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.gene56244.t1 | XP_003598239.1 | 98.4 | 187 | 3 | 0 | 1 | 187 | 1 | 187 | 2.10E-93 | 351.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56244.t1 | P17407 | 55.3 | 188 | 81 | 3 | 3 | 187 | 4 | 191 | 5.0e-51 | 202.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56244.t1 | G7IYJ3 | 98.4 | 187 | 3 | 0 | 1 | 187 | 1 | 187 | 1.5e-93 | 351.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene56244 | MS.gene72495 | PPI |
| MS.gene77727 | MS.gene56244 | PPI |
| MS.gene78072 | MS.gene56244 | PPI |
| MS.gene56244 | MS.gene77725 | PPI |
| MS.gene045669 | MS.gene56244 | PPI |
| MS.gene72493 | MS.gene56244 | PPI |
| MS.gene045671 | MS.gene56244 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56244.t1 | MTR_3g008840 | 98.396 | 187 | 3 | 0 | 1 | 187 | 1 | 187 | 3.63e-136 | 378 |
| MS.gene56244.t1 | MTR_3g008820 | 92.442 | 172 | 13 | 0 | 16 | 187 | 15 | 186 | 3.21e-119 | 335 |
| MS.gene56244.t1 | MTR_5g012000 | 51.648 | 182 | 83 | 2 | 11 | 187 | 30 | 211 | 2.94e-66 | 202 |
| MS.gene56244.t1 | MTR_4g101760 | 48.438 | 192 | 90 | 2 | 5 | 187 | 11 | 202 | 4.71e-61 | 189 |
| MS.gene56244.t1 | MTR_4g035905 | 48.466 | 163 | 82 | 1 | 25 | 187 | 36 | 196 | 2.88e-49 | 158 |
| MS.gene56244.t1 | MTR_4g035870 | 44.785 | 163 | 88 | 1 | 25 | 187 | 36 | 196 | 1.91e-43 | 144 |
| MS.gene56244.t1 | MTR_4g025550 | 41.584 | 202 | 102 | 6 | 1 | 187 | 1 | 201 | 4.36e-43 | 143 |
| MS.gene56244.t1 | MTR_4g035880 | 44.785 | 163 | 88 | 1 | 25 | 187 | 36 | 196 | 1.22e-42 | 141 |
| MS.gene56244.t1 | MTR_4g120825 | 38.835 | 206 | 104 | 5 | 1 | 186 | 1 | 204 | 9.64e-41 | 137 |
| MS.gene56244.t1 | MTR_4g120830 | 38.835 | 206 | 104 | 5 | 1 | 186 | 1 | 204 | 1.52e-40 | 136 |
| MS.gene56244.t1 | MTR_4g025590 | 42.105 | 171 | 90 | 4 | 25 | 187 | 3 | 172 | 2.17e-39 | 133 |
| MS.gene56244.t1 | MTR_8g104765 | 38.140 | 215 | 102 | 6 | 1 | 186 | 1 | 213 | 3.93e-39 | 133 |
| MS.gene56244.t1 | MTR_4g025620 | 39.683 | 189 | 105 | 4 | 7 | 187 | 14 | 201 | 6.53e-39 | 132 |
| MS.gene56244.t1 | MTR_4g025610 | 41.520 | 171 | 91 | 4 | 25 | 187 | 32 | 201 | 3.32e-38 | 130 |
| MS.gene56244.t1 | MTR_3g008760 | 37.569 | 181 | 101 | 3 | 13 | 182 | 45 | 224 | 4.33e-33 | 118 |
| MS.gene56244.t1 | MTR_7g108790 | 33.929 | 168 | 107 | 3 | 18 | 185 | 26 | 189 | 4.66e-31 | 112 |
