AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene24973

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24973.t1 MTR_4g013350 94.949 198 9 1 1 198 1 197 2.89e-136 379
MS.gene24973.t1 MTR_4g013345 90.164 183 17 1 16 198 15 196 7.66e-123 345
MS.gene24973.t1 MTR_4g013330 83.696 184 28 1 17 198 16 199 1.15e-117 332
MS.gene24973.t1 MTR_4g013335 79.293 198 39 1 1 198 1 196 2.48e-112 318
MS.gene24973.t1 MTR_4g013320 78.804 184 37 1 17 198 16 199 3.78e-110 313
MS.gene24973.t1 MTR_4g013310 67.500 200 60 3 1 198 1 197 2.16e-93 271
MS.gene24973.t1 MTR_4g013325 76.119 201 43 3 1 198 1 199 7.62e-93 270
MS.gene24973.t1 MTR_7g070390 67.010 194 60 3 6 198 2 192 1.67e-83 246
MS.gene24973.t1 MTR_4g013385 60.847 189 68 3 10 198 8 190 3.45e-78 232
MS.gene24973.t1 MTR_0433s0040 60.847 189 68 3 10 198 8 190 3.45e-78 232
MS.gene24973.t1 MTR_4g013770 62.353 170 61 2 30 198 24 191 2.30e-70 212
MS.gene24973.t1 MTR_1g054525 56.633 196 75 3 3 198 7 192 6.72e-70 211
MS.gene24973.t1 MTR_4g013355 55.026 189 70 3 10 198 6 179 8.77e-66 200
MS.gene24973.t1 MTR_4g073950 55.921 152 66 1 48 198 41 192 7.99e-61 188
MS.gene24973.t1 MTR_7g093850 50.538 186 89 3 14 198 11 194 5.03e-60 186
MS.gene24973.t1 MTR_7g093820 50.538 186 89 3 14 198 11 194 8.87e-60 185
MS.gene24973.t1 MTR_7g093830 48.387 186 93 3 14 198 10 193 1.56e-58 182
MS.gene24973.t1 MTR_7g093790 48.193 166 84 2 34 198 27 191 2.73e-57 179
MS.gene24973.t1 MTR_7g093870 53.846 156 67 2 48 198 38 193 5.14e-55 174
MS.gene24973.t1 MTR_3g105640 49.068 161 80 2 40 198 28 188 8.61e-49 157
MS.gene24973.t1 MTR_1g056370 49.669 151 74 2 48 197 36 185 1.29e-48 157
MS.gene24973.t1 MTR_3g105630 43.005 193 99 3 9 198 5 189 2.72e-47 154
MS.gene24973.t1 MTR_4g078885 46.980 149 77 1 50 198 39 185 7.88e-45 147
MS.gene24973.t1 MTR_3g034030 47.651 149 76 1 50 198 39 185 1.45e-44 146
MS.gene24973.t1 MTR_5g096120 44.231 156 75 3 51 198 38 189 6.06e-41 137
MS.gene24973.t1 MTR_4g122110 37.324 142 89 0 57 198 39 180 1.90e-28 105
MS.gene24973.t1 MTR_4g122130 36.620 142 90 0 57 198 39 180 7.92e-26 98.6
MS.gene24973.t1 MTR_4g049550 31.293 147 101 0 47 193 27 173 1.39e-18 79.7
MS.gene24973.t1 MTR_4g049570 30.769 143 99 0 51 193 31 173 1.33e-17 77.0
MS.gene24973.t1 MTR_8g099115 33.824 136 81 3 50 177 34 168 1.68e-16 74.3
MS.gene24973.t1 MTR_8g099135 34.848 132 69 4 58 177 38 164 2.20e-14 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene24973.t1 AT1G55210 60.317 189 70 2 10 198 4 187 3.27e-80 237
MS.gene24973.t1 AT1G55210 60.317 189 70 2 10 198 4 187 3.27e-80 237
MS.gene24973.t1 AT1G58170 57.447 188 69 2 13 198 7 185 3.79e-75 224
MS.gene24973.t1 AT5G49040 53.927 191 88 0 8 198 1 191 1.23e-74 223
