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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0527790 | RHN59397.1 | 94.958 | 119 | 6 | 0 | 1 | 119 | 22 | 140 | 6.79e-75 | 228 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0527790 | A0A396I963 | 94.958 | 119 | 6 | 0 | 1 | 119 | 22 | 140 | 3.25e-75 | 228 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0017510 | Msa0527790 | 0.859801 | 3.216680e-63 | -8.615850e-47 |
| Msa0094850 | Msa0527790 | 0.808953 | 2.404196e-50 | -8.615850e-47 |
| Msa0110970 | Msa0527790 | 0.807107 | 5.940847e-50 | -8.615850e-47 |
| Msa0112750 | Msa0527790 | 0.809389 | 1.938381e-50 | -8.615850e-47 |
| Msa0140780 | Msa0527790 | 0.807717 | 4.410942e-50 | -8.615850e-47 |
| Msa0142200 | Msa0527790 | 0.816701 | 4.828660e-52 | -8.615850e-47 |
| Msa0157290 | Msa0527790 | 0.858455 | 8.142933e-63 | -8.615850e-47 |
| Msa0163980 | Msa0527790 | 0.813433 | 2.565786e-51 | -8.615850e-47 |
| Msa0169860 | Msa0527790 | 0.808955 | 2.401197e-50 | -8.615850e-47 |
| Msa0200260 | Msa0527790 | 0.817897 | 2.598094e-52 | -8.615850e-47 |
| Msa0212990 | Msa0527790 | 0.801336 | 9.449693e-49 | -8.615850e-47 |
| Msa0218810 | Msa0527790 | 0.814274 | 1.674474e-51 | -8.615850e-47 |
| Msa0221290 | Msa0527790 | 0.803503 | 3.379327e-49 | -8.615850e-47 |
| Msa0227470 | Msa0527790 | 0.817048 | 4.035160e-52 | -8.615850e-47 |
| Msa0392420 | Msa0527790 | 0.805653 | 1.202999e-49 | -8.615850e-47 |
| Msa0392510 | Msa0527790 | 0.800831 | 1.198507e-48 | -8.615850e-47 |
| Msa0393080 | Msa0527790 | 0.801814 | 7.540365e-49 | -8.615850e-47 |
| Msa0395790 | Msa0527790 | 0.808679 | 2.751586e-50 | -8.615850e-47 |
| Msa0407780 | Msa0527790 | 0.812228 | 4.712041e-51 | -8.615850e-47 |
| Msa0407920 | Msa0527790 | 0.808494 | 3.012737e-50 | -8.615850e-47 |
| Msa0410650 | Msa0527790 | 0.828357 | 9.401336e-55 | -8.615850e-47 |
| Msa0415320 | Msa0527790 | 0.802272 | 6.070289e-49 | -8.615850e-47 |
| Msa0417880 | Msa0527790 | 0.805467 | 1.316019e-49 | -8.615850e-47 |
| Msa0452920 | Msa0527790 | 0.824885 | 6.334732e-54 | -8.615850e-47 |
| Msa0464680 | Msa0527790 | 0.800713 | 1.266529e-48 | -8.615850e-47 |
| Msa0243100 | Msa0527790 | 0.841839 | 3.725224e-58 | -8.615850e-47 |
| Msa0244860 | Msa0527790 | 0.804172 | 2.454144e-49 | -8.615850e-47 |
| Msa0258310 | Msa0527790 | 0.812861 | 3.425245e-51 | -8.615850e-47 |
| Msa0259500 | Msa0527790 | 0.807161 | 5.785936e-50 | -8.615850e-47 |
| Msa0261340 | Msa0527790 | 0.838917 | 2.162162e-57 | -8.615850e-47 |
| Msa0283450 | Msa0527790 | 0.811463 | 6.912596e-51 | -8.615850e-47 |