| MS.gene56244.t1 | MTR_2g043560 | 40.854 | 164 | 81 | 4 | 24 | 182 | 33 | 185 | 1.45e-30 | 110 |
| MS.gene56244.t1 | MTR_4g124855 | 31.351 | 185 | 117 | 4 | 5 | 182 | 14 | 195 | 1.61e-24 | 95.5 |
| MS.gene56244.t1 | MTR_1g088540 | 31.507 | 146 | 96 | 2 | 40 | 185 | 1 | 142 | 1.58e-23 | 91.3 |
| MS.gene56244.t1 | MTR_4g035855 | 30.457 | 197 | 117 | 4 | 5 | 184 | 9 | 202 | 1.64e-21 | 87.4 |
| MS.gene56244.t1 | MTR_8g023310 | 31.646 | 158 | 101 | 3 | 26 | 179 | 68 | 222 | 3.24e-15 | 73.2 |
| MS.gene56244.t1 | MTR_1g008140 | 28.070 | 171 | 110 | 4 | 20 | 180 | 76 | 243 | 1.31e-14 | 71.6 |
| MS.gene56244.t1 | MTR_8g023150 | 31.138 | 167 | 102 | 6 | 21 | 182 | 72 | 230 | 1.08e-13 | 68.9 |
| MS.gene56244.t1 | MTR_7g112580 | 32.558 | 129 | 83 | 3 | 54 | 182 | 69 | 193 | 2.76e-13 | 67.8 |
| MS.gene56244.t1 | MTR_3g091380 | 27.647 | 170 | 103 | 3 | 22 | 180 | 74 | 234 | 6.37e-13 | 66.6 |
| MS.gene56244.t1 | MTR_1g083470 | 29.448 | 163 | 103 | 6 | 26 | 184 | 58 | 212 | 6.99e-11 | 60.5 |
| MS.gene56244.t1 | MTR_1g083500 | 29.448 | 163 | 103 | 6 | 26 | 184 | 58 | 212 | 6.99e-11 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene56244.t1 | AT5G62350 | 56.471 | 170 | 70 | 2 | 18 | 184 | 31 | 199 | 5.80e-68 | 206 |
| MS.gene56244.t1 | AT3G47380 | 46.939 | 196 | 91 | 4 | 5 | 187 | 7 | 202 | 1.68e-61 | 190 |
| MS.gene56244.t1 | AT4G25260 | 47.264 | 201 | 92 | 2 | 1 | 187 | 1 | 201 | 5.52e-61 | 188 |
| MS.gene56244.t1 | AT1G62770 | 49.485 | 194 | 89 | 4 | 3 | 187 | 6 | 199 | 1.06e-57 | 180 |
| MS.gene56244.t1 | AT4G12390 | 50.898 | 167 | 79 | 1 | 24 | 187 | 38 | 204 | 1.66e-51 | 164 |
| MS.gene56244.t1 | AT5G62360 | 42.331 | 163 | 91 | 2 | 25 | 187 | 43 | 202 | 3.89e-48 | 155 |
| MS.gene56244.t1 | AT5G20740 | 44.444 | 162 | 86 | 2 | 24 | 182 | 32 | 192 | 2.20e-40 | 136 |
| MS.gene56244.t1 | AT5G20740 | 44.444 | 162 | 86 | 2 | 24 | 182 | 66 | 226 | 5.77e-40 | 136 |
| MS.gene56244.t1 | AT1G14890 | 36.702 | 188 | 105 | 3 | 6 | 184 | 33 | 215 | 9.72e-39 | 132 |
| MS.gene56244.t1 | AT4G00080 | 38.693 | 199 | 104 | 8 | 1 | 182 | 1 | 198 | 2.33e-38 | 131 |
| MS.gene56244.t1 | AT1G62760 | 44.643 | 168 | 86 | 3 | 21 | 185 | 143 | 306 | 5.64e-37 | 130 |
| MS.gene56244.t1 | AT2G01610 | 36.702 | 188 | 105 | 3 | 11 | 184 | 30 | 217 | 1.77e-36 | 126 |
