AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055423

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055423.t1 MTR_8g007300 95.455 220 10 0 1 220 1 220 8.33e-154 425
MS.gene055423.t1 MTR_3g096330 58.824 204 83 1 9 212 560 762 2.82e-77 247
MS.gene055423.t1 MTR_5g036570 44.751 181 95 4 24 201 25 203 9.77e-40 136
MS.gene055423.t1 MTR_1g085500 40.426 188 109 2 25 211 22 207 1.31e-36 128
MS.gene055423.t1 MTR_5g046410 38.073 218 119 5 11 214 4 219 5.93e-36 126
MS.gene055423.t1 MTR_5g046430 38.073 218 119 5 11 214 4 219 5.93e-36 126
MS.gene055423.t1 MTR_4g017030 38.073 218 119 5 11 214 4 219 5.93e-36 126
MS.gene055423.t1 MTR_2g019250 38.532 218 118 5 11 214 4 219 1.26e-35 125
MS.gene055423.t1 MTR_4g017040 39.500 200 108 4 26 214 22 219 1.79e-35 125
MS.gene055423.t1 MTR_4g017050 37.615 218 120 5 11 214 4 219 2.42e-35 125
MS.gene055423.t1 MTR_7g111240 44.099 161 87 2 25 184 19 177 2.21e-34 122
MS.gene055423.t1 MTR_1g060120 35.468 203 124 2 14 211 14 214 2.80e-34 122
MS.gene055423.t1 MTR_1g079490 41.975 162 91 1 26 184 22 183 1.21e-33 120
MS.gene055423.t1 MTR_7g111240 43.478 161 85 2 25 184 19 174 6.04e-33 118
MS.gene055423.t1 MTR_6g005330 36.190 210 125 5 10 216 5 208 6.40e-33 118
MS.gene055423.t1 MTR_6g005360 36.788 193 114 4 26 216 22 208 7.25e-32 115
MS.gene055423.t1 MTR_6g005310 36.788 193 114 4 26 216 22 208 1.09e-31 115
MS.gene055423.t1 MTR_6g005340 36.788 193 114 4 26 216 22 208 5.07e-31 114
MS.gene055423.t1 MTR_1g085140 37.949 195 103 4 25 203 23 215 1.96e-30 112
MS.gene055423.t1 MTR_1g023770 38.235 204 108 4 17 210 13 208 2.20e-30 111
MS.gene055423.t1 MTR_2g030855 43.558 163 84 4 25 184 21 178 8.90e-30 110
MS.gene055423.t1 MTR_1g112200 37.576 165 97 1 20 184 17 175 3.65e-29 108
MS.gene055423.t1 MTR_2g041570 34.463 177 105 3 4 179 3 169 1.62e-28 107
MS.gene055423.t1 MTR_2g041580 34.463 177 105 3 4 179 3 169 2.05e-28 106
MS.gene055423.t1 MTR_6g005380 36.318 201 123 3 10 206 5 204 4.10e-28 105
MS.gene055423.t1 MTR_5g031460 36.691 139 87 1 41 179 31 168 7.90e-28 105
MS.gene055423.t1 MTR_8g020770 44.030 134 72 2 47 178 38 170 9.55e-28 105
MS.gene055423.t1 MTR_2g036120 40.602 133 78 1 47 179 37 168 9.68e-28 105
MS.gene055423.t1 MTR_2g045100 32.000 175 110 2 5 179 3 168 1.02e-27 104
MS.gene055423.t1 MTR_2g041550 34.118 170 103 2 12 180 9 170 2.37e-27 103
MS.gene055423.t1 MTR_2g031270 38.743 191 102 5 30 210 27 212 6.28e-27 102
MS.gene055423.t1 MTR_3g019650 32.547 212 118 5 5 202 3 203 2.77e-26 101
MS.gene055423.t1 MTR_8g020630 29.384 211 127 3 5 202 3 204 8.02e-26 100
MS.gene055423.t1 MTR_8g020590 34.815 135 87 1 47 180 34 168 1.37e-25 99.4
MS.gene055423.t1 MTR_3g019680 35.028 177 101 4 5 179 3 167 2.17e-25 99.0
MS.gene055423.t1 MTR_3g019710 38.346 133 81 1 47 179 37 168 7.99e-25 97.4