MS.gene24973.t1 AT3G13650 52.356 191 86 3 8 198 1 186 4.58e-68 206
MS.gene24973.t1 AT5G49030 53.672 177 82 0 8 184 1 177 4.63e-59 199
MS.gene24973.t1 AT1G65870 52.980 151 71 0 47 197 39 189 1.89e-56 177
MS.gene24973.t1 AT2G21100 52.349 149 71 0 49 197 39 187 4.09e-55 173
MS.gene24973.t1 AT2G21100 52.349 149 71 0 49 197 39 187 4.09e-55 173
MS.gene24973.t1 AT3G13662 55.034 149 64 1 37 185 27 172 1.01e-53 169
MS.gene24973.t1 AT3G13660 64.407 118 42 0 81 198 8 125 6.07e-52 163
MS.gene24973.t1 AT1G22900 50.993 151 72 1 47 197 45 193 1.15e-50 162
MS.gene24973.t1 AT5G42500 49.007 151 73 2 48 197 38 185 3.81e-48 155
MS.gene24973.t1 AT5G42510 47.682 151 75 2 48 197 35 182 5.76e-47 152
MS.gene24973.t1 AT4G38700 44.872 156 80 3 49 198 35 190 7.44e-41 137
MS.gene24973.t1 AT3G58090 52.727 110 52 0 88 197 162 271 1.84e-38 133
MS.gene24973.t1 AT2G21110 38.824 170 94 2 33 198 23 186 4.21e-38 130
MS.gene24973.t1 AT4G11210 28.729 181 114 4 1 181 1 166 1.34e-16 74.3
MS.gene24973.t1 AT4G23690 36.364 132 77 3 46 173 34 162 2.44e-16 73.9
MS.gene24973.t1 AT4G11180 29.703 202 118 7 1 197 1 183 4.56e-12 62.4

Find 37 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTTCTGGTCCTAAAGTTAA+AGG 0.191161 4.1:-82365377 None:intergenic
CATTGGATTGATTACAAAAC+TGG 0.220000 4.1:+82365626 MS.gene24973:CDS
ATTGACAACCCTTTAACTTT+AGG 0.265955 4.1:+82365368 MS.gene24973:CDS
TTCATTGAAGGAAAGTATAA+TGG 0.275934 4.1:+82365488 MS.gene24973:CDS
CATCTCCCTAACCTTATTAA+TGG 0.302823 4.1:-82365543 None:intergenic
GTAAATTCAACCACTGCTTT+TGG 0.313845 4.1:+82365332 MS.gene24973:CDS
CCAATAGATCGCAAGTTGTT+AGG 0.329140 4.1:+82365206 MS.gene24973:CDS
CCTAACAACTTGCGATCTAT+TGG 0.333660 4.1:-82365206 None:intergenic
TAAGTCATTTCAGATTCTAT+TGG 0.351815 4.1:+82365249 MS.gene24973:CDS
GAGGAATCCTGCCATTAATA+AGG 0.372389 4.1:+82365532 MS.gene24973:CDS
ATGCCTGTTGTTGGTGGTAG+TGG 0.375988 4.1:+82365563 MS.gene24973:CDS
GAACTGAGTTCTAAACTTGT+TGG 0.385159 4.1:+82365395 MS.gene24973:CDS
GGGAGTACTCTTACTATTGT+AGG 0.399599 4.1:+82365509 MS.gene24973:CDS
GTTCTGGTCCTAAAGTTAAA+GGG 0.426776 4.1:-82365376 None:intergenic
ACAAGTTTAGAACTCAGTTC+TGG 0.427865 4.1:-82365392 None:intergenic
GGAACAATTGCAACCGAAGT+TGG 0.428664 4.1:-82365296 None:intergenic
TCATTGAAGGAAAGTATAAT+GGG 0.435892 4.1:+82365489 MS.gene24973:CDS
ACAAAGTCATGATGAAATGT+TGG 0.438715 4.1:-82365103 None:intergenic
ATGCTCAAGCTAATACTCAT+TGG 0.456460 4.1:+82365609 MS.gene24973:CDS
TCCCTAACCTTATTAATGGC+AGG 0.465870 4.1:-82365539 None:intergenic
CAAAGTCATGATGAAATGTT+GGG 0.470092 4.1:-82365102 None:intergenic
AAACTTGTTGGAAGAGCTCA+AGG 0.479877 4.1:+82365407 MS.gene24973:CDS
ATTCTATGCATCTGCATCAC+AGG 0.484694 4.1:+82365430 MS.gene24973:CDS