| MS.gene56244.t1 | AT4G25250 | 36.420 | 162 | 102 | 1 | 23 | 183 | 35 | 196 | 1.31e-35 | 124 |
| MS.gene56244.t1 | AT1G70720 | 38.860 | 193 | 102 | 5 | 6 | 186 | 8 | 196 | 6.73e-34 | 119 |
| MS.gene56244.t1 | AT1G70720 | 38.860 | 193 | 102 | 5 | 6 | 186 | 20 | 208 | 8.27e-34 | 119 |
| MS.gene56244.t1 | AT5G51520 | 39.024 | 164 | 91 | 3 | 25 | 180 | 37 | 199 | 1.18e-31 | 114 |
| MS.gene56244.t1 | AT1G23205 | 35.052 | 194 | 111 | 4 | 7 | 186 | 10 | 202 | 3.32e-31 | 112 |
| MS.gene56244.t1 | AT3G62820 | 31.016 | 187 | 115 | 6 | 5 | 184 | 11 | 190 | 7.77e-23 | 90.9 |
| MS.gene56244.t1 | AT5G62340 | 32.039 | 206 | 106 | 8 | 5 | 187 | 12 | 206 | 9.58e-22 | 88.2 |
| MS.gene56244.t1 | AT3G14310 | 30.769 | 156 | 106 | 2 | 26 | 180 | 59 | 213 | 9.32e-21 | 89.4 |
| MS.gene56244.t1 | AT1G53830 | 31.288 | 163 | 110 | 2 | 19 | 180 | 55 | 216 | 3.53e-19 | 84.7 |
| MS.gene56244.t1 | AT2G47670 | 28.750 | 160 | 111 | 2 | 25 | 184 | 48 | 204 | 1.54e-17 | 77.0 |
| MS.gene56244.t1 | AT5G53370 | 28.834 | 163 | 109 | 4 | 19 | 180 | 104 | 260 | 1.88e-17 | 79.7 |
| MS.gene56244.t1 | AT5G53370 | 28.834 | 163 | 109 | 4 | 19 | 180 | 68 | 224 | 2.03e-17 | 79.7 |
| MS.gene56244.t1 | AT3G49220 | 30.625 | 160 | 101 | 4 | 22 | 180 | 128 | 278 | 6.40e-17 | 77.8 |
| MS.gene56244.t1 | AT3G49220 | 30.625 | 160 | 101 | 4 | 22 | 180 | 83 | 233 | 8.37e-17 | 77.8 |
| MS.gene56244.t1 | AT3G49220 | 30.625 | 160 | 101 | 4 | 22 | 180 | 128 | 278 | 8.52e-17 | 77.8 |
| MS.gene56244.t1 | AT3G14300 | 25.556 | 180 | 124 | 4 | 13 | 184 | 258 | 435 | 2.57e-11 | 62.0 |
| MS.gene56244.t1 | AT3G14300 | 27.326 | 172 | 115 | 4 | 21 | 186 | 454 | 621 | 4.55e-11 | 61.2 |
| MS.gene56244.t1 | AT3G47670 | 29.268 | 164 | 100 | 6 | 26 | 182 | 113 | 267 | 5.24e-11 | 60.5 |
Find 29 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGCTAAGTGACAAAGCTGTT+TGG | 0.397059 | 3.3:+4462552 | None:intergenic |
| CCAATTGATGAGGGTCTTGT+TGG | 0.397480 | 3.3:+4462576 | None:intergenic |
| AACCATTCTTGATCTAATAG+AGG | 0.404018 | 3.3:+4462247 | None:intergenic |
| TTTGGTGGAAAAGCACTTGA+TGG | 0.453873 | 3.3:-4462281 | MS.gene56244:CDS |
| CCAACAAGACCCTCATCAAT+TGG | 0.458410 | 3.3:-4462576 | MS.gene56244:CDS |
| TGAAGAGCAGCATATTCTCT+TGG | 0.472801 | 3.3:+4462467 | None:intergenic |
| ACATGATGATTTGATGAAGT+TGG | 0.487396 | 3.3:+4462658 | None:intergenic |
| AGCACTTGTAGTGATGGATT+TGG | 0.492192 | 3.3:-4462299 | MS.gene56244:CDS |