| Msa0287650 | Msa0527790 | 0.834702 | 2.572940e-56 | -8.615850e-47 |
| Msa0297790 | Msa0527790 | 0.810952 | 8.926150e-51 | -8.615850e-47 |
| Msa0300270 | Msa0527790 | 0.804417 | 2.181547e-49 | -8.615850e-47 |
| Msa0305700 | Msa0527790 | 0.804819 | 1.798719e-49 | -8.615850e-47 |
| Msa0322690 | Msa0527790 | 0.819810 | 9.550366e-53 | -8.615850e-47 |
| Msa0332000 | Msa0527790 | 0.808059 | 3.730903e-50 | -8.615850e-47 |
| Msa0341540 | Msa0527790 | 0.801721 | 7.876710e-49 | -8.615850e-47 |
| Msa0357340 | Msa0527790 | 0.816615 | 5.046639e-52 | -8.615850e-47 |
| Msa0363070 | Msa0527790 | 0.803653 | 3.146025e-49 | -8.615850e-47 |
| Msa0484780 | Msa0527790 | 0.806447 | 8.190756e-50 | -8.615850e-47 |
| Msa0487570 | Msa0527790 | 0.801273 | 9.734470e-49 | -8.615850e-47 |
| Msa0487630 | Msa0527790 | 0.802592 | 5.215472e-49 | -8.615850e-47 |
| Msa0498060 | Msa0527790 | 0.812642 | 3.826589e-51 | -8.615850e-47 |
| Msa0507680 | Msa0527790 | 0.828157 | 1.050562e-54 | -8.615850e-47 |
| Msa0512900 | Msa0527790 | 0.805199 | 1.498214e-49 | -8.615850e-47 |
| Msa0513160 | Msa0527790 | 0.804897 | 1.732896e-49 | -8.615850e-47 |
| Msa0523460 | Msa0527790 | 0.800969 | 1.123020e-48 | -8.615850e-47 |
| Msa0527790 | Msa0546680 | 0.801326 | 9.494425e-49 | -8.615850e-47 |
| Msa0527790 | Msa0571140 | 0.808399 | 3.157041e-50 | -8.615850e-47 |
| Msa0527790 | Msa0602240 | 0.800355 | 1.498685e-48 | -8.615850e-47 |
| Msa0527790 | Msa0602250 | 0.802960 | 4.377358e-49 | -8.615850e-47 |
| Msa0527790 | Msa0626510 | 0.809963 | 1.459008e-50 | -8.615850e-47 |
| Msa0527790 | Msa0627450 | 0.800221 | 1.595656e-48 | -8.615850e-47 |
| Msa0527790 | Msa0639430 | 0.810631 | 1.046912e-50 | -8.615850e-47 |
| Msa0527790 | Msa0657970 | 0.804736 | 1.872281e-49 | -8.615850e-47 |
| Msa0527790 | Msa0662240 | 0.826044 | 3.366235e-54 | -8.615850e-47 |
| Msa0527790 | Msa0664910 | 0.817832 | 2.687803e-52 | -8.615850e-47 |
| Msa0527790 | Msa0682050 | 0.800457 | 1.428271e-48 | -8.615850e-47 |
| Msa0527790 | Msa0682330 | 0.805536 | 1.273455e-49 | -8.615850e-47 |
| Msa0527790 | Msa0683510 | 0.802233 | 6.182192e-49 | -8.615850e-47 |
| Msa0527790 | Msa0727710 | 0.820151 | 7.980409e-53 | -8.615850e-47 |
| Msa0527790 | Msa0739730 | 0.826911 | 2.091284e-54 | -8.615850e-47 |
| Msa0527790 | Msa0767300 | 0.806063 | 9.864373e-50 | -8.615850e-47 |
| Msa0527790 | Msa0816710 | 0.807560 | 4.762762e-50 | -8.615850e-47 |
| Msa0527790 | Msa0822870 | 0.812111 | 4.997923e-51 | -8.615850e-47 |
| Msa0527790 | Msa0824660 | 0.829087 | 6.263977e-55 | -8.615850e-47 |
