Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene064889.t1 | XP_003603902.1 | 97.6 | 166 | 3 | 1 | 1 | 166 | 121 | 285 | 5.90E-87 | 330.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene064889.t1 | O65009 | 43.2 | 162 | 86 | 3 | 1 | 157 | 122 | 282 | 6.5e-34 | 145.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene064889.t1 | G7J6J4 | 97.6 | 166 | 3 | 1 | 1 | 166 | 121 | 285 | 4.3e-87 | 330.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene056870 | MS.gene064889 | 0.80059 | 1.34E-48 | -1.69E-46 |
| MS.gene06057 | MS.gene064889 | 0.80115 | 1.03E-48 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene064889.t1 | MTR_3g116410 | 97.590 | 166 | 3 | 1 | 1 | 166 | 121 | 285 | 6.07e-118 | 335 |
| MS.gene064889.t1 | MTR_3g107830 | 84.940 | 166 | 24 | 1 | 1 | 166 | 101 | 265 | 2.67e-104 | 300 |
| MS.gene064889.t1 | MTR_4g069680 | 77.108 | 166 | 37 | 1 | 1 | 166 | 132 | 296 | 1.69e-93 | 273 |
| MS.gene064889.t1 | MTR_3g116380 | 51.282 | 156 | 74 | 2 | 1 | 156 | 149 | 302 | 3.79e-57 | 181 |
| MS.gene064889.t1 | MTR_3g116270 | 50.000 | 156 | 77 | 1 | 1 | 156 | 351 | 505 | 1.02e-52 | 175 |
| MS.gene064889.t1 | MTR_6g086530 | 47.799 | 159 | 81 | 2 | 1 | 157 | 48 | 206 | 4.54e-51 | 162 |
| MS.gene064889.t1 | MTR_3g116320 | 48.718 | 156 | 79 | 1 | 1 | 156 | 533 | 687 | 2.97e-50 | 171 |
| MS.gene064889.t1 | MTR_4g069570 | 46.835 | 158 | 81 | 3 | 1 | 156 | 179 | 335 | 6.41e-49 | 161 |
| MS.gene064889.t1 | MTR_4g069550 | 48.485 | 165 | 82 | 3 | 1 | 163 | 306 | 469 | 1.27e-48 | 163 |
| MS.gene064889.t1 | MTR_4g069040 | 45.122 | 164 | 87 | 3 | 1 | 162 | 353 | 515 | 2.34e-48 | 163 |
| MS.gene064889.t1 | MTR_4g069520 | 45.455 | 165 | 87 | 3 | 1 | 163 | 566 | 729 | 5.23e-44 | 154 |
| MS.gene064889.t1 | MTR_4g069520 | 45.455 | 165 | 87 | 3 | 1 | 163 | 552 | 715 | 6.64e-44 | 154 |
| MS.gene064889.t1 | MTR_3g109490 | 45.625 | 160 | 80 | 5 | 1 | 157 | 167 | 322 | 2.69e-43 | 146 |
| MS.gene064889.t1 | MTR_1g008500 | 47.468 | 158 | 77 | 5 | 1 | 157 | 233 | 385 | 1.25e-41 | 143 |
| MS.gene064889.t1 | MTR_1g008530 | 44.304 | 158 | 82 | 5 | 1 | 157 | 72 | 224 | 1.65e-39 | 134 |
| MS.gene064889.t1 | MTR_0312s0030 | 44.304 | 158 | 81 | 5 | 1 | 157 | 174 | 325 | 1.41e-38 | 134 |
| MS.gene064889.t1 | MTR_1g007520 | 44.304 | 158 | 81 | 5 | 1 | 157 | 174 | 325 | 1.41e-38 | 134 |
| MS.gene064889.t1 | MTR_4g068420 | 44.521 | 146 | 60 | 3 | 20 | 163 | 1 | 127 | 1.71e-38 | 128 |
| MS.gene064889.t1 | MTR_1g008590 | 44.304 | 158 | 81 | 5 | 1 | 157 | 174 | 325 | 2.01e-38 | 133 |