MS.gene055423.t1 MTR_6g005350 38.462 182 105 3 26 203 22 200 1.03e-24 97.4
MS.gene055423.t1 MTR_2g019780 30.093 216 119 5 7 202 4 207 1.32e-24 97.1
MS.gene055423.t1 MTR_8g020650 31.361 169 102 2 47 202 37 204 1.48e-24 96.7
MS.gene055423.t1 MTR_8g020763 35.821 134 84 2 47 179 17 149 2.17e-24 95.9
MS.gene055423.t1 MTR_2g030895 42.029 138 76 3 51 184 7 144 3.00e-24 95.1
MS.gene055423.t1 MTR_0284s0010 38.346 133 81 1 47 179 37 168 3.36e-24 95.9
MS.gene055423.t1 MTR_3g073170 33.136 169 96 3 47 202 41 205 3.78e-24 95.5
MS.gene055423.t1 MTR_2g030865 42.029 138 76 3 51 184 7 144 4.17e-24 94.7
MS.gene055423.t1 MTR_4g010340 35.088 171 97 6 11 179 6 164 6.72e-24 94.7
MS.gene055423.t1 MTR_7g011340 35.152 165 96 2 47 201 37 200 1.27e-23 94.4
MS.gene055423.t1 MTR_2g044040 33.333 174 105 3 8 179 4 168 1.44e-23 94.0
MS.gene055423.t1 MTR_8g020610 32.000 175 110 4 8 181 2 168 2.52e-23 93.2
MS.gene055423.t1 MTR_8g020750 40.299 134 78 2 47 179 39 171 9.75e-23 92.0
MS.gene055423.t1 MTR_8g020670 29.762 168 104 2 48 202 38 204 2.23e-21 88.2
MS.gene055423.t1 MTR_8g020760 38.519 135 78 3 47 179 39 170 4.69e-21 87.4
MS.gene055423.t1 MTR_2g031300 39.416 137 60 3 51 184 7 123 3.03e-19 81.3
MS.gene055423.t1 MTR_2g086640 38.739 111 65 3 86 194 72 181 1.93e-18 80.5
MS.gene055423.t1 MTR_2g086620 36.697 109 68 1 87 194 74 182 9.33e-18 78.6
MS.gene055423.t1 MTR_2g086630 35.780 109 69 1 87 194 74 182 2.57e-17 77.4
MS.gene055423.t1 MTR_4g052770 36.364 110 69 1 86 194 74 183 7.61e-17 76.3
MS.gene055423.t1 MTR_4g052780 36.364 110 69 1 86 194 74 183 1.30e-16 75.5
MS.gene055423.t1 MTR_4g027415 37.736 106 65 1 48 153 38 142 1.41e-14 68.6
MS.gene055423.t1 MTR_3g019810 31.579 133 84 2 47 179 143 268 1.04e-12 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055423.t1 AT5G61750 53.514 185 78 2 1 184 1 178 5.98e-65 200
MS.gene055423.t1 AT1G10460 42.500 160 88 3 25 180 18 177 1.44e-36 128
MS.gene055423.t1 AT3G04200 42.515 167 91 3 22 184 23 188 1.83e-35 125
MS.gene055423.t1 AT3G62020 44.086 186 89 5 10 187 6 184 4.65e-35 124
MS.gene055423.t1 AT1G09560 46.012 163 85 2 23 184 21 181 4.73e-35 124
MS.gene055423.t1 AT1G02335 41.071 168 86 3 26 187 24 184 1.51e-34 122
MS.gene055423.t1 AT5G38930 42.771 166 92 2 25 187 25 190 2.70e-33 119
MS.gene055423.t1 AT5G38960 40.244 164 94 2 25 184 25 188 1.46e-32 117
MS.gene055423.t1 AT3G05950 38.830 188 106 4 22 205 22 204 2.17e-32 117
MS.gene055423.t1 AT5G38940 37.895 190 108 3 25 204 25 214 2.22e-32 117
MS.gene055423.t1 AT5G38940 37.895 190 108 3 25 204 49 238 3.11e-32 117
MS.gene055423.t1 AT3G05930 34.703 219 126 4 1 212 1 209 1.67e-31 115
MS.gene055423.t1 AT3G04170 39.572 187 103 4 22 205 22 201 2.44e-31 114
MS.gene055423.t1 AT5G38910 34.667 225 127 6 1 217 1 213 5.12e-31 114
