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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0828490 | RHN66613.1 | 81.347 | 193 | 29 | 4 | 1 | 187 | 1 | 192 | 2.85e-96 | 287 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0828490 | sp|Q9FKK2|AGL62_ARATH | 31.757 | 148 | 92 | 4 | 36 | 177 | 26 | 170 | 2.36e-15 | 75.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0828490 | A0A396IQ06 | 81.347 | 193 | 29 | 4 | 1 | 187 | 1 | 192 | 1.36e-96 | 287 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0828490 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0828490 | MtrunA17_Chr3g0093131 | 81.347 | 193 | 29 | 4 | 1 | 187 | 1 | 192 | 2.62e-100 | 287 |
| Msa0828490 | MtrunA17_Chr2g0302091 | 61.081 | 185 | 64 | 6 | 1 | 181 | 16 | 196 | 8.87e-59 | 182 |
| Msa0828490 | MtrunA17_Chr8g0345001 | 50.857 | 175 | 73 | 6 | 15 | 180 | 10 | 180 | 6.68e-47 | 152 |
| Msa0828490 | MtrunA17_Chr2g0333981 | 36.196 | 163 | 96 | 3 | 12 | 168 | 1 | 161 | 2.06e-24 | 94.0 |
| Msa0828490 | MtrunA17_Chr4g0018951 | 36.842 | 133 | 74 | 2 | 36 | 168 | 31 | 153 | 3.91e-22 | 87.8 |
| Msa0828490 | MtrunA17_Chr8g0379021 | 35.135 | 148 | 88 | 3 | 24 | 165 | 13 | 158 | 9.85e-20 | 82.0 |
| Msa0828490 | MtrunA17_Chr5g0422421 | 36.129 | 155 | 87 | 4 | 21 | 165 | 7 | 159 | 5.53e-18 | 78.6 |
| Msa0828490 | MtrunA17_Chr4g0071601 | 34.507 | 142 | 83 | 3 | 36 | 168 | 31 | 171 | 8.21e-18 | 77.0 |
| Msa0828490 | MtrunA17_Chr3g0099421 | 32.911 | 158 | 88 | 3 | 21 | 165 | 32 | 184 | 7.06e-16 | 73.2 |
| Msa0828490 | MtrunA17_Chr8g0355091 | 30.909 | 165 | 95 | 4 | 14 | 165 | 1 | 159 | 7.29e-16 | 72.8 |
| Msa0828490 | MtrunA17_Chr1g0149391 | 32.298 | 161 | 85 | 5 | 21 | 165 | 7 | 159 | 1.00e-15 | 72.4 |
| Msa0828490 | MtrunA17_Chr1g0206991 | 32.919 | 161 | 84 | 5 | 21 | 165 | 7 | 159 | 3.05e-15 | 70.1 |
| Msa0828490 | MtrunA17_Chr1g0206721 | 31.646 | 158 | 90 | 4 | 21 | 165 | 7 | 159 | 3.29e-15 | 71.2 |
| Msa0828490 | MtrunA17_Chr3g0089141 | 33.125 | 160 | 83 | 5 | 22 | 165 | 8 | 159 | 4.36e-15 | 70.9 |
| Msa0828490 | MtrunA17_Chr2g0292791 | 31.646 | 158 | 90 | 4 | 21 | 165 | 7 | 159 | 5.90e-15 | 70.5 |
| Msa0828490 | MtrunA17_Chr1g0206701 | 31.013 | 158 | 91 | 3 | 21 | 165 | 7 | 159 | 9.34e-15 | 70.1 |
| Msa0828490 | MtrunA17_Chr3g0119901 | 29.861 | 144 | 83 | 3 | 36 | 169 | 28 | 163 | 1.09e-14 | 69.3 |
| Msa0828490 | MtrunA17_Chr2g0317481 | 29.091 | 165 | 85 | 5 | 21 | 165 | 7 | 159 | 1.99e-14 | 68.9 |