| MS.gene064889.t1 | MTR_1g008580 | 43.590 | 156 | 82 | 5 | 1 | 155 | 20 | 170 | 4.21e-38 | 128 |
| MS.gene064889.t1 | MTR_1g008560 | 43.671 | 158 | 83 | 5 | 1 | 157 | 178 | 330 | 7.23e-37 | 129 |
| MS.gene064889.t1 | MTR_1g008510 | 43.671 | 158 | 83 | 5 | 1 | 157 | 174 | 326 | 1.18e-36 | 129 |
| MS.gene064889.t1 | MTR_1g008470 | 41.401 | 157 | 86 | 4 | 1 | 157 | 150 | 300 | 1.96e-36 | 127 |
| MS.gene064889.t1 | MTR_1g008450 | 40.127 | 157 | 88 | 3 | 1 | 157 | 163 | 313 | 1.22e-33 | 120 |
| MS.gene064889.t1 | MTR_1g008460 | 40.764 | 157 | 87 | 4 | 1 | 157 | 147 | 297 | 1.65e-33 | 120 |
| MS.gene064889.t1 | MTR_5g034320 | 35.000 | 160 | 91 | 6 | 1 | 155 | 476 | 627 | 4.09e-24 | 98.2 |
| MS.gene064889.t1 | MTR_8g064500 | 34.615 | 156 | 89 | 6 | 4 | 154 | 223 | 370 | 4.65e-24 | 96.7 |
| MS.gene064889.t1 | MTR_4g133840 | 32.468 | 154 | 98 | 5 | 3 | 154 | 37 | 186 | 4.45e-23 | 90.5 |
| MS.gene064889.t1 | MTR_8g064560 | 33.758 | 157 | 91 | 6 | 4 | 155 | 476 | 624 | 7.79e-22 | 91.7 |
| MS.gene064889.t1 | MTR_8g046000 | 37.908 | 153 | 85 | 5 | 4 | 156 | 80 | 222 | 6.26e-21 | 85.9 |
| MS.gene064889.t1 | MTR_3g078090 | 33.548 | 155 | 96 | 5 | 3 | 155 | 476 | 625 | 2.16e-20 | 87.4 |
| MS.gene064889.t1 | MTR_8g445140 | 37.500 | 144 | 74 | 5 | 16 | 156 | 172 | 302 | 1.42e-18 | 80.9 |
| MS.gene064889.t1 | MTR_8g064530 | 31.013 | 158 | 98 | 4 | 1 | 154 | 490 | 640 | 1.48e-18 | 82.0 |
| MS.gene064889.t1 | MTR_2g081590 | 34.437 | 151 | 89 | 5 | 8 | 158 | 121 | 261 | 3.70e-18 | 79.3 |
| MS.gene064889.t1 | MTR_2g081610 | 33.775 | 151 | 90 | 5 | 8 | 158 | 121 | 261 | 1.23e-17 | 77.8 |
| MS.gene064889.t1 | MTR_8g445170 | 34.043 | 141 | 83 | 4 | 16 | 156 | 253 | 383 | 2.19e-16 | 75.5 |
| MS.gene064889.t1 | MTR_8g045890 | 34.043 | 141 | 83 | 4 | 16 | 156 | 342 | 472 | 2.57e-16 | 75.5 |
| MS.gene064889.t1 | MTR_8g045890 | 34.043 | 141 | 83 | 4 | 16 | 156 | 301 | 431 | 2.61e-16 | 75.5 |
| MS.gene064889.t1 | MTR_8g045890 | 34.043 | 141 | 83 | 4 | 16 | 156 | 379 | 509 | 2.62e-16 | 75.5 |
| MS.gene064889.t1 | MTR_5g033350 | 29.032 | 155 | 104 | 4 | 1 | 154 | 49 | 198 | 1.75e-15 | 70.9 |
| MS.gene064889.t1 | MTR_8g045880 | 33.333 | 141 | 84 | 4 | 16 | 156 | 184 | 314 | 6.21e-15 | 71.2 |
| MS.gene064889.t1 | MTR_5g033340 | 29.032 | 155 | 104 | 4 | 1 | 154 | 228 | 377 | 8.61e-15 | 70.9 |
| MS.gene064889.t1 | MTR_8g045880 | 33.333 | 141 | 84 | 4 | 16 | 156 | 219 | 349 | 8.81e-15 | 70.9 |
| MS.gene064889.t1 | MTR_8g045880 | 33.333 | 141 | 84 | 4 | 16 | 156 | 221 | 351 | 9.42e-15 | 70.9 |
| MS.gene064889.t1 | MTR_8g075930 | 44.737 | 76 | 37 | 4 | 73 | 145 | 14 | 87 | 2.22e-14 | 65.1 |
