AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene023999

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene023999.t1 MTR_8g102520 66.359 217 70 2 1 215 106 321 9.52e-96 283
MS.gene023999.t1 MTR_7g079400 58.371 221 85 3 1 215 117 336 2.08e-82 249
MS.gene023999.t1 MTR_8g098830 63.333 180 63 2 13 190 22 200 6.46e-77 231
MS.gene023999.t1 MTR_7g079450 74.453 137 33 1 79 215 2 136 1.60e-71 214
MS.gene023999.t1 MTR_7g079370 56.164 219 93 3 2 217 139 357 1.72e-71 222
MS.gene023999.t1 MTR_6g060650 48.611 216 102 6 2 215 164 372 3.94e-58 188
MS.gene023999.t1 MTR_2g048580 53.769 199 76 6 22 215 154 341 4.67e-57 184
MS.gene023999.t1 MTR_4g117720 46.396 222 106 6 2 216 162 377 3.21e-54 178
MS.gene023999.t1 MTR_7g079420 54.945 182 70 5 42 215 966 1143 3.18e-51 178
MS.gene023999.t1 MTR_4g118380 46.970 198 88 6 2 188 166 357 2.01e-48 162
MS.gene023999.t1 MTR_4g094365 45.161 217 103 8 2 212 155 361 6.30e-46 156
MS.gene023999.t1 MTR_1g055175 41.361 191 110 2 22 210 5 195 7.42e-46 151
MS.gene023999.t1 MTR_4g116320 42.654 211 114 4 3 210 46 252 1.01e-44 150
MS.gene023999.t1 MTR_4g109280 44.041 193 101 5 26 215 170 358 1.16e-44 153
MS.gene023999.t1 MTR_4g116330 47.895 190 90 5 26 210 189 374 1.62e-44 153
MS.gene023999.t1 MTR_8g433030 43.721 215 108 7 4 213 133 339 4.76e-44 150
MS.gene023999.t1 MTR_5g070080 43.721 215 110 6 2 212 174 381 4.87e-44 152
MS.gene023999.t1 MTR_8g032390 43.721 215 108 7 4 213 166 372 9.24e-44 151
MS.gene023999.t1 MTR_3g103020 43.458 214 109 6 3 210 165 372 1.05e-43 151
MS.gene023999.t1 MTR_4g122850 41.228 228 118 8 2 217 150 373 2.00e-43 150
MS.gene023999.t1 MTR_4g118400 45.128 195 82 8 21 210 120 294 3.44e-43 147
MS.gene023999.t1 MTR_4g117850 41.935 217 116 5 3 212 163 376 4.39e-43 149
MS.gene023999.t1 MTR_3g034180 40.870 230 109 8 2 215 270 488 2.13e-42 149
MS.gene023999.t1 MTR_3g034130 41.500 200 100 6 2 189 156 350 4.38e-42 146
MS.gene023999.t1 MTR_5g070088 42.130 216 116 5 2 212 170 381 7.40e-42 146
MS.gene023999.t1 MTR_8g040935 42.708 192 100 6 26 210 14 202 7.89e-42 141
MS.gene023999.t1 MTR_4g023130 42.453 212 102 6 2 209 111 306 8.28e-42 144
MS.gene023999.t1 MTR_4g109270 41.509 212 109 5 3 210 158 358 2.86e-41 144
MS.gene023999.t1 MTR_4g023080 42.453 212 102 6 2 209 152 347 3.40e-41 144
MS.gene023999.t1 MTR_5g070130 41.364 220 117 7 2 212 156 372 4.03e-41 144
MS.gene023999.t1 MTR_1g055195 40.000 220 107 6 2 211 269 473 8.03e-41 145
MS.gene023999.t1 MTR_8g433040 40.909 220 105 7 2 215 163 363 7.44e-40 140
MS.gene023999.t1 MTR_8g032380 40.909 220 105 7 2 215 163 363 7.44e-40 140
MS.gene023999.t1 MTR_4g117750 40.724 221 123 3 2 215 139 358 7.46e-40 143
MS.gene023999.t1 MTR_4g117750 41.727 139 64 5 90 214 346 481 5.65e-20 88.2