| GTGATTCAACACAAAGTGTT+GGG | 0.511629 | 3.3:+4462621 | None:intergenic |
| ACAAAGTGCAAAAGTTTCAA+AGG | 0.523054 | 3.3:-4462497 | MS.gene56244:CDS |
| AGCCTCTATTAGATCAAGAA+TGG | 0.523764 | 3.3:-4462249 | MS.gene56244:CDS |
| TCAATATGCTACTAAGCACT+AGG | 0.528472 | 3.3:-4462183 | None:intergenic |
| GAGTTAAGAGAAGGAAAACA+AGG | 0.532043 | 3.3:+4462708 | None:intergenic |
| GTGTTGAAGTTGCAATAGAG+AGG | 0.542818 | 3.3:+4462684 | None:intergenic |
| GATGATTTGATGAAGTTGGT+TGG | 0.544420 | 3.3:+4462662 | None:intergenic |
| AGTGATTCAACACAAAGTGT+TGG | 0.553916 | 3.3:+4462620 | None:intergenic |
| TAGAGAGGAGAGTTAAGAGA+AGG | 0.561986 | 3.3:+4462699 | None:intergenic |
| CAATATGCTACTAAGCACTA+GGG | 0.562055 | 3.3:-4462182 | None:intergenic |
| CTTAAACTTTGCAAGATCCA+AGG | 0.575402 | 3.3:-4462386 | MS.gene56244:CDS |
| GATGAAAGCACTTGTAGTGA+TGG | 0.575810 | 3.3:-4462305 | MS.gene56244:CDS |
| GCCAACTGAAATCCTCACCT+TGG | 0.582120 | 3.3:+4462369 | None:intergenic |
| CTGTTTGGACCAATTGATGA+GGG | 0.590554 | 3.3:+4462567 | None:intergenic |
| TCCAAGGTGAGGATTTCAGT+TGG | 0.597576 | 3.3:-4462370 | MS.gene56244:CDS |
| TATAAGCAATGTTGAGACAT+GGG | 0.604136 | 3.3:-4462345 | MS.gene56244:CDS |
| ACTTGTAGTGATGGATTTGG+TGG | 0.605401 | 3.3:-4462296 | MS.gene56244:CDS |
| GCTGTTTGGACCAATTGATG+AGG | 0.620604 | 3.3:+4462566 | None:intergenic |
| AGTTAAGAGAAGGAAAACAA+GGG | 0.622054 | 3.3:+4462709 | None:intergenic |
| ACTTTGCAAGATCCAAGGTG+AGG | 0.631587 | 3.3:-4462381 | MS.gene56244:CDS |
| ATATAAGCAATGTTGAGACA+TGG | 0.650361 | 3.3:-4462346 | MS.gene56244:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GTTTAAGCTCTTTTAATGAA+CGG | + | chr3.3:4462510-4462529 | None:intergenic | 25.0% |
| AACCATTCTTGATCTAATAG+AGG | + | chr3.3:4462665-4462684 | None:intergenic | 30.0% | |
| ACAAAGTGCAAAAGTTTCAA+AGG | - | chr3.3:4462412-4462431 | MS.gene56244:CDS | 30.0% | |
| ACATGATGATTTGATGAAGT+TGG | + | chr3.3:4462254-4462273 | None:intergenic | 30.0% | |
| AGTTAAGAGAAGGAAAACAA+GGG | + | chr3.3:4462203-4462222 | None:intergenic | 30.0% | |
| ATATAAGCAATGTTGAGACA+TGG | - | chr3.3:4462563-4462582 | MS.gene56244:CDS | 30.0% | |
| TATAAGCAATGTTGAGACAT+GGG | - | chr3.3:4462564-4462583 | MS.gene56244:CDS | 30.0% | |
| ! | CTTTGTAACAAAGCTTTTTG+TGG | + | chr3.3:4462398-4462417 | None:intergenic | 30.0% |