MS.gene055423.t1 AT5G26700 37.895 190 106 4 1 187 1 181 1.06e-30 112
MS.gene055423.t1 AT3G10080 35.789 190 117 2 25 211 25 212 1.45e-30 112
MS.gene055423.t1 AT4G14630 40.000 175 101 2 17 187 17 191 2.51e-30 112
MS.gene055423.t1 AT5G39110 35.714 196 115 4 17 205 12 203 2.65e-30 112
MS.gene055423.t1 AT3G62020 45.033 151 71 3 44 187 10 155 4.06e-30 110
MS.gene055423.t1 AT3G10080 35.789 190 117 2 25 211 96 283 4.65e-30 113
MS.gene055423.t1 AT5G39120 34.975 203 122 4 7 205 6 202 5.81e-30 111
MS.gene055423.t1 AT5G39150 36.957 184 108 3 26 205 23 202 7.91e-30 110
MS.gene055423.t1 AT1G72610 40.299 134 79 1 48 180 35 168 3.60e-29 108
MS.gene055423.t1 AT5G39180 39.264 163 95 2 26 184 23 185 3.86e-29 108
MS.gene055423.t1 AT3G04190 40.881 159 89 3 30 184 30 187 5.33e-29 108
MS.gene055423.t1 AT3G04180 37.838 185 104 5 26 205 26 204 2.41e-28 107
MS.gene055423.t1 AT5G20630 33.152 184 112 5 4 186 3 176 2.45e-28 106
MS.gene055423.t1 AT5G39160 35.052 194 121 3 22 211 20 212 5.08e-28 106
MS.gene055423.t1 AT5G39130 35.567 194 120 3 22 211 20 212 7.85e-28 105
MS.gene055423.t1 AT5G39190 35.052 194 121 3 22 211 20 212 8.54e-28 105
MS.gene055423.t1 AT3G04150 36.702 188 114 3 1 184 1 187 1.58e-27 105
MS.gene055423.t1 AT1G18970 37.222 180 106 5 10 188 14 187 1.75e-27 104
MS.gene055423.t1 AT1G18980 38.788 165 95 4 25 188 28 187 6.96e-27 103
MS.gene055423.t1 AT3G04150 40.411 146 83 2 43 184 55 200 3.12e-26 102
MS.gene055423.t1 AT5G39160 34.536 194 118 3 22 211 20 208 2.46e-25 99.0
MS.gene055423.t1 AT5G39160 32.278 158 104 1 57 211 33 190 2.92e-19 82.4
MS.gene055423.t1 AT5G39190 34.783 138 87 1 77 211 53 190 4.43e-19 82.0
MS.gene055423.t1 AT1G74820 30.047 213 135 5 8 210 16 224 6.61e-17 76.6
MS.gene055423.t1 AT5G38910 28.700 223 106 6 1 217 1 176 3.72e-15 71.2

Find 33 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGAATATGGTTTGTTTATT+TGG 0.147969 8.1:-86338955 None:intergenic
TGCTAATGAAACTTGGATTT+TGG 0.152319 8.1:-86338893 None:intergenic
CACCAACTTTGAGAACATTT+TGG 0.167372 8.1:-86339260 None:intergenic
CTTTCTGCTTCTCAAGTTCA+TGG 0.253166 8.1:+86339456 MS.gene055423:CDS
GTCACTGCTGCTGAATTTCC+AGG 0.267510 8.1:+86339087 MS.gene055423:CDS
ATGTAATGGAATAAACCTTT+AGG 0.303470 8.1:-86339297 None:intergenic
TCTTGAGCTGTTACATTAGC+TGG 0.333856 8.1:-86339000 None:intergenic
GGGTAGACCATTGATGAATA+TGG 0.338217 8.1:-86338968 None:intergenic
CAGTAGCTCTTGGATGATAA+TGG 0.340284 8.1:-86339173 None:intergenic
TTCCAAAATGTTCTCAAAGT+TGG 0.370645 8.1:+86339258 MS.gene055423:CDS
TGTTTATTTGGTGGAATTGA+TGG 0.371662 8.1:-86338943 None:intergenic
TGTAATGGAATAAACCTTTA+GGG 0.377741 8.1:-86339296 None:intergenic
CACAATCTGCTAATGAAACT+TGG 0.384262 8.1:-86338900 None:intergenic
TTCCATTACATTCTAAATCA+AGG 0.393287 8.1:+86339309 MS.gene055423:CDS