| Msa0527790 | Msa0828560 | 0.829805 | 4.192296e-55 | -8.615850e-47 |
| Msa0527790 | Msa0858840 | 0.824423 | 8.139484e-54 | -8.615850e-47 |
| Msa0527790 | Msa0861510 | 0.816646 | 4.966647e-52 | -8.615850e-47 |
| Msa0527790 | Msa0861530 | 0.808372 | 3.198596e-50 | -8.615850e-47 |
| Msa0527790 | Msa0861600 | 0.820623 | 6.219419e-53 | -8.615850e-47 |
| Msa0527790 | Msa0861870 | 0.802402 | 5.706639e-49 | -8.615850e-47 |
| Msa0527790 | Msa0863930 | 0.802313 | 5.952945e-49 | -8.615850e-47 |
| Msa0527790 | Msa0866520 | 0.801912 | 7.196989e-49 | -8.615850e-47 |
| Msa0527790 | Msa0876560 | 0.801355 | 9.364321e-49 | -8.615850e-47 |
| Msa0527790 | Msa0880140 | 0.858353 | 8.732899e-63 | -8.615850e-47 |
| Msa0527790 | Msa0896410 | 0.807453 | 5.018811e-50 | -8.615850e-47 |
| Msa0527790 | Msa0909120 | 0.800125 | 1.668530e-48 | -8.615850e-47 |
| Msa0527790 | Msa0909140 | 0.806529 | 7.869853e-50 | -8.615850e-47 |
| Msa0527790 | Msa0922410 | 0.804046 | 2.606512e-49 | -8.615850e-47 |
| Msa0527790 | Msa0923010 | 0.804692 | 1.911898e-49 | -8.615850e-47 |
| Msa0527790 | Msa0936410 | 0.800357 | 1.496958e-48 | -8.615850e-47 |
| Msa0527790 | Msa0961690 | 0.822300 | 2.550679e-53 | -8.615850e-47 |
| Msa0527790 | Msa0964840 | 0.805643 | 1.209079e-49 | -8.615850e-47 |
| Msa0527790 | Msa1007270 | 0.809924 | 1.487660e-50 | -8.615850e-47 |
| Msa0527790 | Msa1019430 | 0.807703 | 4.440773e-50 | -8.615850e-47 |
| Msa0527790 | Msa1019470 | 0.808189 | 3.500306e-50 | -8.615850e-47 |
| Msa0527790 | Msa1031930 | 0.830967 | 2.179061e-55 | -8.615850e-47 |
| Msa0527790 | Msa1048920 | 0.804326 | 2.279159e-49 | -8.615850e-47 |
| Msa0527790 | Msa1082500 | 0.810618 | 1.053944e-50 | -8.615850e-47 |
| Msa0527790 | Msa1085200 | 0.828834 | 7.212995e-55 | -8.615850e-47 |
| Msa0527790 | Msa1108160 | 0.818830 | 1.597483e-52 | -8.615850e-47 |
| Msa0527790 | Msa1151910 | 0.804249 | 2.364990e-49 | -8.615850e-47 |
| Msa0527790 | Msa1161580 | 0.814269 | 1.678933e-51 | -8.615850e-47 |
| Msa0527790 | Msa1168160 | 0.809478 | 1.855419e-50 | -8.615850e-47 |
| Msa0527790 | Msa1172450 | 0.825938 | 3.567839e-54 | -8.615850e-47 |
| Msa0527790 | Msa1173100 | 0.801993 | 6.926677e-49 | -8.615850e-47 |
| Msa0527790 | Msa1228200 | 0.801142 | 1.035210e-48 | -8.615850e-47 |
| Msa0527790 | Msa1239920 | 0.810395 | 1.177597e-50 | -8.615850e-47 |
| Msa0527790 | Msa1242220 | 0.804546 | 2.051366e-49 | -8.615850e-47 |
| Msa0527790 | Msa1283840 | 0.801772 | 7.690392e-49 | -8.615850e-47 |
| Msa0527790 | Msa1283860 | 0.818743 | 1.671894e-52 | -8.615850e-47 |