| !!! | TTGTGGATTGAGTTTTGTTT+AGG | + | chr3.3:4462381-4462400 | None:intergenic | 30.0% |
| AGCCTCTATTAGATCAAGAA+TGG | - | chr3.3:4462660-4462679 | MS.gene56244:CDS | 35.0% | |
| AGTGATTCAACACAAAGTGT+TGG | + | chr3.3:4462292-4462311 | None:intergenic | 35.0% | |
| CTTAAACTTTGCAAGATCCA+AGG | - | chr3.3:4462523-4462542 | MS.gene56244:CDS | 35.0% | |
| GAGTTAAGAGAAGGAAAACA+AGG | + | chr3.3:4462204-4462223 | None:intergenic | 35.0% | |
| ! | GATGATTTGATGAAGTTGGT+TGG | + | chr3.3:4462250-4462269 | None:intergenic | 35.0% |
| ! | GTGATTCAACACAAAGTGTT+GGG | + | chr3.3:4462291-4462310 | None:intergenic | 35.0% |
| CTGTTTGGACCAATTGATGA+GGG | + | chr3.3:4462345-4462364 | None:intergenic | 40.0% | |
| GTGTTGAAGTTGCAATAGAG+AGG | + | chr3.3:4462228-4462247 | None:intergenic | 40.0% | |
| TAGAGAGGAGAGTTAAGAGA+AGG | + | chr3.3:4462213-4462232 | None:intergenic | 40.0% | |
| TGAAGAGCAGCATATTCTCT+TGG | + | chr3.3:4462445-4462464 | None:intergenic | 40.0% | |
| !! | ACTTGTAGTGATGGATTTGG+TGG | - | chr3.3:4462613-4462632 | MS.gene56244:CDS | 40.0% |
| !! | AGCACTTGTAGTGATGGATT+TGG | - | chr3.3:4462610-4462629 | MS.gene56244:CDS | 40.0% |
| !! | GATGAAAGCACTTGTAGTGA+TGG | - | chr3.3:4462604-4462623 | MS.gene56244:CDS | 40.0% |
| !! | TTTGGTGGAAAAGCACTTGA+TGG | - | chr3.3:4462628-4462647 | MS.gene56244:CDS | 40.0% |
| ACTTTGCAAGATCCAAGGTG+AGG | - | chr3.3:4462528-4462547 | MS.gene56244:CDS | 45.0% | |
| CCAACAAGACCCTCATCAAT+TGG | - | chr3.3:4462333-4462352 | MS.gene56244:CDS | 45.0% | |
| GCTGTTTGGACCAATTGATG+AGG | + | chr3.3:4462346-4462365 | None:intergenic | 45.0% | |
| GGCTAAGTGACAAAGCTGTT+TGG | + | chr3.3:4462360-4462379 | None:intergenic | 45.0% | |
| TCCAAGGTGAGGATTTCAGT+TGG | - | chr3.3:4462539-4462558 | MS.gene56244:CDS | 45.0% | |
| ! | CCAATTGATGAGGGTCTTGT+TGG | + | chr3.3:4462336-4462355 | None:intergenic | 45.0% |
| GCCAACTGAAATCCTCACCT+TGG | + | chr3.3:4462543-4462562 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 4462184 | 4462747 | 4462184 | ID=MS.gene56244 |
| chr3.3 | mRNA | 4462184 | 4462747 | 4462184 | ID=MS.gene56244.t1;Parent=MS.gene56244 |
| chr3.3 | exon | 4462184 | 4462747 | 4462184 | ID=MS.gene56244.t1.exon1;Parent=MS.gene56244.t1 |
| chr3.3 | CDS | 4462184 | 4462747 | 4462184 | ID=cds.MS.gene56244.t1;Parent=MS.gene56244.t1 |
| Gene Sequence |
| Protein sequence |