AACCTTGATTTAGAATGTAA+TGG 0.410800 8.1:-86339311 None:intergenic
AAGATCATTTCAGTAGCTCT+TGG 0.441209 8.1:-86339183 None:intergenic
TTTCCAGGGCTGAACACTCT+TGG 0.460820 8.1:+86339102 MS.gene055423:CDS
AATGTTGTGTCAGAAGTTGT+AGG 0.463329 8.1:-86339396 None:intergenic
AGCAGCAGTGACAAGTTTCA+CGG 0.470392 8.1:-86339076 None:intergenic
AACACTCTTGGTCTCTCGAT+TGG 0.484763 8.1:+86339114 MS.gene055423:CDS
AATATGGTTTGTTTATTTGG+TGG 0.491327 8.1:-86338952 None:intergenic
GGAATAATAGATACTTGTCC+AGG 0.507182 8.1:-86339375 None:intergenic
TACAACTTCTGACACAACAT+TGG 0.513431 8.1:+86339398 MS.gene055423:CDS
AAACAAACCATATTCATCAA+TGG 0.515657 8.1:+86338961 MS.gene055423:CDS
AGAATCAATATCGATAATGA+TGG 0.528033 8.1:+86339138 MS.gene055423:CDS
CAATAATATGAATGGCTAAG+AGG 0.529024 8.1:-86339496 None:intergenic
GTGTACAATAGTCAAAATCC+TGG 0.531942 8.1:+86339357 MS.gene055423:CDS
AGACCAAGAGTGTTCAGCCC+TGG 0.540141 8.1:-86339105 None:intergenic
TCACTGCTGCTGAATTTCCA+GGG 0.546815 8.1:+86339088 MS.gene055423:CDS
AAAGAAAATATTGTAAACAA+AGG 0.628168 8.1:-86338848 None:intergenic
ACTAGCGTTATTTAATTCCG+CGG 0.642834 8.1:-86339031 None:intergenic
AGCTCAAGATTTCAAGACCG+CGG 0.654864 8.1:+86339014 MS.gene055423:CDS
ATTGTACACTGAGTAGACAA+TGG 0.673180 8.1:-86339343 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAGAAAATATTGTAAACAA+AGG - chr8.1:86338851-86338870 None:intergenic 15.0%
!! GAAATGATCTTTGTTAAAAA+AGG + chr8.1:86339195-86339214 MS.gene055423:CDS 20.0%
!!! ATGAATATGGTTTGTTTATT+TGG - chr8.1:86338958-86338977 None:intergenic 20.0%
! AAACAAACCATATTCATCAA+TGG + chr8.1:86338961-86338980 MS.gene055423:CDS 25.0%
! AGAATCAATATCGATAATGA+TGG + chr8.1:86339138-86339157 MS.gene055423:CDS 25.0%
! TTCCATTACATTCTAAATCA+AGG + chr8.1:86339309-86339328 MS.gene055423:CDS 25.0%
!! AACCTTGATTTAGAATGTAA+TGG - chr8.1:86339314-86339333 None:intergenic 25.0%
!! ATGTAATGGAATAAACCTTT+AGG - chr8.1:86339300-86339319 None:intergenic 25.0%
!! TGTAATGGAATAAACCTTTA+GGG - chr8.1:86339299-86339318 None:intergenic 25.0%
!!! AATATGGTTTGTTTATTTGG+TGG - chr8.1:86338955-86338974 None:intergenic 25.0%
TTCCAAAATGTTCTCAAAGT+TGG + chr8.1:86339258-86339277 MS.gene055423:CDS 30.0%
! TGCTAATGAAACTTGGATTT+TGG - chr8.1:86338896-86338915 None:intergenic 30.0%
! TGTTTATTTGGTGGAATTGA+TGG - chr8.1:86338946-86338965 None:intergenic 30.0%
AAGATCATTTCAGTAGCTCT+TGG - chr8.1:86339186-86339205 None:intergenic 35.0%
AATGTTGTGTCAGAAGTTGT+AGG - chr8.1:86339399-86339418 None:intergenic 35.0%
ACTAGCGTTATTTAATTCCG+CGG - chr8.1:86339034-86339053 None:intergenic 35.0%
ATTGTACACTGAGTAGACAA+TGG - chr8.1:86339346-86339365 None:intergenic 35.0%
CACAATCTGCTAATGAAACT+TGG - chr8.1:86338903-86338922 None:intergenic 35.0%
GGAATAATAGATACTTGTCC+AGG - chr8.1:86339378-86339397 None:intergenic 35.0%