| Msa0828490 | MtrunA17_Chr1g0208581 | 33.125 | 160 | 83 | 5 | 22 | 165 | 8 | 159 | 2.11e-14 | 68.9 |
| Msa0828490 | MtrunA17_Chr2g0317451 | 29.091 | 165 | 85 | 5 | 21 | 165 | 7 | 159 | 2.13e-14 | 68.9 |
| Msa0828490 | MtrunA17_Chr1g0208561 | 32.500 | 160 | 84 | 5 | 22 | 165 | 8 | 159 | 3.75e-14 | 68.2 |
| Msa0828490 | MtrunA17_Chr3g0085241 | 27.273 | 176 | 107 | 5 | 1 | 169 | 34 | 195 | 6.49e-14 | 67.8 |
| Msa0828490 | MtrunA17_Chr5g0422941 | 31.757 | 148 | 83 | 3 | 21 | 155 | 7 | 149 | 9.91e-14 | 67.0 |
| Msa0828490 | MtrunA17_Chr8g0356071 | 42.466 | 73 | 36 | 1 | 24 | 90 | 3 | 75 | 2.08e-13 | 65.1 |
| Msa0828490 | MtrunA17_Chr2g0300441 | 33.824 | 136 | 78 | 4 | 37 | 165 | 29 | 159 | 3.37e-12 | 62.8 |
| Msa0828490 | MtrunA17_Chr2g0325971 | 31.210 | 157 | 90 | 4 | 22 | 165 | 8 | 159 | 6.35e-12 | 62.0 |
| Msa0828490 | MtrunA17_Chr3g0099411 | 43.056 | 72 | 35 | 1 | 21 | 86 | 7 | 78 | 8.53e-12 | 61.6 |
| Msa0828490 | MtrunA17_Chr8g0357771 | 46.552 | 58 | 31 | 0 | 36 | 93 | 21 | 78 | 8.91e-12 | 60.8 |
| Msa0828490 | MtrunA17_Chr1g0169761 | 33.654 | 104 | 61 | 2 | 24 | 119 | 3 | 106 | 1.75e-11 | 60.1 |
| Msa0828490 | MtrunA17_Chr1g0206691 | 30.216 | 139 | 79 | 4 | 36 | 164 | 11 | 141 | 2.06e-11 | 60.5 |
| Msa0828490 | MtrunA17_Chr8g0376821 | 42.647 | 68 | 33 | 1 | 24 | 85 | 3 | 70 | 3.37e-11 | 59.3 |
| Msa0828490 | MtrunA17_Chr7g0238991 | 33.577 | 137 | 79 | 3 | 36 | 165 | 40 | 171 | 6.03e-11 | 59.7 |
| Msa0828490 | MtrunA17_Chr5g0419601 | 27.273 | 165 | 88 | 5 | 21 | 165 | 7 | 159 | 9.71e-11 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0828490 | AT5G60440.1 | 31.757 | 148 | 92 | 4 | 36 | 177 | 26 | 170 | 2.40e-16 | 75.5 |
| Msa0828490 | AT2G24840.1 | 28.090 | 178 | 106 | 6 | 8 | 175 | 63 | 228 | 3.31e-16 | 74.7 |
| Msa0828490 | AT3G66656.1 | 51.020 | 49 | 24 | 0 | 36 | 84 | 21 | 69 | 4.11e-12 | 62.0 |
| Msa0828490 | AT1G65360.1 | 29.747 | 158 | 92 | 5 | 21 | 165 | 5 | 156 | 8.74e-12 | 62.0 |
| Msa0828490 | AT4G36590.1 | 28.571 | 161 | 97 | 5 | 21 | 165 | 5 | 163 | 1.49e-11 | 61.6 |
| Msa0828490 | AT2G34440.1 | 29.508 | 122 | 80 | 2 | 36 | 154 | 21 | 139 | 3.35e-11 | 59.7 |
Find 26 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCGCTTCATATCGAAGTCTT+AGG | 0.201474 | 5_4:+1074113 | None:intergenic |
| TAACACACATTCTCTTGAAT+TGG | 0.284587 | 5_4:+1073887 | None:intergenic |
| GAATAAATCTATTGATGATA+TGG | 0.314688 | 5_4:-1074002 | Msa0828490:CDS |