ATCCTGCCATTAATAAGGTT+AGG 0.495140 4.1:+82365537 MS.gene24973:CDS
TCCTGCCATTAATAAGGTTA+GGG 0.498540 4.1:+82365538 MS.gene24973:CDS
GTTAGGGAGATGCCTGTTGT+TGG 0.505285 4.1:+82365554 MS.gene24973:CDS
AGTCCACTACCACCAACAAC+AGG 0.512977 4.1:-82365566 None:intergenic
AGGGAGATGCCTGTTGTTGG+TGG 0.521357 4.1:+82365557 MS.gene24973:CDS
GGAGTACTCTTACTATTGTA+GGG 0.530187 4.1:+82365510 MS.gene24973:CDS
TATTGGCATGATATCTTGAG+TGG 0.535975 4.1:+82365266 MS.gene24973:CDS
TCTGCATCACAGGAAGAACT+AGG 0.571860 4.1:+82365440 MS.gene24973:CDS
ATTGGATTGATTACAAAACT+GGG 0.578974 4.1:+82365627 MS.gene24973:CDS
GTCATGATGAAATGTTGGGA+AGG 0.583236 4.1:-82365098 None:intergenic
GTGTGTTGCAAGATATGAGA+AGG 0.624292 4.1:-82365133 None:intergenic
GTTGACTAAACCAAAAGCAG+TGG 0.670239 4.1:-82365342 None:intergenic
TTGGATTGATTACAAAACTG+GGG 0.674847 4.1:+82365628 MS.gene24973:CDS
GTACTCTTACTATTGTAGGG+AGG 0.687219 4.1:+82365513 MS.gene24973:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATTGGATTGATTACAAAACT+GGG + chr4.1:82365627-82365646 MS.gene24973:CDS 25.0%
! TAAGTCATTTCAGATTCTAT+TGG + chr4.1:82365249-82365268 MS.gene24973:CDS 25.0%
!! ATGAATTTTGCTTTCATTGA+AGG + chr4.1:82365476-82365495 MS.gene24973:CDS 25.0%
!! TCATTGAAGGAAAGTATAAT+GGG + chr4.1:82365489-82365508 MS.gene24973:CDS 25.0%
!! TTCATTGAAGGAAAGTATAA+TGG + chr4.1:82365488-82365507 MS.gene24973:CDS 25.0%
!!! GTTGAATTTACTTTTGATGA+TGG - chr4.1:82365323-82365342 None:intergenic 25.0%
ACAAAGTCATGATGAAATGT+TGG - chr4.1:82365106-82365125 None:intergenic 30.0%
CAAAGTCATGATGAAATGTT+GGG - chr4.1:82365105-82365124 None:intergenic 30.0%
CATTGGATTGATTACAAAAC+TGG + chr4.1:82365626-82365645 MS.gene24973:CDS 30.0%
TTGGATTGATTACAAAACTG+GGG + chr4.1:82365628-82365647 MS.gene24973:CDS 30.0%
! ATTGACAACCCTTTAACTTT+AGG + chr4.1:82365368-82365387 MS.gene24973:CDS 30.0%
!!! GAATTTACTTTTGATGATGG+TGG - chr4.1:82365320-82365339 None:intergenic 30.0%
ATCCTGCCATTAATAAGGTT+AGG + chr4.1:82365537-82365556 MS.gene24973:CDS 35.0%
ATGCTCAAGCTAATACTCAT+TGG + chr4.1:82365609-82365628 MS.gene24973:CDS 35.0%
CATCTCCCTAACCTTATTAA+TGG - chr4.1:82365546-82365565 None:intergenic 35.0%
GAGTGGAAAAAATCCAACTT+CGG + chr4.1:82365283-82365302 MS.gene24973:CDS 35.0%
GTTCTGGTCCTAAAGTTAAA+GGG - chr4.1:82365379-82365398 None:intergenic 35.0%
TATTGGCATGATATCTTGAG+TGG + chr4.1:82365266-82365285 MS.gene24973:CDS 35.0%
TCCTGCCATTAATAAGGTTA+GGG + chr4.1:82365538-82365557 MS.gene24973:CDS 35.0%
! ACAAGTTTAGAACTCAGTTC+TGG - chr4.1:82365395-82365414 None:intergenic 35.0%
! AGTTCTGGTCCTAAAGTTAA+AGG - chr4.1:82365380-82365399 None:intergenic 35.0%
! GGAGTACTCTTACTATTGTA+GGG + chr4.1:82365510-82365529 MS.gene24973:CDS 35.0%
! GTAAATTCAACCACTGCTTT+TGG + chr4.1:82365332-82365351 MS.gene24973:CDS 35.0%