GTGTACAATAGTCAAAATCC+TGG + chr8.1:86339357-86339376 MS.gene055423:CDS 35.0%
TACAACTTCTGACACAACAT+TGG + chr8.1:86339398-86339417 MS.gene055423:CDS 35.0%
! ACATTAGCTGGATTTTTGCA+GGG - chr8.1:86338991-86339010 None:intergenic 35.0%
! GATGTTTGTGTTTTCCCTAA+AGG + chr8.1:86339282-86339301 MS.gene055423:CDS 35.0%
! TACATTAGCTGGATTTTTGC+AGG - chr8.1:86338992-86339011 None:intergenic 35.0%
!! CACCAACTTTGAGAACATTT+TGG - chr8.1:86339263-86339282 None:intergenic 35.0%
CAGTAGCTCTTGGATGATAA+TGG - chr8.1:86339176-86339195 None:intergenic 40.0%
CTTTCTGCTTCTCAAGTTCA+TGG + chr8.1:86339456-86339475 MS.gene055423:CDS 40.0%
GGGTAGACCATTGATGAATA+TGG - chr8.1:86338971-86338990 None:intergenic 40.0%
TCTTGAGCTGTTACATTAGC+TGG - chr8.1:86339003-86339022 None:intergenic 40.0%
!!! GCTAGTTCTACCGACATTTT+TGG + chr8.1:86339048-86339067 MS.gene055423:CDS 40.0%
AACACTCTTGGTCTCTCGAT+TGG + chr8.1:86339114-86339133 MS.gene055423:CDS 45.0%
AGCAGCAGTGACAAGTTTCA+CGG - chr8.1:86339079-86339098 None:intergenic 45.0%
AGCTCAAGATTTCAAGACCG+CGG + chr8.1:86339014-86339033 MS.gene055423:CDS 45.0%
TCACTGCTGCTGAATTTCCA+GGG + chr8.1:86339088-86339107 MS.gene055423:CDS 45.0%
CACGGATGCGCCAAAAATGT+CGG - chr8.1:86339061-86339080 None:intergenic 50.0%
GTCACTGCTGCTGAATTTCC+AGG + chr8.1:86339087-86339106 MS.gene055423:CDS 50.0%
TTTCCAGGGCTGAACACTCT+TGG + chr8.1:86339102-86339121 MS.gene055423:CDS 50.0%
!! AGACCAAGAGTGTTCAGCCC+TGG - chr8.1:86339108-86339127 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 86338841 86339503 86338841 ID=MS.gene055423
chr8.1 mRNA 86338841 86339503 86338841 ID=MS.gene055423.t1;Parent=MS.gene055423
chr8.1 exon 86338841 86339503 86338841 ID=MS.gene055423.t1.exon1;Parent=MS.gene055423.t1
chr8.1 CDS 86338841 86339503 86338841 ID=cds.MS.gene055423.t1;Parent=MS.gene055423.t1
Gene Sequence

>MS.gene055423

ATGAAATCCTTTGTTTACAATATTTTCTTTGTGTTCTTTTTTAATCTCTTAACCAAAATCCAAGTTTCATTAGCAGATTGTGACAACTTACAAGACACATGTCCATCAATTCCACCAAATAAACAAACCATATTCATCAATGGTCTACCCTGCAAAAATCCAGCTAATGTAACAGCTCAAGATTTCAAGACCGCGGAATTAAATAACGCTAGTTCTACCGACATTTTTGGCGCATCCGTGAAACTTGTCACTGCTGCTGAATTTCCAGGGCTGAACACTCTTGGTCTCTCGATTGGAAGAATCAATATCGATAATGATGGCTTAGTAAACTTCCATTATCATCCAAGAGCTACTGAAATGATCTTTGTTAAAAAAGGTGTATTACTAGTTGAATTTATTGATACACAAAATCAAATTTTCCAAAATGTTCTCAAAGTTGGTGATGTTTGTGTTTTCCCTAAAGGTTTATTCCATTACATTCTAAATCAAGGTTTTGAAGAAGCCATTGTCTACTCAGTGTACAATAGTCAAAATCCTGGACAAGTATCTATTATTCCTACAACTTCTGACACAACATTGGAATCTGTAGAGAAGCTGAAAAAGAAAATTATCTCACTTTCTGCTTCTCAAGTTCATGGTGATATTATCATTTCAACCTCTTAG
Protein sequence

>MS.gene055423.t1

MKSFVYNIFFVFFFNLLTKIQVSLADCDNLQDTCPSIPPNKQTIFINGLPCKNPANVTAQDFKTAELNNASSTDIFGASVKLVTAAEFPGLNTLGLSIGRINIDNDGLVNFHYHPRATEMIFVKKGVLLVEFIDTQNQIFQNVLKVGDVCVFPKGLFHYILNQGFEEAIVYSVYNSQNPGQVSIIPTTSDTTLESVEKLKKKIISLSASQVHGDIIISTS