| MS.gene064889.t1 | MTR_1g045860 | 30.769 | 156 | 99 | 5 | 2 | 157 | 114 | 260 | 2.08e-13 | 66.2 |
| MS.gene064889.t1 | MTR_5g033330 | 28.387 | 155 | 105 | 4 | 1 | 154 | 467 | 616 | 4.61e-13 | 66.2 |
| MS.gene064889.t1 | MTR_5g033330 | 28.777 | 139 | 93 | 4 | 1 | 138 | 51 | 184 | 8.08e-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.gene064889.t1 | AT1G49320 | 42.593 | 162 | 87 | 4 | 1 | 157 | 120 | 280 | 6.58e-43 | 144 |
| MS.gene064889.t1 | AT5G25610 | 43.871 | 155 | 82 | 5 | 1 | 154 | 239 | 389 | 1.09e-35 | 128 |
| MS.gene064889.t1 | AT1G70370 | 34.211 | 152 | 93 | 4 | 5 | 154 | 476 | 622 | 4.80e-20 | 86.7 |
| MS.gene064889.t1 | AT1G70370 | 34.211 | 152 | 93 | 4 | 5 | 154 | 476 | 622 | 4.80e-20 | 86.7 |
| MS.gene064889.t1 | AT1G60390 | 32.692 | 156 | 98 | 5 | 1 | 154 | 470 | 620 | 1.14e-19 | 85.5 |
| MS.gene064889.t1 | AT1G23760 | 32.237 | 152 | 96 | 5 | 5 | 154 | 472 | 618 | 1.37e-18 | 82.4 |
Find 31 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAACCTTGTGATTTCAATTT+AGG | 0.099086 | 3.3:+94824803 | None:intergenic |
| CATGTTTCATTTCAAGTTCT+TGG | 0.201295 | 3.3:-94824887 | MS.gene064889:CDS |
| AACCTTGTGATTTCAATTTA+GGG | 0.289344 | 3.3:+94824804 | None:intergenic |
| TTGAAAAGTAACACTTGATT+TGG | 0.297099 | 3.3:+94825117 | None:intergenic |
| GAATTTACACAAAACATTCT+TGG | 0.298406 | 3.3:-94825181 | MS.gene064889:CDS |
| GAACTTAACCTCTCCTTTGA+TGG | 0.356006 | 3.3:+94825231 | None:intergenic |
| GTGTGACAAGCCACCATCTT+TGG | 0.368463 | 3.3:+94825055 | None:intergenic |
| TCCCAGCGGACAATTACATT+TGG | 0.373004 | 3.3:-94824829 | MS.gene064889:CDS |
| CCCAGCGGACAATTACATTT+GGG | 0.389028 | 3.3:-94824828 | MS.gene064889:CDS |
| GGCTATGGTGGTTTGTCACT+TGG | 0.403171 | 3.3:-94824933 | MS.gene064889:CDS |
| ATAGTCAAGAAAGTGAGAAT+AGG | 0.435139 | 3.3:-94825000 | MS.gene064889:CDS |
| TGGAGATAAGGTTGAGGCTA+TGG | 0.442985 | 3.3:-94824948 | MS.gene064889:CDS |
| TGACACACAGAAGAGCTTCC+TGG | 0.469514 | 3.3:+94824857 | None:intergenic |
| TGTGCAAAGTTGCATAAGCT+TGG | 0.472166 | 3.3:+94825143 | None:intergenic |
| CAAGTTCTTGGTGTCACACC+AGG | 0.473983 | 3.3:-94824875 | MS.gene064889:CDS |
| CCCAAATGTAATTGTCCGCT+GGG | 0.478272 | 3.3:+94824828 | None:intergenic |
| TAGTCAAGAAAGTGAGAATA+GGG | 0.482578 | 3.3:-94824999 | MS.gene064889:CDS |
| TCACTTGGATACATCACAAT+GGG | 0.486976 | 3.3:-94824918 | MS.gene064889:CDS |
| ACCCAAATGTAATTGTCCGC+TGG | 0.506688 | 3.3:+94824827 | None:intergenic |
| AACTTAACCTCTCCTTTGAT+GGG | 0.514268 | 3.3:+94825232 | None:intergenic |