MS.gene023999.t1 MTR_5g097210 38.389 211 127 3 2 211 150 358 6.58e-39 138
MS.gene023999.t1 MTR_4g118370 39.720 214 107 4 2 213 64 257 1.14e-38 134
MS.gene023999.t1 MTR_6g463430 43.005 193 100 6 26 215 16 201 3.52e-38 132
MS.gene023999.t1 MTR_4g021785 40.094 212 108 7 2 209 152 348 2.77e-37 133
MS.gene023999.t1 MTR_1g055165 43.590 156 86 2 57 210 157 312 5.19e-37 132
MS.gene023999.t1 MTR_1g055135 37.443 219 132 2 2 215 156 374 6.50e-37 133
MS.gene023999.t1 MTR_3g034160 39.908 218 114 6 4 210 158 369 4.38e-36 130
MS.gene023999.t1 MTR_4g117530 35.814 215 92 6 3 215 82 252 3.59e-35 125
MS.gene023999.t1 MTR_4g023090 37.131 237 111 8 4 218 166 386 4.66e-35 128
MS.gene023999.t1 MTR_4g023070 39.381 226 111 8 2 209 146 363 7.21e-35 127
MS.gene023999.t1 MTR_4g023120 39.381 226 111 8 2 209 146 363 8.44e-35 127
MS.gene023999.t1 MTR_4g117770 41.860 215 108 7 3 210 157 361 1.99e-34 126
MS.gene023999.t1 MTR_4g117810 41.860 215 108 7 3 210 157 361 1.99e-34 126
MS.gene023999.t1 MTR_1g055250 37.736 212 124 6 2 209 56 263 1.70e-33 123
MS.gene023999.t1 MTR_4g117780 40.465 215 111 7 3 210 157 361 6.05e-33 122
MS.gene023999.t1 MTR_4g023190 40.090 222 98 10 2 210 154 353 1.68e-31 118
MS.gene023999.t1 MTR_4g023380 36.530 219 105 6 26 218 169 379 2.02e-31 118
MS.gene023999.t1 MTR_4g118360 49.167 120 58 2 94 210 1 120 7.37e-30 108
MS.gene023999.t1 MTR_4g117870 37.441 211 89 7 2 210 92 261 8.04e-29 109
MS.gene023999.t1 MTR_4g023150 37.615 218 110 10 2 210 154 354 2.36e-27 107
MS.gene023999.t1 MTR_4g023200 37.220 223 104 10 2 210 154 354 6.40e-27 106
MS.gene023999.t1 MTR_4g116330 39.474 190 67 6 26 210 189 335 2.19e-26 104
MS.gene023999.t1 MTR_5g023000 53.409 88 36 3 126 210 8 93 9.36e-23 89.0
MS.gene023999.t1 MTR_4g023440 34.906 212 89 9 1 210 162 326 2.34e-22 93.6
MS.gene023999.t1 MTR_4g122860 34.634 205 88 9 34 222 160 334 4.60e-22 92.8
MS.gene023999.t1 MTR_7g117720 44.800 125 57 5 93 211 154 272 4.61e-19 83.6
MS.gene023999.t1 MTR_4g121580 34.956 226 104 12 2 219 164 354 7.32e-19 84.3
MS.gene023999.t1 MTR_4g117430 38.793 116 58 3 2 117 49 151 7.73e-18 77.8
MS.gene023999.t1 MTR_8g013010 41.880 117 58 4 2 118 203 309 1.19e-16 77.8
MS.gene023999.t1 MTR_4g114700 41.732 127 57 5 110 223 114 236 2.16e-14 70.5
MS.gene023999.t1 MTR_3g083010 28.986 207 122 9 26 214 200 399 2.60e-12 65.9
MS.gene023999.t1 MTR_6g034720 44.444 90 46 2 1 90 79 164 7.49e-12 62.8
MS.gene023999.t1 MTR_1g115160 28.000 125 81 3 21 144 179 295 1.17e-11 63.5
MS.gene023999.t1 MTR_2g024110 25.862 174 107 6 2 161 147 312 1.64e-11 63.2
MS.gene023999.t1 MTR_1g068835 26.786 168 94 6 3 160 149 297 3.89e-11 62.4
MS.gene023999.t1 MTR_1g068875 28.409 176 101 6 5 166 150 314 3.99e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 43 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATTATTGCCTTTGATTTAA+AGG 0.116438 7.1:+24629936 MS.gene023999:CDS
