Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0170870 | sp|Q9FJK3|AGL80_ARATH | 36.774 | 155 | 56 | 3 | 1 | 115 | 1 | 153 | 1.87e-15 | 73.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0170870 | A0A072VXU8 | 70.701 | 157 | 11 | 1 | 1 | 122 | 1 | 157 | 2.80e-57 | 184 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0170870 | TF | MADS-M-type |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0170870 | MtrunA17_Chr1g0188651 | 70.701 | 157 | 11 | 1 | 1 | 122 | 1 | 157 | 5.39e-61 | 184 |
| Msa0170870 | MtrunA17_Chr1g0188661 | 57.233 | 159 | 31 | 2 | 1 | 122 | 1 | 159 | 4.16e-48 | 151 |
| Msa0170870 | MtrunA17_Chr1g0188681 | 54.777 | 157 | 34 | 2 | 1 | 120 | 1 | 157 | 8.70e-48 | 150 |
| Msa0170870 | MtrunA17_Chr4g0012761 | 57.862 | 159 | 30 | 2 | 1 | 122 | 1 | 159 | 5.09e-47 | 148 |
| Msa0170870 | MtrunA17_Chr5g0420351 | 55.484 | 155 | 32 | 2 | 1 | 118 | 1 | 155 | 1.00e-45 | 145 |
| Msa0170870 | MtrunA17_Chr7g0218151 | 55.975 | 159 | 33 | 2 | 1 | 122 | 1 | 159 | 9.04e-45 | 143 |
| Msa0170870 | MtrunA17_Chr1g0193311 | 60.000 | 155 | 25 | 2 | 1 | 118 | 1 | 155 | 2.11e-44 | 142 |
| Msa0170870 | MtrunA17_Chr1g0197261 | 42.949 | 156 | 52 | 2 | 1 | 119 | 1 | 156 | 6.31e-32 | 110 |
| Msa0170870 | MtrunA17_Chr1g0197461 | 44.156 | 154 | 49 | 2 | 2 | 118 | 1 | 154 | 1.03e-31 | 109 |
| Msa0170870 | MtrunA17_Chr1g0197321 | 42.038 | 157 | 53 | 2 | 1 | 119 | 1 | 157 | 5.41e-31 | 108 |
| Msa0170870 | MtrunA17_Chr5g0432691 | 33.333 | 156 | 66 | 3 | 1 | 118 | 1 | 156 | 2.13e-23 | 88.6 |
| Msa0170870 | MtrunA17_Chr3g0107381 | 33.987 | 153 | 63 | 2 | 1 | 115 | 1 | 153 | 3.88e-21 | 84.3 |
| Msa0170870 | MtrunA17_Chr4g0014321 | 30.519 | 154 | 68 | 2 | 1 | 115 | 1 | 154 | 1.63e-20 | 82.8 |
| Msa0170870 | MtrunA17_Chr3g0110131 | 35.897 | 156 | 62 | 2 | 1 | 118 | 1 | 156 | 1.26e-17 | 75.5 |
| Msa0170870 | MtrunA17_Chr4g0013041 | 31.013 | 158 | 62 | 4 | 1 | 116 | 1 | 153 | 2.53e-17 | 73.9 |
| Msa0170870 | MtrunA17_Chr2g0283941 | 30.519 | 154 | 68 | 2 | 1 | 115 | 1 | 154 | 5.62e-17 | 73.9 |
| Msa0170870 | MtrunA17_Chr8g0351751 | 57.143 | 56 | 24 | 0 | 1 | 56 | 1 | 56 | 6.00e-17 | 73.9 |
| Msa0170870 | MtrunA17_Chr3g0107331 | 34.177 | 158 | 66 | 2 | 2 | 121 | 1 | 158 | 1.20e-16 | 71.2 |
| Msa0170870 | MtrunA17_Chr3g0107461 | 29.814 | 161 | 74 | 3 | 1 | 122 | 1 | 161 | 5.91e-16 | 69.7 |
| Msa0170870 | MtrunA17_Chr4g0014031 | 31.677 | 161 | 71 | 2 | 1 | 122 | 1 | 161 | 1.27e-14 | 67.4 |
| Msa0170870 | MtrunA17_Chr3g0107351 | 32.704 | 159 | 69 | 2 | 2 | 122 | 1 | 159 | 5.94e-14 | 64.3 |
| Msa0170870 | MtrunA17_Chr3g0107361 | 31.447 | 159 | 71 | 2 | 2 | 122 | 1 | 159 | 1.58e-13 | 63.2 |
| Msa0170870 | MtrunA17_Chr4g0014121 | 33.125 | 160 | 68 | 2 | 1 | 121 | 29 | 188 | 3.53e-13 | 62.8 |
| Msa0170870 | MtrunA17_Chr4g0008701 | 34.167 | 120 | 66 | 3 | 3 | 117 | 6 | 117 | 2.96e-12 | 62.0 |
| Msa0170870 | MtrunA17_Chr4g0014131 | 31.677 | 161 | 71 | 2 | 1 | 122 | 1 | 161 | 3.84e-12 | 60.8 |