| TGAATGACAGCATCATAGTT+AGG | 0.369392 | 5_4:+1074205 | None:intergenic |
| CGCTTCATATCGAAGTCTTA+GGG | 0.401643 | 5_4:+1074114 | None:intergenic |
| TTGTTTCTCTCGGCCGCCAT+TGG | 0.404729 | 5_4:+1074391 | None:intergenic |
| CTTCCGTGTGTTGTTTCTCT+CGG | 0.413838 | 5_4:+1074381 | None:intergenic |
| CCCTTCTCAAAACTCAAACT+TGG | 0.422835 | 5_4:-1074325 | Msa0828490:CDS |
| CGATGAGTGCAGTTTCTGAT+TGG | 0.423120 | 5_4:+1074266 | None:intergenic |
| CTCATCCTCGTCCATATGTC+CGG | 0.445428 | 5_4:+1074171 | None:intergenic |
| CTTCTTCGCTTCGCTTGCTA+CGG | 0.451335 | 5_4:+1073922 | None:intergenic |
| CTTCGATATGAAGCGATTCA+AGG | 0.460946 | 5_4:-1074106 | Msa0828490:CDS |
| GAAGGATGAAATCAAGAAAG+AGG | 0.477445 | 5_4:-1074353 | Msa0828490:CDS |
| GATTTATTCCACCAATCAGC+AGG | 0.485193 | 5_4:+1074016 | None:intergenic |
| GAATGACAGCATCATAGTTA+GGG | 0.520135 | 5_4:+1074206 | None:intergenic |
| CATGCATAGAACTTGTTGTT+GGG | 0.522753 | 5_4:+1074235 | None:intergenic |
| AGGAAAACTTAAAGAAGAGA+AGG | 0.524858 | 5_4:-1074086 | Msa0828490:CDS |
| CAACACACGGAAGAGAAAGA+AGG | 0.527351 | 5_4:-1074371 | Msa0828490:CDS |
| TTGATTTGCCTGCTGATTGG+TGG | 0.538450 | 5_4:-1074024 | Msa0828490:CDS |
| TGGGACAACATGAATAAGAA+TGG | 0.556319 | 5_4:-1074436 | None:intergenic |
| ACATGCATAGAACTTGTTGT+TGG | 0.594378 | 5_4:+1074234 | None:intergenic |
| AACAACAAGTTCTATGCATG+TGG | 0.619639 | 5_4:-1074232 | Msa0828490:CDS |
| GTCTAAGAAGAAAATTCCAA+TGG | 0.626985 | 5_4:-1074407 | Msa0828490:CDS |
| TAAGAAGAAAATTCCAATGG+CGG | 0.679668 | 5_4:-1074404 | Msa0828490:CDS |
| CGGCCGAGAGAAACAACACA+CGG | 0.685523 | 5_4:-1074384 | Msa0828490:CDS |
| TCTGACCGGACATATGGACG+AGG | 0.696130 | 5_4:-1074176 | Msa0828490:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GAATAAATCTATTGATGATA+TGG | - | chr5_4:1074311-1074330 | Msa0828490:CDS | 20.0% |
| GTCTAAGAAGAAAATTCCAA+TGG | - | chr5_4:1073906-1073925 | Msa0828490:CDS | 30.0% | |
| TAAGAAGAAAATTCCAATGG+CGG | - | chr5_4:1073909-1073928 | Msa0828490:CDS | 30.0% | |
| AGGAAAACTTAAAGAAGAGA+AGG | - | chr5_4:1074227-1074246 | Msa0828490:CDS | 30.0% | |
| TAACACACATTCTCTTGAAT+TGG | + | chr5_4:1074429-1074448 | None:intergenic | 30.0% | |
| GAAGGATGAAATCAAGAAAG+AGG | - | chr5_4:1073960-1073979 | Msa0828490:CDS | 35.0% | |
| !!! | CCAAGTTTGAGTTTTGAGAA+GGG | + | chr5_4:1073991-1074010 | None:intergenic | 35.0% |
| !!! | TCCAAGTTTGAGTTTTGAGA+AGG | + | chr5_4:1073992-1074011 | None:intergenic | 35.0% |