CGACGATTACATGGTAGTTT+TGG 0.193561 7.1:+24629705 MS.gene023999:CDS
CCGCTTCTGATTTGCCTTAT+AGG 0.203276 7.1:+24629818 MS.gene023999:CDS
GGCAATAATAACATTGCTTT+TGG 0.240132 7.1:-24629923 None:intergenic
GTTTATGATTTGATGGTATT+TGG 0.262482 7.1:+24630012 MS.gene023999:CDS
TCTCCTGTAATTGTATTTGA+TGG 0.267546 7.1:-24629731 None:intergenic
CACAACTTGTAAAGCATATT+GGG 0.268178 7.1:-24630161 None:intergenic
CCACAACTTGTAAAGCATAT+TGG 0.287389 7.1:-24630162 None:intergenic
GAGTTTGCAGTCTTCCTATA+AGG 0.303546 7.1:-24629832 None:intergenic
AGAGGTCTAAAATTAAGATA+TGG 0.331427 7.1:+24630061 MS.gene023999:CDS
ACTCTATATACACCGTTGTT+TGG 0.341638 7.1:-24630287 None:intergenic
CTCTATATACACCGTTGTTT+GGG 0.346270 7.1:-24630286 None:intergenic
GATCCATCAAATACAATTAC+AGG 0.354038 7.1:+24629728 MS.gene023999:CDS
AATTTATGTTTATGATTTGA+TGG 0.367203 7.1:+24630005 MS.gene023999:CDS
TCTTGAATGATTCTATTCAT+TGG 0.377956 7.1:+24629881 MS.gene023999:CDS
TTCTTCTTGTCAGCACCATC+AGG 0.385720 7.1:-24630324 None:intergenic
GAATGATTCTATTCATTGGC+TGG 0.387700 7.1:+24629885 MS.gene023999:CDS
AAGACTGCAAACTCTGAATA+TGG 0.417528 7.1:+24629841 MS.gene023999:CDS
AATACAAAGTTCATTCATCT+TGG 0.418592 7.1:+24630094 MS.gene023999:CDS
ACAAGTTGTGGTGATATAGT+TGG 0.420850 7.1:+24630174 MS.gene023999:CDS
CTGAATATGGTCCCACTGTC+GGG 0.423661 7.1:+24629854 MS.gene023999:CDS
CATGTCAAGCGACGATTACA+TGG 0.431493 7.1:+24629696 None:intergenic
GCTAATCCAGCAGCAGCATC+TGG 0.441798 7.1:-24630198 None:intergenic
CCAATATGCTTTACAAGTTG+TGG 0.444016 7.1:+24630162 MS.gene023999:CDS
TTGGCGGACTTATCAGTGTA+TGG 0.447839 7.1:+24630031 MS.gene023999:CDS
ATTCCATGAGAAAAGTCATC+TGG 0.461053 7.1:-24629985 None:intergenic
GTTGGACCAGATGCTGCTGC+TGG 0.487012 7.1:+24630192 MS.gene023999:CDS
GAGGTCTAAAATTAAGATAT+GGG 0.501109 7.1:+24630062 MS.gene023999:CDS
CTGCTAGAGTATCACTCCTA+TGG 0.518974 7.1:+24630243 MS.gene023999:CDS
TCTCATTGAGTGCTAACAAG+TGG 0.547479 7.1:+24629782 MS.gene023999:CDS
TATGATTTGATGGTATTTGG+CGG 0.556414 7.1:+24630015 MS.gene023999:CDS
TTTATAGTAAGAGGCGCCAT+AGG 0.557815 7.1:-24630259 None:intergenic
TCTGAATATGGTCCCACTGT+CGG 0.575242 7.1:+24629853 MS.gene023999:CDS
TCTCTACTTTCACTCCCTGA+TGG 0.582178 7.1:+24630309 MS.gene023999:CDS
TCTTCTTGTCAGCACCATCA+GGG 0.606153 7.1:-24630323 None:intergenic
TTCAAGAATGACCCGACAGT+GGG 0.615485 7.1:-24629865 None:intergenic
CCTATAAGGCAAATCAGAAG+CGG 0.635191 7.1:-24629818 None:intergenic
ACAACTTGTAAAGCATATTG+GGG 0.651604 7.1:-24630160 None:intergenic
TTAGCGAAGCTTAATGACAA+AGG 0.665656 7.1:+24630216 MS.gene023999:CDS
ATTCAAGAATGACCCGACAG+TGG 0.672977 7.1:-24629866 None:intergenic
TCAGTGTATGGAATATCGAG+AGG 0.679809 7.1:+24630043 MS.gene023999:CDS