| Msa0170870 | MtrunA17_Chr7g0267601 | 32.520 | 123 | 70 | 3 | 3 | 120 | 6 | 120 | 9.81e-12 | 60.5 |
| Msa0170870 | MtrunA17_Chr3g0107341 | 54.545 | 55 | 25 | 0 | 2 | 56 | 1 | 55 | 1.06e-11 | 58.5 |
| Msa0170870 | MtrunA17_Chr2g0296861 | 51.020 | 49 | 24 | 0 | 1 | 49 | 1 | 49 | 3.02e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0170870 | AT3G05860.2 | 36.567 | 134 | 71 | 5 | 1 | 122 | 1 | 132 | 4.77e-20 | 81.6 |
| Msa0170870 | AT3G05860.3 | 37.956 | 137 | 65 | 6 | 1 | 122 | 1 | 132 | 9.40e-20 | 81.6 |
| Msa0170870 | AT3G05860.1 | 36.567 | 134 | 71 | 5 | 1 | 122 | 1 | 132 | 1.32e-19 | 81.6 |
| Msa0170870 | AT5G48670.1 | 36.774 | 155 | 56 | 3 | 1 | 115 | 1 | 153 | 1.90e-16 | 73.6 |
| Msa0170870 | AT1G31630.1 | 29.487 | 156 | 69 | 4 | 2 | 118 | 1 | 154 | 1.02e-15 | 72.0 |
| Msa0170870 | AT5G27960.1 | 37.838 | 111 | 33 | 2 | 4 | 78 | 2 | 112 | 7.70e-15 | 69.3 |
| Msa0170870 | AT5G26650.1 | 33.766 | 154 | 56 | 5 | 4 | 115 | 2 | 151 | 1.05e-14 | 69.3 |
| Msa0170870 | AT1G65330.1 | 30.405 | 148 | 65 | 2 | 2 | 111 | 1 | 148 | 1.91e-14 | 67.8 |
| Msa0170870 | AT1G65300.1 | 28.289 | 152 | 71 | 2 | 2 | 115 | 1 | 152 | 3.25e-14 | 67.4 |
| Msa0170870 | AT1G31640.1 | 33.929 | 112 | 39 | 1 | 2 | 78 | 1 | 112 | 1.23e-13 | 66.2 |
| Msa0170870 | AT1G22590.2 | 41.975 | 81 | 44 | 1 | 1 | 78 | 1 | 81 | 1.70e-13 | 63.5 |
| Msa0170870 | AT5G26580.1 | 39.216 | 102 | 38 | 3 | 1 | 80 | 1 | 100 | 1.72e-13 | 65.9 |
| Msa0170870 | AT2G28700.1 | 35.106 | 94 | 48 | 2 | 1 | 81 | 1 | 94 | 3.68e-12 | 62.0 |
| Msa0170870 | AT5G26630.1 | 30.065 | 153 | 69 | 2 | 1 | 115 | 1 | 153 | 5.59e-12 | 60.5 |
Find 17 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAGCTAAAGATTCGTATAAT+TGG | 0.305787 | 1_4:-55286317 | Msa0170870:CDS |
| CTCCTTTCTTCTTGAAGCAT+TGG | 0.353516 | 1_4:+55286612 | None:intergenic |
| TCTGAAACAGTCAAATCATC+TGG | 0.455315 | 1_4:+55286278 | None:intergenic |
| CTCCAATGCTTCAAGAAGAA+AGG | 0.468651 | 1_4:-55286614 | Msa0170870:CDS |
| TACATTGCAAGGCCATGGTT+AGG | 0.498230 | 1_4:-55286660 | None:intergenic |
| CAAGGCCATGGTTAGGAAGA+AGG | 0.504438 | 1_4:-55286653 | None:intergenic |
| GACATACAGAAAGAGAAAGA+AGG | 0.512113 | 1_4:-55286590 | Msa0170870:CDS |
| AGAGAACTCACTATTCTTTG+TGG | 0.526508 | 1_4:-55286550 | Msa0170870:CDS |
| ACATACAGAAAGAGAAAGAA+GGG | 0.541098 | 1_4:-55286589 | Msa0170870:CDS |
| TGCAGCAGATTACTAAAGCT+AGG | 0.546331 | 1_4:-55286379 | Msa0170870:intron |
| AAACAGTCAAATCATCTGGC+AGG | 0.548613 | 1_4:+55286282 | None:intergenic |
| AGGATCGGAAATTATAGCAC+AGG | 0.559456 | 1_4:+55286519 | None:intergenic |
| TCGGAAATTATAGCACAGGC+TGG | 0.570119 | 1_4:+55286523 | None:intergenic |
| AAAGAAGGGTATCATCAAGA+AGG | 0.577075 | 1_4:-55286575 | Msa0170870:CDS |
| GCAGCAGATTACTAAAGCTA+GGG | 0.592338 | 1_4:-55286378 | Msa0170870:intron |
| CTTCACCTTCTTCCTAACCA+TGG | 0.619990 | 1_4:+55286648 | None:intergenic |
