AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33428


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33428.t1 MTR_4g013385 98.429 191 3 0 1 191 1 191 1.78e-140 389
MS.gene33428.t1 MTR_0433s0040 98.429 191 3 0 1 191 1 191 1.78e-140 389
MS.gene33428.t1 MTR_4g013355 69.474 190 47 2 3 191 1 180 1.61e-92 268
MS.gene33428.t1 MTR_4g013770 67.045 176 56 1 17 190 16 191 7.40e-83 244
MS.gene33428.t1 MTR_4g013345 60.440 182 67 3 14 190 15 196 2.02e-75 225
MS.gene33428.t1 MTR_4g013350 61.202 183 65 3 14 190 15 197 1.28e-74 223
MS.gene33428.t1 MTR_4g013320 60.326 184 65 4 15 190 16 199 1.92e-72 218
MS.gene33428.t1 MTR_7g070390 58.511 188 75 1 6 190 5 192 5.91e-72 216
MS.gene33428.t1 MTR_4g013330 58.696 184 68 4 15 190 16 199 4.22e-71 214
MS.gene33428.t1 MTR_4g013335 56.354 181 73 3 15 190 17 196 2.66e-69 209
MS.gene33428.t1 MTR_4g013325 62.759 145 53 1 47 190 55 199 8.13e-66 201
MS.gene33428.t1 MTR_4g013310 54.891 184 73 5 15 190 16 197 4.28e-65 199
MS.gene33428.t1 MTR_1g054525 46.486 185 94 3 9 190 10 192 1.20e-56 177
MS.gene33428.t1 MTR_7g093850 42.021 188 106 3 6 190 7 194 1.97e-47 154
MS.gene33428.t1 MTR_7g093790 41.989 181 99 4 13 190 14 191 1.64e-46 151
MS.gene33428.t1 MTR_7g093820 40.426 188 109 3 6 190 7 194 1.89e-46 151
MS.gene33428.t1 MTR_4g073950 44.444 153 83 1 40 190 40 192 1.20e-45 149
MS.gene33428.t1 MTR_7g093830 41.143 175 100 3 19 190 19 193 9.05e-45 147
MS.gene33428.t1 MTR_1g056370 45.695 151 81 1 40 189 35 185 2.54e-43 143
MS.gene33428.t1 MTR_7g093870 41.975 162 76 3 41 190 38 193 1.12e-39 135
MS.gene33428.t1 MTR_4g078885 36.872 179 111 2 14 191 9 186 1.74e-38 130
MS.gene33428.t1 MTR_3g034030 37.222 180 111 2 13 191 8 186 1.76e-38 130
MS.gene33428.t1 MTR_5g096120 37.234 188 107 5 9 190 7 189 1.63e-37 128
MS.gene33428.t1 MTR_3g105640 41.558 154 83 3 42 190 37 188 3.38e-37 127
MS.gene33428.t1 MTR_3g105630 37.634 186 107 5 11 190 7 189 1.53e-36 125
MS.gene33428.t1 MTR_4g122130 34.211 152 99 1 40 190 29 180 8.15e-25 95.5
MS.gene33428.t1 MTR_4g122110 33.974 156 99 2 36 190 28 180 1.08e-23 92.8
MS.gene33428.t1 MTR_4g049550 33.088 136 90 1 42 176 29 164 8.25e-17 74.7
MS.gene33428.t1 MTR_4g049570 31.915 141 90 2 46 185 33 168 5.27e-16 72.4
MS.gene33428.t1 MTR_1g046490 39.560 91 54 1 77 167 121 210 4.80e-14 68.6
MS.gene33428.t1 MTR_1g046500 40.659 91 53 1 77 167 135 224 1.78e-13 67.0
MS.gene33428.t1 MTR_1g046800 41.111 90 52 1 78 167 136 224 2.08e-13 67.0
MS.gene33428.t1 MTR_1g115510 37.815 119 67 4 78 189 235 353 1.69e-12 65.1
MS.gene33428.t1 MTR_8g099135 31.618 136 69 5 50 169 37 164 3.73e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33428.t1 AT1G58170 48.421 190 91 3 3 190 1 185 1.28e-63 194
MS.gene33428.t1 AT1G55210 50.802 187 87 3 7 190 3 187 5.00e-63 193
MS.gene33428.t1 AT1G55210 50.802 187 87 3 7 190 3 187 5.00e-63 193
MS.gene33428.t1 AT3G13650 53.216 171 77 2 21 190 18 186 8.19e-61 187
MS.gene33428.t1 AT5G49040 46.995 183 91 3 11 190 12 191 1.67e-54 172
MS.gene33428.t1 AT1G65870 45.033 151 82 1 40 189 39 189 5.89e-46 150
MS.gene33428.t1 AT3G13660 58.120 117 49 0 74 190 9 125 1.31e-43 142
MS.gene33428.t1 AT5G42500 46.575 146 73 3 46 189 43 185 1.45e-43 144
MS.gene33428.t1 AT5G42510 44.667 150 80 2 41 189 35 182 3.00e-43 143
MS.gene33428.t1 AT5G49030 45.029 171 89 3 18 185 16 184 6.67e-42 150
MS.gene33428.t1 AT3G13662 46.715 137 71 1 41 177 38 172 7.93e-41 136
MS.gene33428.t1 AT1G22900 44.000 150 81 2 41 189 46 193 9.82e-40 134
MS.gene33428.t1 AT2G21100 40.940 149 87 1 42 189 39 187 9.89e-39 131
MS.gene33428.t1 AT2G21100 40.940 149 87 1 42 189 39 187 9.89e-39 131
MS.gene33428.t1 AT3G58090 46.789 109 58 0 81 189 163 271 5.98e-34 121
MS.gene33428.t1 AT2G21110 38.411 151 88 1 45 190 36 186 3.07e-32 115
MS.gene33428.t1 AT4G38700 36.842 190 107 6 8 190 7 190 9.80e-31 111
MS.gene33428.t1 AT4G23690 32.117 137 87 4 37 169 32 166 2.58e-15 70.9
MS.gene33428.t1 AT4G11210 27.746 173 113 6 5 173 2 166 1.12e-13 66.6
MS.gene33428.t1 AT4G11190 29.630 135 89 3 39 169 30 162 3.26e-13 65.5
MS.gene33428.t1 AT4G11180 32.374 139 87 5 36 169 28 164 1.15e-11 61.2