TAACAAGTGGAAACAAGTTG+AGG 0.680275 7.1:+24629795 MS.gene023999:CDS
CTATAAAAGATCCCAAACAA+CGG 0.697525 7.1:+24630275 MS.gene023999:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTTATGTTTATGATTTGA+TGG + chr7.1:24630005-24630024 MS.gene023999:CDS 15.0%
!!! TATTATTGCCTTTGATTTAA+AGG + chr7.1:24629936-24629955 MS.gene023999:CDS 20.0%
! AATACAAAGTTCATTCATCT+TGG + chr7.1:24630094-24630113 MS.gene023999:CDS 25.0%
! TCTTGAATGATTCTATTCAT+TGG + chr7.1:24629881-24629900 MS.gene023999:CDS 25.0%
!! AGAGGTCTAAAATTAAGATA+TGG + chr7.1:24630061-24630080 MS.gene023999:CDS 25.0%
!! GAGGTCTAAAATTAAGATAT+GGG + chr7.1:24630062-24630081 MS.gene023999:CDS 25.0%
!! GTTTATGATTTGATGGTATT+TGG + chr7.1:24630012-24630031 MS.gene023999:CDS 25.0%
!! TGTCTTTTCCTTTAAATCAA+AGG - chr7.1:24629947-24629966 None:intergenic 25.0%
AAAAAATAGCTCGATTGACT+TGG + chr7.1:24629753-24629772 MS.gene023999:CDS 30.0%
ACAACTTGTAAAGCATATTG+GGG - chr7.1:24630163-24630182 None:intergenic 30.0%
CACAACTTGTAAAGCATATT+GGG - chr7.1:24630164-24630183 None:intergenic 30.0%
CTATAAAAGATCCCAAACAA+CGG + chr7.1:24630275-24630294 MS.gene023999:CDS 30.0%
GATCCATCAAATACAATTAC+AGG + chr7.1:24629728-24629747 MS.gene023999:CDS 30.0%
TCTCCTGTAATTGTATTTGA+TGG - chr7.1:24629734-24629753 None:intergenic 30.0%
! CTTGAATTTTCTTTTTCTCC+CGG + chr7.1:24630126-24630145 MS.gene023999:CDS 30.0%
! GGCAATAATAACATTGCTTT+TGG - chr7.1:24629926-24629945 None:intergenic 30.0%
! TATGATTTGATGGTATTTGG+CGG + chr7.1:24630015-24630034 MS.gene023999:CDS 30.0%
! TTGGGATCTTTTATAGTAAG+AGG - chr7.1:24630271-24630290 None:intergenic 30.0%
AAGACTGCAAACTCTGAATA+TGG + chr7.1:24629841-24629860 MS.gene023999:CDS 35.0%
ACAAGTTGTGGTGATATAGT+TGG + chr7.1:24630174-24630193 MS.gene023999:CDS 35.0%
ACTCTATATACACCGTTGTT+TGG - chr7.1:24630290-24630309 None:intergenic 35.0%
ATTCCATGAGAAAAGTCATC+TGG - chr7.1:24629988-24630007 None:intergenic 35.0%
CCAATATGCTTTACAAGTTG+TGG + chr7.1:24630162-24630181 MS.gene023999:CDS 35.0%
CCACAACTTGTAAAGCATAT+TGG - chr7.1:24630165-24630184 None:intergenic 35.0%
CTCTATATACACCGTTGTTT+GGG - chr7.1:24630289-24630308 None:intergenic 35.0%
GAATGATTCTATTCATTGGC+TGG + chr7.1:24629885-24629904 MS.gene023999:CDS 35.0%
TAACAAGTGGAAACAAGTTG+AGG + chr7.1:24629795-24629814 MS.gene023999:CDS 35.0%
TTAGCGAAGCTTAATGACAA+AGG + chr7.1:24630216-24630235 MS.gene023999:CDS 35.0%
! GACGATTACATGGTAGTTTT+GGG + chr7.1:24629706-24629725 MS.gene023999:CDS 35.0%
CCTATAAGGCAAATCAGAAG+CGG - chr7.1:24629821-24629840 None:intergenic 40.0%
GAGTTTGCAGTCTTCCTATA+AGG - chr7.1:24629835-24629854 None:intergenic 40.0%
TCAGTGTATGGAATATCGAG+AGG + chr7.1:24630043-24630062 MS.gene023999:CDS 40.0%
TCTCATTGAGTGCTAACAAG+TGG + chr7.1:24629782-24629801 MS.gene023999:CDS 40.0%
! ATTTTCTTTTTCTCCCGGTC+TGG + chr7.1:24630131-24630150 MS.gene023999:CDS 40.0%