| GAAACAAGACAATCGTGAGA+AGG | 0.628912 | 1_4:-55286339 | Msa0170870:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GATAATTGAGAAAAATATGA+AGG | - | chr1_4:55286605-55286624 | Msa0170870:CDS | 20.0% |
| !!! | TGTTTTAGAATCAAAAGGAT+CGG | + | chr1_4:55286341-55286360 | None:intergenic | 25.0% |
| ACATACAGAAAGAGAAAGAA+GGG | - | chr1_4:55286253-55286272 | Msa0170870:CDS | 30.0% | |
| !!! | TCCTTTTGATTCTAAAACAG+AGG | - | chr1_4:55286342-55286361 | Msa0170870:CDS | 30.0% |
| !!! | ACCTCTGTTTTAGAATCAAA+AGG | + | chr1_4:55286346-55286365 | None:intergenic | 30.0% |
| GAGCTAAAGATTCGTATAAT+TGG | - | chr1_4:55286525-55286544 | Msa0170870:CDS | 30.0% | |
| GACATACAGAAAGAGAAAGA+AGG | - | chr1_4:55286252-55286271 | Msa0170870:CDS | 35.0% | |
| !! | AAAGAAGGGTATCATCAAGA+AGG | - | chr1_4:55286267-55286286 | Msa0170870:CDS | 35.0% |
| AGAGAACTCACTATTCTTTG+TGG | - | chr1_4:55286292-55286311 | Msa0170870:CDS | 35.0% | |
| !! | TTGATTCTAAAACAGAGGTG+TGG | - | chr1_4:55286347-55286366 | Msa0170870:CDS | 35.0% |
| ! | TGTTTTGCTTCCTTCAGATT+TGG | + | chr1_4:55286373-55286392 | None:intergenic | 35.0% |
| ! | TCTGAAACAGTCAAATCATC+TGG | + | chr1_4:55286567-55286586 | None:intergenic | 35.0% |
| CTCCAATGCTTCAAGAAGAA+AGG | - | chr1_4:55286228-55286247 | Msa0170870:CDS | 40.0% | |
| CTCCTTTCTTCTTGAAGCAT+TGG | + | chr1_4:55286233-55286252 | None:intergenic | 40.0% | |
| AGGATCGGAAATTATAGCAC+AGG | + | chr1_4:55286326-55286345 | None:intergenic | 40.0% | |
| GAAGCAAAACAGTGATTGAG+AGG | - | chr1_4:55286382-55286401 | Msa0170870:intron | 40.0% | |
| GCTGCAAGAGAAAAGTTTCT+TGG | + | chr1_4:55286449-55286468 | None:intergenic | 40.0% | |
| TGCAGCAGATTACTAAAGCT+AGG | - | chr1_4:55286463-55286482 | Msa0170870:intron | 40.0% | |
| GCAGCAGATTACTAAAGCTA+GGG | - | chr1_4:55286464-55286483 | Msa0170870:intron | 40.0% | |
| GAAACAAGACAATCGTGAGA+AGG | - | chr1_4:55286503-55286522 | Msa0170870:CDS | 40.0% | |
| AAACAGTCAAATCATCTGGC+AGG | + | chr1_4:55286563-55286582 | None:intergenic | 40.0% | |
| TCGGAAATTATAGCACAGGC+TGG | + | chr1_4:55286322-55286341 | None:intergenic | 45.0% | |
| ! | AGAGGTGTGGCCAAATCTGA+AGG | - | chr1_4:55286360-55286379 | Msa0170870:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 55286196 | 55286668 | 55286196 | ID=Msa0170870;Name=Msa0170870 |
| chr1_4 | mRNA | 55286196 | 55286668 | 55286196 | ID=Msa0170870-mRNA-1;Parent=Msa0170870;Name=Msa0170870-mRNA-1;_AED=0.30;_eAED=0.30;_QI=0|0|0|1|1|1|2|0|122 |
| chr1_4 | exon | 55286501 | 55286668 | 55286501 | ID=Msa0170870-mRNA-1:exon:16541;Parent=Msa0170870-mRNA-1 |
| chr1_4 | exon | 55286196 | 55286396 | 55286196 | ID=Msa0170870-mRNA-1:exon:16540;Parent=Msa0170870-mRNA-1 |
| chr1_4 | CDS | 55286501 | 55286668 | 55286501 | ID=Msa0170870-mRNA-1:cds;Parent=Msa0170870-mRNA-1 |
| chr1_4 | CDS | 55286196 | 55286396 | 55286196 | ID=Msa0170870-mRNA-1:cds;Parent=Msa0170870-mRNA-1 |
| Gene Sequence |
| Protein sequence |