Find 40 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTCTTCTTCTGAACAATTT+AGG 0.169887 4.2:-87024301 None:intergenic
ACCTCAATTGAGCTCAAAAT+TGG 0.270077 4.2:+87024468 MS.gene33428:CDS
TGGAAGCACAATTACTATCT+TGG 0.342636 4.2:+87024585 MS.gene33428:CDS
TTATTTGAAGGGAAATATAA+TGG 0.360119 4.2:+87024565 MS.gene33428:CDS
TTAGCCACTTTAGATTCTAT+TGG 0.363260 4.2:+87024329 MS.gene33428:CDS
AAGCTCAGTTTGTGAGGTAT+AGG 0.375610 4.2:-87024515 None:intergenic
GGAAGCACAATTACTATCTT+GGG 0.437728 4.2:+87024586 MS.gene33428:CDS
ATCTATTGATCCCACGAAAC+CGG 0.454018 4.2:-87024278 None:intergenic
AAGAAATGATGCTTATGAAA+AGG 0.476165 4.2:+87024609 MS.gene33428:CDS
AAATTGGTTGGAAGGGCTCA+AGG 0.505137 4.2:+87024484 MS.gene33428:CDS
ATGCCTGTGATTGGTGGAAG+TGG 0.512180 4.2:+87024640 MS.gene33428:CDS
CATAGACAACGCTTTAACCT+CGG 0.517171 4.2:+87024444 MS.gene33428:CDS
TGAGCTCAAAATTGGTTGGA+AGG 0.519356 4.2:+87024476 MS.gene33428:CDS
TACTATTTGAATACCACTAC+AGG 0.522854 4.2:+87024703 MS.gene33428:CDS
CAATTGAGCTCAAAATTGGT+TGG 0.529085 4.2:+87024472 MS.gene33428:CDS
CATGCCAATAGAATCTAAAG+TGG 0.545838 4.2:-87024333 None:intergenic
GTTAGAGAAATGCCTGTGAT+TGG 0.553503 4.2:+87024631 MS.gene33428:CDS
ACAAGATGAGACCGGTTTCG+TGG 0.556174 4.2:+87024267 MS.gene33428:CDS
AAGTTTAACACAACAAACTT+CGG 0.557297 4.2:+87024409 MS.gene33428:CDS
ATAGACAACGCTTTAACCTC+GGG 0.557789 4.2:+87024445 MS.gene33428:CDS
GTTGTGTTAAACTTCGGAAG+AGG 0.562627 4.2:-87024400 None:intergenic
GTGTTAAACTTCGGAAGAGG+TGG 0.563949 4.2:-87024397 None:intergenic
AAAATTAAGCTCAGTTTGTG+AGG 0.564947 4.2:-87024521 None:intergenic
GGGTGTAACAAGAAAGGAGA+AGG 0.565271 4.2:-87024228 None:intergenic
TTGTGAGGGTGTAACAAGAA+AGG 0.567784 4.2:-87024234 None:intergenic
AAGTTTGTTGTGTTAAACTT+CGG 0.573223 4.2:-87024406 None:intergenic
CAAGATGAGACCGGTTTCGT+GGG 0.576259 4.2:+87024268 MS.gene33428:CDS
GAGCTCAAAATTGGTTGGAA+GGG 0.580534 4.2:+87024477 MS.gene33428:CDS
AGTCCACTTCCACCAATCAC+AGG 0.592137 4.2:-87024643 None:intergenic
AGAGAAATGCCTGTGATTGG+TGG 0.594056 4.2:+87024634 MS.gene33428:CDS
AATTGGTTGGAAGGGCTCAA+GGG 0.595873 4.2:+87024485 MS.gene33428:CDS
CTTGTGCAGTGACGATTGTG+AGG 0.610302 4.2:-87024249 None:intergenic
AGTTGTAGCATCTCCTGTAG+TGG 0.622414 4.2:-87024716 None:intergenic
GTCACTGCACAAGATGAGAC+CGG 0.630861 4.2:+87024259 MS.gene33428:CDS
TGAGCTCAATTGAGGTCCCG+AGG 0.649605 4.2:-87024461 None:intergenic
TGGAATAATTTCGATCGCGG+TGG 0.668764 4.2:-87024377 None:intergenic
TATTGGCATGACGTAGTCAG+CGG 0.668999 4.2:+87024346 MS.gene33428:CDS
AGGTGGAATAATTTCGATCG+CGG 0.693640 4.2:-87024380 None:intergenic
TTGTGCAGTGACGATTGTGA+GGG 0.713813 4.2:-87024248 None:intergenic
TAACACAACAAACTTCGGTG+AGG 0.721589 4.2:+87024414 MS.gene33428:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATTTGAAGGGAAATATAA+TGG + chr4.2:87024565-87024584 MS.gene33428:CDS 20.0%
!!! ATGAATTTTGCATTATTTGA+AGG + chr4.2:87024553-87024572 MS.gene33428:CDS 20.0%
!!! TGAATTTTGCATTATTTGAA+GGG + chr4.2:87024554-87024573 MS.gene33428:CDS 20.0%
! AAGAAATGATGCTTATGAAA+AGG + chr4.2:87024609-87024628 MS.gene33428:CDS 25.0%
! AAGTTTAACACAACAAACTT+CGG + chr4.2:87024409-87024428 MS.gene33428:CDS 25.0%
!!! AAGTTTGTTGTGTTAAACTT+CGG - chr4.2:87024409-87024428 None:intergenic 25.0%
AAAATTAAGCTCAGTTTGTG+AGG - chr4.2:87024524-87024543 None:intergenic 30.0%