| CACTATAGTAGAAATTATGA+TGG | 0.530352 | 3.3:-94825089 | MS.gene064889:CDS |
| AGATAAGGTTGAGGCTATGG+TGG | 0.538336 | 3.3:-94824945 | MS.gene064889:CDS |
| TTCAAGCATAGATTCTAAAG+AGG | 0.545516 | 3.3:+94825201 | None:intergenic |
| GGAAATTCTAGCTCCAAAGA+TGG | 0.597283 | 3.3:-94825068 | MS.gene064889:CDS |
| GAAAGCAGCAAACCCATCAA+AGG | 0.600510 | 3.3:-94825244 | MS.gene064889:CDS |
| GTCCCTAAATTGAAATCACA+AGG | 0.602399 | 3.3:-94824806 | MS.gene064889:CDS |
| TGAGAATGGAGATAAGGTTG+AGG | 0.616111 | 3.3:-94824954 | MS.gene064889:CDS |
| GTCACTTGGATACATCACAA+TGG | 0.635200 | 3.3:-94824919 | MS.gene064889:CDS |
| CAGCAAACCCATCAAAGGAG+AGG | 0.643987 | 3.3:-94825239 | MS.gene064889:CDS |
| ACTTGAAATGAAACATGACT+AGG | 0.655390 | 3.3:+94824893 | None:intergenic |
| AATTCTAGCTCCAAAGATGG+TGG | 0.662511 | 3.3:-94825065 | MS.gene064889:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AACCTTGTGATTTCAATTTA+GGG | + | chr3.3:94825257-94825276 | None:intergenic | 25.0% |
| ! | CACTATAGTAGAAATTATGA+TGG | - | chr3.3:94824969-94824988 | MS.gene064889:CDS | 25.0% |
| ! | GAATTTACACAAAACATTCT+TGG | - | chr3.3:94824877-94824896 | MS.gene064889:CDS | 25.0% |
| ! | TAAAAAACAGCATAAGGATA+AGG | + | chr3.3:94825033-94825052 | None:intergenic | 25.0% |
| ! | TGACAATAAAAAACAGCATA+AGG | + | chr3.3:94825039-94825058 | None:intergenic | 25.0% |
| ! | TTGAAAAGTAACACTTGATT+TGG | + | chr3.3:94824944-94824963 | None:intergenic | 25.0% |
| !!! | AGGGTGTATAAAGTTTTATT+GGG | - | chr3.3:94825078-94825097 | MS.gene064889:CDS | 25.0% |
| !!! | TAGGGTGTATAAAGTTTTAT+TGG | - | chr3.3:94825077-94825096 | MS.gene064889:CDS | 25.0% |
| ACTTGAAATGAAACATGACT+AGG | + | chr3.3:94825168-94825187 | None:intergenic | 30.0% | |
| ATAGTCAAGAAAGTGAGAAT+AGG | - | chr3.3:94825058-94825077 | MS.gene064889:CDS | 30.0% | |
| GAACCTTGTGATTTCAATTT+AGG | + | chr3.3:94825258-94825277 | None:intergenic | 30.0% | |
| TAGTCAAGAAAGTGAGAATA+GGG | - | chr3.3:94825059-94825078 | MS.gene064889:CDS | 30.0% | |
| ! | TTCAAGCATAGATTCTAAAG+AGG | + | chr3.3:94824860-94824879 | None:intergenic | 30.0% |
| !! | CATGTTTCATTTCAAGTTCT+TGG | - | chr3.3:94825171-94825190 | MS.gene064889:CDS | 30.0% |
| !!! | GGGTGTATAAAGTTTTATTG+GGG | - | chr3.3:94825079-94825098 | MS.gene064889:CDS | 30.0% |
| !!! | GGTGTATAAAGTTTTATTGG+GGG | - | chr3.3:94825080-94825099 | MS.gene064889:CDS | 30.0% |
| !!! | GTGTATAAAGTTTTATTGGG+GGG | - | chr3.3:94825081-94825100 | MS.gene064889:CDS | 30.0% |
| AACTTAACCTCTCCTTTGAT+GGG | + | chr3.3:94824829-94824848 | None:intergenic | 35.0% | |
| GTCCCTAAATTGAAATCACA+AGG | - | chr3.3:94825252-94825271 | MS.gene064889:CDS | 35.0% | |