| Msa0527790 | Msa1284260 | 0.804049 | 2.602704e-49 | -8.615850e-47 |
| Msa0527790 | Msa1322860 | 0.814590 | 1.425856e-51 | -8.615850e-47 |
| Msa0527790 | Msa1322890 | 0.813800 | 2.130589e-51 | -8.615850e-47 |
| Msa0527790 | Msa1324500 | 0.806424 | 8.280346e-50 | -8.615850e-47 |
| Msa0527790 | Msa1327050 | 0.812019 | 5.233382e-51 | -8.615850e-47 |
| Msa0527790 | Msa1353470 | 0.803192 | 3.919637e-49 | -8.615850e-47 |
| Msa0527790 | Msa1374550 | 0.818971 | 1.483760e-52 | -8.615850e-47 |
| Msa0527790 | Msa1408090 | 0.887497 | 1.355248e-72 | -8.615850e-47 |
| Msa0527790 | Msa1409870 | 0.812163 | 4.869232e-51 | -8.615850e-47 |
| Msa0527790 | Msa1410210 | 0.813574 | 2.389310e-51 | -8.615850e-47 |
| Msa0527790 | Msa1438250 | 0.858770 | 6.559097e-63 | -8.615850e-47 |
| Msa0527790 | Msa1445190 | 0.807923 | 3.987971e-50 | -8.615850e-47 |
| Msa0527790 | Msa1452120 | 0.805742 | 1.152713e-49 | -8.615850e-47 |
| Msa0527790 | Msa1466540 | 0.822148 | 2.765347e-53 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0527790 | MtrunA17_Chr4g0012851 | 94.958 | 119 | 6 | 0 | 1 | 119 | 22 | 140 | 6.25e-79 | 228 |
| Msa0527790 | MtrunA17_Chr7g0244911 | 49.593 | 123 | 52 | 5 | 4 | 119 | 1 | 120 | 8.56e-24 | 88.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATCAGAACCAAGATTTCTA+AGG | 0.315908 | 4_1:-442178 | Msa0527790:CDS |
| GACACTGACCTTAGAAATCT+TGG | 0.321072 | 4_1:+442170 | None:intergenic |
| GCAATGATTCGAAAGAGATT+TGG | 0.327865 | 4_1:-442284 | Msa0527790:CDS |
| TCAGAATCCACTCTCTTTCA+AGG | 0.337545 | 4_1:-441985 | Msa0527790:CDS |
| GGAAGACGTTGTCGCGGTTC+CGG | 0.343136 | 4_1:-442086 | Msa0527790:CDS |
| CTTAAACACCTTTCGAAAAC+CGG | 0.347709 | 4_1:+442067 | None:intergenic |
| AAATTGTTCAAACCATTTCT+TGG | 0.349128 | 4_1:-442044 | Msa0527790:CDS |
| CAAAGGATAGCCTCTCAAAT+TGG | 0.423678 | 4_1:+442237 | None:intergenic |
| TGAGTGACAAGAGGAACTGC+TGG | 0.485543 | 4_1:+442122 | None:intergenic |
| AGCAGTTCCTCTTGTCACTC+AGG | 0.488848 | 4_1:-442120 | Msa0527790:CDS |
| TTTGTTGAGTTGAGACTCAA+AGG | 0.523465 | 4_1:+442220 | None:intergenic |
| TGATAAGCTTCTTGATAACA+TGG | 0.525013 | 4_1:+442196 | None:intergenic |
| CTAAATGCCTTGAAAGAGAG+TGG | 0.545008 | 4_1:+441978 | None:intergenic |
| GTCACTCAGGAGGCGAAGCA+AGG | 0.560619 | 4_1:-442107 | Msa0527790:CDS |
| AGGCATTTAGTAGATCATTG+AGG | 0.589944 | 4_1:-441965 | Msa0527790:CDS |
| TTCGCCTCCTGAGTGACAAG+AGG | 0.607306 | 4_1:+442113 | None:intergenic |
| ATTTGTTAGACCAATTTGAG+AGG | 0.623039 | 4_1:-442247 | Msa0527790:CDS |
| AGTTCCTCTTGTCACTCAGG+AGG | 0.660481 | 4_1:-442117 | Msa0527790:CDS |