! CGACGATTACATGGTAGTTT+TGG + chr7.1:24629705-24629724 MS.gene023999:CDS 40.0%
! CTTCCAGATGACTTTTCTCA+TGG + chr7.1:24629982-24630001 MS.gene023999:CDS 40.0%
! TTTTCTTTTTCTCCCGGTCT+GGG + chr7.1:24630132-24630151 MS.gene023999:CDS 40.0%
!! TTTATAGTAAGAGGCGCCAT+AGG - chr7.1:24630262-24630281 None:intergenic 40.0%
ATTCAAGAATGACCCGACAG+TGG - chr7.1:24629869-24629888 None:intergenic 45.0%
TATTGGGGAAAAACCCAGAC+CGG - chr7.1:24630148-24630167 None:intergenic 45.0%
TCTCTACTTTCACTCCCTGA+TGG + chr7.1:24630309-24630328 MS.gene023999:CDS 45.0%
TCTGAATATGGTCCCACTGT+CGG + chr7.1:24629853-24629872 MS.gene023999:CDS 45.0%
TCTTCTTGTCAGCACCATCA+GGG - chr7.1:24630326-24630345 None:intergenic 45.0%
TTCAAGAATGACCCGACAGT+GGG - chr7.1:24629868-24629887 None:intergenic 45.0%
TTCTTCTTGTCAGCACCATC+AGG - chr7.1:24630327-24630346 None:intergenic 45.0%
! CCGCTTCTGATTTGCCTTAT+AGG + chr7.1:24629818-24629837 MS.gene023999:CDS 45.0%
! CTGCTAGAGTATCACTCCTA+TGG + chr7.1:24630243-24630262 MS.gene023999:CDS 45.0%
!! TTGGCGGACTTATCAGTGTA+TGG + chr7.1:24630031-24630050 MS.gene023999:CDS 45.0%
ATTGGGGAAAAACCCAGACC+GGG - chr7.1:24630147-24630166 None:intergenic 50.0%
CTGAATATGGTCCCACTGTC+GGG + chr7.1:24629854-24629873 MS.gene023999:CDS 50.0%
GCTAATCCAGCAGCAGCATC+TGG - chr7.1:24630201-24630220 None:intergenic 55.0%
GTTGGACCAGATGCTGCTGC+TGG + chr7.1:24630192-24630211 MS.gene023999:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 24629697 24630383 24629697 ID=MS.gene023999
chr7.1 mRNA 24629697 24630383 24629697 ID=MS.gene023999.t1;Parent=MS.gene023999
chr7.1 exon 24629697 24630383 24629697 ID=MS.gene023999.t1.exon1;Parent=MS.gene023999.t1
chr7.1 CDS 24629697 24630383 24629697 ID=cds.MS.gene023999.t1;Parent=MS.gene023999.t1
Gene Sequence

>MS.gene023999

ATGTCAAGCGACGATTACATGGTAGTTTTGGGATCCATCAAATACAATTACAGGAGAAAAAATAGCTCGATTGACTTGGAGATTTTCTCATTGAGTGCTAACAAGTGGAAACAAGTTGAGGCCGCTTCTGATTTGCCTTATAGGAAGACTGCAAACTCTGAATATGGTCCCACTGTCGGGTCATTCTTGAATGATTCTATTCATTGGCTGGTTTATAATTATGAGACCAAAAGCAATGTTATTATTGCCTTTGATTTAAAGGAAAAGACACTGTCAGAGATAGCTCTTCCAGATGACTTTTCTCATGGAATTTATGTTTATGATTTGATGGTATTTGGCGGACTTATCAGTGTATGGAATATCGAGAGGTCTAAAATTAAGATATGGGTGATGCAAGAATACAAAGTTCATTCATCTTGGTCTAAGACTCTTGAATTTTCTTTTTCTCCCGGTCTGGGTTTTTCCCCAATATGCTTTACAAGTTGTGGTGATATAGTTGGACCAGATGCTGCTGCTGGATTAGCGAAGCTTAATGACAAAGGACAACTGCTAGAGTATCACTCCTATGGCGCCTCTTACTATAAAAGATCCCAAACAACGGTGTATATAGAGTCTCTACTTTCACTCCCTGATGGTGCTGACAAGAAGAATTTGATTGTGAAATATACATATTTACGATTTTGCTGA
Protein sequence

>MS.gene023999.t1

MSSDDYMVVLGSIKYNYRRKNSSIDLEIFSLSANKWKQVEAASDLPYRKTANSEYGPTVGSFLNDSIHWLVYNYETKSNVIIAFDLKEKTLSEIALPDDFSHGIYVYDLMVFGGLISVWNIERSKIKIWVMQEYKVHSSWSKTLEFSFSPGLGFSPICFTSCGDIVGPDAAAGLAKLNDKGQLLEYHSYGASYYKRSQTTVYIESLLSLPDGADKKNLIVKYTYLRFC