.gene39677.t1;Parent=MS.gene39677
chr8.3 exon 79830661 79831038 79830661 ID=MS.gene39677.t1.exon1;Parent=MS.gene39677.t1
chr8.3 CDS 79830661 79831038 79830661 ID=cds.MS.gene39677.t1;Parent=MS.gene39677.t1
Gene Sequence

>MS.gene39677

ATGGGAACTATTGATACAACCAAGCCTAACCTTGACTCCACATTCATTGAACGCAAAGCATTTGATGAAACAAAAGCAGGTGTAAAAGGATTTGTTGATGGAGGACTTAAGAAGATACCAAGCTTATTCCATCATCAACCAGACACAAGCCATGTTATTCCTGTCATAGACCTTAAAGATATTGATAACAAAGATCCAAGTATTCATCAAGGGATTGTTGACAAAATCAAGGAAGCATGTGAAACTTGGGGGTTTTTTCAAGTTGTTAATCATGGAATCCCTTTGAGTGTTCTTGAGGAGATGAAGGATGGTGTGAAGAAGTTTCATGAGATGGATACAGAAACAAAAAAAGAATTGTATACTAGATCCTTTGTTTGA

Protein sequence

>MS.gene39677.t1

MGTIDTTKPNLDSTFIERKAFDETKAGVKGFVDGGLKKIPSLFHHQPDTSHVIPVIDLKDIDNKDPSIHQGIVDKIKEACETWGFFQVVNHGIPLSVLEEMKDGVKKFHEMDTETKKELYTRSFV