| AAGCAAGGAAGACGTTGTCG+CGG | 0.700615 | 4_1:-442092 | Msa0527790:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAATTGTTCAAACCATTTCT+TGG | - | chr4_1:442211-442230 | Msa0527790:CDS | 25.0% |
| ! | ATTTGTTAGACCAATTTGAG+AGG | - | chr4_1:442008-442027 | Msa0527790:CDS | 30.0% |
| ! | TGATAAGCTTCTTGATAACA+TGG | + | chr4_1:442062-442081 | None:intergenic | 30.0% |
| TATCAGAACCAAGATTTCTA+AGG | - | chr4_1:442077-442096 | Msa0527790:CDS | 30.0% | |
| !!! | CCATTTTTTCTACCAAGAAA+TGG | + | chr4_1:442226-442245 | None:intergenic | 30.0% |
| CCATTTCTTGGTAGAAAAAA+TGG | - | chr4_1:442223-442242 | Msa0527790:CDS | 30.0% | |
| GCAATGATTCGAAAGAGATT+TGG | - | chr4_1:441971-441990 | Msa0527790:CDS | 35.0% | |
| !! | TTTGTTGAGTTGAGACTCAA+AGG | + | chr4_1:442038-442057 | None:intergenic | 35.0% |
| CTTAAACACCTTTCGAAAAC+CGG | + | chr4_1:442191-442210 | None:intergenic | 35.0% | |
| TTGGTAGAAAAAATGGAGCA+AGG | - | chr4_1:442230-442249 | Msa0527790:CDS | 35.0% | |
| AGGCATTTAGTAGATCATTG+AGG | - | chr4_1:442290-442309 | Msa0527790:CDS | 35.0% | |
| CAAAGGATAGCCTCTCAAAT+TGG | + | chr4_1:442021-442040 | None:intergenic | 40.0% | |
| GACACTGACCTTAGAAATCT+TGG | + | chr4_1:442088-442107 | None:intergenic | 40.0% | |
| TCAGAATCCACTCTCTTTCA+AGG | - | chr4_1:442270-442289 | Msa0527790:CDS | 40.0% | |
| CTAAATGCCTTGAAAGAGAG+TGG | + | chr4_1:442280-442299 | None:intergenic | 40.0% | |
| TGAGTGACAAGAGGAACTGC+TGG | + | chr4_1:442136-442155 | None:intergenic | 50.0% | |
| AGCAGTTCCTCTTGTCACTC+AGG | - | chr4_1:442135-442154 | Msa0527790:CDS | 50.0% | |
| AGTTCCTCTTGTCACTCAGG+AGG | - | chr4_1:442138-442157 | Msa0527790:CDS | 50.0% | |
| AAGCAAGGAAGACGTTGTCG+CGG | - | chr4_1:442163-442182 | Msa0527790:CDS | 50.0% | |
| TTCGCCTCCTGAGTGACAAG+AGG | + | chr4_1:442145-442164 | None:intergenic | 55.0% | |
| ! | TCGCGGTTCCGGTTTTCGAA+AGG | - | chr4_1:442180-442199 | Msa0527790:CDS | 55.0% |
| GTCACTCAGGAGGCGAAGCA+AGG | - | chr4_1:442148-442167 | Msa0527790:CDS | 60.0% | |
| GGAAGACGTTGTCGCGGTTC+CGG | - | chr4_1:442169-442188 | Msa0527790:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 441959 | 442318 | 441959 | ID=Msa0527790;Name=Msa0527790 |
| chr4_1 | mRNA | 441959 | 442318 | 441959 | ID=Msa0527790-mRNA-1;Parent=Msa0527790;Name=Msa0527790-mRNA-1;_AED=0.02;_eAED=0.03;_QI=0|-1|0|1|-1|1|1|0|119 |
| chr4_1 | exon | 441959 | 442318 | 441959 | ID=Msa0527790-mRNA-1:exon:48;Parent=Msa0527790-mRNA-1 |
| chr4_1 | CDS | 441959 | 442318 | 441959 | ID=Msa0527790-mRNA-1:cds;Parent=Msa0527790-mRNA-1 |
| Gene Sequence |
| Protein sequence |