TACTATTTGAATACCACTAC+AGG + chr4.2:87024703-87024722 MS.gene33428:CDS 30.0%
TGTCTTCTTCTGAACAATTT+AGG - chr4.2:87024304-87024323 None:intergenic 30.0%
! TTAGCCACTTTAGATTCTAT+TGG + chr4.2:87024329-87024348 MS.gene33428:CDS 30.0%
!!! GGACTTTTTAGATTTGCTAA+GGG + chr4.2:87024661-87024680 MS.gene33428:CDS 30.0%
!!! TGGACTTTTTAGATTTGCTA+AGG + chr4.2:87024660-87024679 MS.gene33428:CDS 30.0%
ACCTCAATTGAGCTCAAAAT+TGG + chr4.2:87024468-87024487 MS.gene33428:CDS 35.0%
CAATTGAGCTCAAAATTGGT+TGG + chr4.2:87024472-87024491 MS.gene33428:CDS 35.0%
CATGCCAATAGAATCTAAAG+TGG - chr4.2:87024336-87024355 None:intergenic 35.0%
! ACCAATTTTGAGCTCAATTG+AGG - chr4.2:87024472-87024491 None:intergenic 35.0%
! GGAAGCACAATTACTATCTT+GGG + chr4.2:87024586-87024605 MS.gene33428:CDS 35.0%
! TGGAAGCACAATTACTATCT+TGG + chr4.2:87024585-87024604 MS.gene33428:CDS 35.0%
AAGCTCAGTTTGTGAGGTAT+AGG - chr4.2:87024518-87024537 None:intergenic 40.0%
AGGTGGAATAATTTCGATCG+CGG - chr4.2:87024383-87024402 None:intergenic 40.0%
ATAGACAACGCTTTAACCTC+GGG + chr4.2:87024445-87024464 MS.gene33428:CDS 40.0%
ATCTATTGATCCCACGAAAC+CGG - chr4.2:87024281-87024300 None:intergenic 40.0%
CATAGACAACGCTTTAACCT+CGG + chr4.2:87024444-87024463 MS.gene33428:CDS 40.0%
GAGCTCAAAATTGGTTGGAA+GGG + chr4.2:87024477-87024496 MS.gene33428:CDS 40.0%
GTTAGAGAAATGCCTGTGAT+TGG + chr4.2:87024631-87024650 MS.gene33428:CDS 40.0%
GTTGTGTTAAACTTCGGAAG+AGG - chr4.2:87024403-87024422 None:intergenic 40.0%
TAACACAACAAACTTCGGTG+AGG + chr4.2:87024414-87024433 MS.gene33428:CDS 40.0%
TGAGCTCAAAATTGGTTGGA+AGG + chr4.2:87024476-87024495 MS.gene33428:CDS 40.0%
! TTGTGAGGGTGTAACAAGAA+AGG - chr4.2:87024237-87024256 None:intergenic 40.0%
AAATTGGTTGGAAGGGCTCA+AGG + chr4.2:87024484-87024503 MS.gene33428:CDS 45.0%
AATTGGTTGGAAGGGCTCAA+GGG + chr4.2:87024485-87024504 MS.gene33428:CDS 45.0%
AGAGAAATGCCTGTGATTGG+TGG + chr4.2:87024634-87024653 MS.gene33428:CDS 45.0%
AGTTGTAGCATCTCCTGTAG+TGG - chr4.2:87024719-87024738 None:intergenic 45.0%
GGGTGTAACAAGAAAGGAGA+AGG - chr4.2:87024231-87024250 None:intergenic 45.0%
GTGTTAAACTTCGGAAGAGG+TGG - chr4.2:87024400-87024419 None:intergenic 45.0%
TATTGGCATGACGTAGTCAG+CGG + chr4.2:87024346-87024365 MS.gene33428:CDS 45.0%
TGGAATAATTTCGATCGCGG+TGG - chr4.2:87024380-87024399 None:intergenic 45.0%
TTGTGCAGTGACGATTGTGA+GGG - chr4.2:87024251-87024270 None:intergenic 45.0%
AGTCCACTTCCACCAATCAC+AGG - chr4.2:87024646-87024665 None:intergenic 50.0%
ATGCCTGTGATTGGTGGAAG+TGG + chr4.2:87024640-87024659 MS.gene33428:CDS 50.0%
CTTGTGCAGTGACGATTGTG+AGG - chr4.2:87024252-87024271 None:intergenic 50.0%
GTCACTGCACAAGATGAGAC+CGG + chr4.2:87024259-87024278 MS.gene33428:CDS 50.0%
! ACAAGATGAGACCGGTTTCG+TGG + chr4.2:87024267-87024286 MS.gene33428:CDS 50.0%
! CAAGATGAGACCGGTTTCGT+GGG + chr4.2:87024268-87024287 MS.gene33428:CDS 50.0%
TGAGCTCAATTGAGGTCCCG+AGG - chr4.2:87024464-87024483 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 87024196 87024771 87024196 ID=MS.gene33428
chr4.2 mRNA 87024196 87024771 87024196 ID=MS.gene33428.t1;Parent=MS.gene33428
chr4.2 exon 87024196 87024771 87024196 ID=MS.gene33428.t1.exon1;Parent=MS.gene33428.t1
chr4.2 CDS 87024196 87024771 87024196 ID=cds.MS.gene33428.t1;Parent=MS.gene33428.t1
Gene Sequence