| TCACTTGGATACATCACAAT+GGG | - | chr3.3:94825140-94825159 | MS.gene064889:CDS | 35.0% | |
| !! | GCTGCTTTCACATTCTTTTA+AGG | + | chr3.3:94824803-94824822 | None:intergenic | 35.0% |
| GAACTTAACCTCTCCTTTGA+TGG | + | chr3.3:94824830-94824849 | None:intergenic | 40.0% | |
| GTCACTTGGATACATCACAA+TGG | - | chr3.3:94825139-94825158 | MS.gene064889:CDS | 40.0% | |
| TGAGAATGGAGATAAGGTTG+AGG | - | chr3.3:94825104-94825123 | MS.gene064889:CDS | 40.0% | |
| TGTGCAAAGTTGCATAAGCT+TGG | + | chr3.3:94824918-94824937 | None:intergenic | 40.0% | |
| !! | AATTCTAGCTCCAAAGATGG+TGG | - | chr3.3:94824993-94825012 | MS.gene064889:CDS | 40.0% |
| !! | GGAAATTCTAGCTCCAAAGA+TGG | - | chr3.3:94824990-94825009 | MS.gene064889:CDS | 40.0% |
| !!! | TGTGTGTCATTTTTTCCCAG+CGG | - | chr3.3:94825215-94825234 | MS.gene064889:CDS | 40.0% |
| ACCCAAATGTAATTGTCCGC+TGG | + | chr3.3:94825234-94825253 | None:intergenic | 45.0% | |
| AGATAAGGTTGAGGCTATGG+TGG | - | chr3.3:94825113-94825132 | MS.gene064889:CDS | 45.0% | |
| CCCAAATGTAATTGTCCGCT+GGG | + | chr3.3:94825233-94825252 | None:intergenic | 45.0% | |
| CCCAGCGGACAATTACATTT+GGG | - | chr3.3:94825230-94825249 | MS.gene064889:CDS | 45.0% | |
| GAAAGCAGCAAACCCATCAA+AGG | - | chr3.3:94824814-94824833 | MS.gene064889:CDS | 45.0% | |
| TCCCAGCGGACAATTACATT+TGG | - | chr3.3:94825229-94825248 | MS.gene064889:CDS | 45.0% | |
| TGGAGATAAGGTTGAGGCTA+TGG | - | chr3.3:94825110-94825129 | MS.gene064889:CDS | 45.0% | |
| !! | GTTTTATTGGGGGGTGAGAA+TGG | - | chr3.3:94825090-94825109 | MS.gene064889:CDS | 45.0% |
| CAGCAAACCCATCAAAGGAG+AGG | - | chr3.3:94824819-94824838 | MS.gene064889:CDS | 50.0% | |
| GTGTGACAAGCCACCATCTT+TGG | + | chr3.3:94825006-94825025 | None:intergenic | 50.0% | |
| TGACACACAGAAGAGCTTCC+TGG | + | chr3.3:94825204-94825223 | None:intergenic | 50.0% | |
| ! | GGCTATGGTGGTTTGTCACT+TGG | - | chr3.3:94825125-94825144 | MS.gene064889:CDS | 50.0% |
| !! | CAAGTTCTTGGTGTCACACC+AGG | - | chr3.3:94825183-94825202 | MS.gene064889:CDS | 50.0% |
| GGGGGGTGAGAATGGAGATA+AGG | - | chr3.3:94825098-94825117 | MS.gene064889:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 94824790 | 94825290 | 94824790 | ID=MS.gene064889 |
| chr3.3 | mRNA | 94824790 | 94825290 | 94824790 | ID=MS.gene064889.t1;Parent=MS.gene064889 |
| chr3.3 | exon | 94824790 | 94825290 | 94824790 | ID=MS.gene064889.t1.exon1;Parent=MS.gene064889.t1 |
| chr3.3 | CDS | 94824790 | 94825290 | 94824790 | ID=cds.MS.gene064889.t1;Parent=MS.gene064889.t1 |
| Gene Sequence |
| Protein sequence |