!! GAACTGAGTTCTAAACTTGT+TGG + chr4.1:82365395-82365414 MS.gene24973:CDS 35.0%
ATTCTATGCATCTGCATCAC+AGG + chr4.1:82365430-82365449 MS.gene24973:CDS 40.0%
CCAATAGATCGCAAGTTGTT+AGG + chr4.1:82365206-82365225 MS.gene24973:CDS 40.0%
CCTAACAACTTGCGATCTAT+TGG - chr4.1:82365209-82365228 None:intergenic 40.0%
GAGGAATCCTGCCATTAATA+AGG + chr4.1:82365532-82365551 MS.gene24973:CDS 40.0%
GTACTCTTACTATTGTAGGG+AGG + chr4.1:82365513-82365532 MS.gene24973:CDS 40.0%
GTCATGATGAAATGTTGGGA+AGG - chr4.1:82365101-82365120 None:intergenic 40.0%
GTGTGTTGCAAGATATGAGA+AGG - chr4.1:82365136-82365155 None:intergenic 40.0%
GTTGACTAAACCAAAAGCAG+TGG - chr4.1:82365345-82365364 None:intergenic 40.0%
TCCCTAACCTTATTAATGGC+AGG - chr4.1:82365542-82365561 None:intergenic 40.0%
!! AAACTTGTTGGAAGAGCTCA+AGG + chr4.1:82365407-82365426 MS.gene24973:CDS 40.0%
!! GGGAGTACTCTTACTATTGT+AGG + chr4.1:82365509-82365528 MS.gene24973:CDS 40.0%
!!! GGACTTTTCAGATTTGCTAG+AGG + chr4.1:82365584-82365603 MS.gene24973:CDS 40.0%
GGAACAATTGCAACCGAAGT+TGG - chr4.1:82365299-82365318 None:intergenic 45.0%
TCTGCATCACAGGAAGAACT+AGG + chr4.1:82365440-82365459 MS.gene24973:CDS 45.0%
AGTCCACTACCACCAACAAC+AGG - chr4.1:82365569-82365588 None:intergenic 50.0%
GTTAGGGAGATGCCTGTTGT+TGG + chr4.1:82365554-82365573 MS.gene24973:CDS 50.0%
!! ATGCCTGTTGTTGGTGGTAG+TGG + chr4.1:82365563-82365582 MS.gene24973:CDS 50.0%
AGGGAGATGCCTGTTGTTGG+TGG + chr4.1:82365557-82365576 MS.gene24973:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 82365095 82365691 82365095 ID=MS.gene24973
chr4.1 mRNA 82365095 82365691 82365095 ID=MS.gene24973.t1;Parent=MS.gene24973
chr4.1 exon 82365095 82365691 82365095 ID=MS.gene24973.t1.exon1;Parent=MS.gene24973.t1
chr4.1 CDS 82365095 82365691 82365095 ID=cds.MS.gene24973.t1;Parent=MS.gene24973.t1
Gene Sequence

>MS.gene24973

ATGCCTTCCCAACATTTCATCATGACTTTGTTCTTCTTCCTTCTCATATCTTGCAACACACTCACTGCTTCAACTTCGTCAGAAAAGCAAGACACTTTCGATTTTGTTCGTCCAATAGATCGCAAGTTGTTAGGCTTAAACAAGAAAGAAAAGCTAAGTCATTTCAGATTCTATTGGCATGATATCTTGAGTGGAAAAAATCCAACTTCGGTTGCAATTGTTCCACCATCATCAAAAGTAAATTCAACCACTGCTTTTGGTTTAGTCAACATGATTGACAACCCTTTAACTTTAGGACCAGAACTGAGTTCTAAACTTGTTGGAAGAGCTCAAGGATTCTATGCATCTGCATCACAGGAAGAACTAGGTTTTCTTATGACAATGAATTTTGCTTTCATTGAAGGAAAGTATAATGGGAGTACTCTTACTATTGTAGGGAGGAATCCTGCCATTAATAAGGTTAGGGAGATGCCTGTTGTTGGTGGTAGTGGACTTTTCAGATTTGCTAGAGGATATGCTCAAGCTAATACTCATTGGATTGATTACAAAACTGGGGATGCTTGTGTTGAGTACAATGTCCATGTTTTTCACTATTGA
Protein sequence

>MS.gene24973.t1

MPSQHFIMTLFFFLLISCNTLTASTSSEKQDTFDFVRPIDRKLLGLNKKEKLSHFRFYWHDILSGKNPTSVAIVPPSSKVNSTTAFGLVNMIDNPLTLGPELSSKLVGRAQGFYASASQEELGFLMTMNFAFIEGKYNGSTLTIVGRNPAINKVREMPVVGGSGLFRFARGYAQANTHWIDYKTGDACVEYNVHVFHY