| !! | CATGCATAGAACTTGTTGTT+GGG | + | chr5_4:1074081-1074100 | None:intergenic | 35.0% |
| !! | ACATGCATAGAACTTGTTGT+TGG | + | chr5_4:1074082-1074101 | None:intergenic | 35.0% |
| AACAACAAGTTCTATGCATG+TGG | - | chr5_4:1074081-1074100 | Msa0828490:CDS | 35.0% | |
| GAATGACAGCATCATAGTTA+GGG | + | chr5_4:1074110-1074129 | None:intergenic | 35.0% | |
| TGAATGACAGCATCATAGTT+AGG | + | chr5_4:1074111-1074130 | None:intergenic | 35.0% | |
| !!! | ATTTTGATTTGCCTGCTGAT+TGG | - | chr5_4:1074286-1074305 | Msa0828490:CDS | 35.0% |
| CCCTTCTCAAAACTCAAACT+TGG | - | chr5_4:1073988-1074007 | Msa0828490:CDS | 40.0% | |
| CGCTTCATATCGAAGTCTTA+GGG | + | chr5_4:1074202-1074221 | None:intergenic | 40.0% | |
| TCGCTTCATATCGAAGTCTT+AGG | + | chr5_4:1074203-1074222 | None:intergenic | 40.0% | |
| CTTCGATATGAAGCGATTCA+AGG | - | chr5_4:1074207-1074226 | Msa0828490:CDS | 40.0% | |
| GATTTATTCCACCAATCAGC+AGG | + | chr5_4:1074300-1074319 | None:intergenic | 40.0% | |
| !! | CTTCCGTGTGTTGTTTCTCT+CGG | + | chr5_4:1073935-1073954 | None:intergenic | 45.0% |
| CAACACACGGAAGAGAAAGA+AGG | - | chr5_4:1073942-1073961 | Msa0828490:CDS | 45.0% | |
| CGATGAGTGCAGTTTCTGAT+TGG | + | chr5_4:1074050-1074069 | None:intergenic | 45.0% | |
| ! | GTCATTCAGCGTTTTCTGAC+CGG | - | chr5_4:1074123-1074142 | Msa0828490:CDS | 45.0% |
| !! | TTGATTTGCCTGCTGATTGG+TGG | - | chr5_4:1074289-1074308 | Msa0828490:CDS | 45.0% |
| ! | GCGTTTTCTGACCGGACATA+TGG | - | chr5_4:1074131-1074150 | Msa0828490:CDS | 50.0% |
| CTCATCCTCGTCCATATGTC+CGG | + | chr5_4:1074145-1074164 | None:intergenic | 50.0% | |
| ! | CTTCTTCGCTTCGCTTGCTA+CGG | + | chr5_4:1074394-1074413 | None:intergenic | 50.0% |
| ! | TTGTTTCTCTCGGCCGCCAT+TGG | + | chr5_4:1073925-1073944 | None:intergenic | 55.0% |
| CGGCCGAGAGAAACAACACA+CGG | - | chr5_4:1073929-1073948 | Msa0828490:CDS | 55.0% | |
| TCTGACCGGACATATGGACG+AGG | - | chr5_4:1074137-1074156 | Msa0828490:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 1073886 | 1074449 | 1073886 | ID=Msa0828490;Name=Msa0828490 |
| chr5_4 | mRNA | 1073886 | 1074449 | 1073886 | ID=Msa0828490-mRNA-1;Parent=Msa0828490;Name=Msa0828490-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|187 |
| chr5_4 | exon | 1073886 | 1074449 | 1073886 | ID=Msa0828490-mRNA-1:exon:216;Parent=Msa0828490-mRNA-1 |
| chr5_4 | CDS | 1073886 | 1074449 | 1073886 | ID=Msa0828490-mRNA-1:cds;Parent=Msa0828490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