>MS.gene33428

ATGGCTATAGGTGCTTTCAAAATCTTCTTCTTCCTTCTCCTTTCTTGTTACACCCTCACAATCGTCACTGCACAAGATGAGACCGGTTTCGTGGGATCAATAGATCCTAAATTGTTCAGAAGAAGACAAAATGTTAGCCACTTTAGATTCTATTGGCATGACGTAGTCAGCGGAGACAACGCCACCGCGATCGAAATTATTCCACCTCTTCCGAAGTTTAACACAACAAACTTCGGTGAGGTGAAAGTCATAGACAACGCTTTAACCTCGGGACCTCAATTGAGCTCAAAATTGGTTGGAAGGGCTCAAGGGATATATTCCTATACCTCACAAACTGAGCTTAATTTTCTTATGATAATGAATTTTGCATTATTTGAAGGGAAATATAATGGAAGCACAATTACTATCTTGGGAAGAAATGATGCTTATGAAAAGGTTAGAGAAATGCCTGTGATTGGTGGAAGTGGACTTTTTAGATTTGCTAAGGGATATGCTGAACTTACTACTTACTATTTGAATACCACTACAGGAGATGCTACAACTGAGTACAATATTTATGTTTCTCATTATGTTTAA

Protein sequence

>MS.gene33428.t1

MAIGAFKIFFFLLLSCYTLTIVTAQDETGFVGSIDPKLFRRRQNVSHFRFYWHDVVSGDNATAIEIIPPLPKFNTTNFGEVKVIDNALTSGPQLSSKLVGRAQGIYSYTSQTELNFLMIMNFALFEGKYNGSTITILGRNDAYEKVREMPVIGGSGLFRFAKGYAELTTYYLNTTTGDATTEYNIYVSHYV