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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378180 | KEH18157.1 | 94.937 | 79 | 4 | 0 | 1 | 79 | 1 | 79 | 5.24e-47 | 154 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378180 | sp|P82787|DEF19_ARATH | 51.351 | 74 | 33 | 1 | 9 | 79 | 5 | 78 | 1.85e-20 | 80.1 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378180 | A0A072TL50 | 94.937 | 79 | 4 | 0 | 1 | 79 | 1 | 79 | 2.50e-47 | 154 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1347270 | Msa1378180 | 0.854379 | 1.280437e-61 | -8.615850e-47 |
| Msa1378160 | Msa1378180 | 0.800217 | 1.598711e-48 | -8.615850e-47 |
| Msa1378180 | Msa1378340 | 0.807129 | 5.875794e-50 | -8.615850e-47 |
| Msa1230790 | Msa1378180 | 0.944406 | 2.069054e-103 | -8.615850e-47 |
| Msa1230910 | Msa1378180 | 0.807149 | 5.819405e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378180 | MtrunA17_Chr8g0339701 | 94.937 | 79 | 4 | 0 | 1 | 79 | 1 | 79 | 4.82e-51 | 154 |
| Msa1378180 | MtrunA17_Chr8g0339681 | 91.139 | 79 | 7 | 0 | 1 | 79 | 1 | 79 | 1.63e-49 | 152 |
| Msa1378180 | MtrunA17_Chr8g0339681 | 64.706 | 68 | 24 | 0 | 12 | 79 | 69 | 136 | 6.33e-28 | 97.8 |
| Msa1378180 | MtrunA17_Chr8g0339721 | 65.823 | 79 | 27 | 0 | 1 | 79 | 1 | 79 | 8.69e-29 | 98.2 |
| Msa1378180 | MtrunA17_Chr8g0339691 | 76.923 | 52 | 12 | 0 | 27 | 78 | 1 | 52 | 1.59e-26 | 92.8 |
| Msa1378180 | MtrunA17_Chr8g0339741 | 55.000 | 80 | 35 | 1 | 1 | 79 | 1 | 80 | 1.66e-24 | 87.4 |
| Msa1378180 | MtrunA17_Chr8g0339711 | 51.250 | 80 | 37 | 2 | 1 | 79 | 1 | 79 | 5.10e-21 | 78.6 |
| Msa1378180 | MtrunA17_Chr8g0339751 | 56.962 | 79 | 33 | 1 | 1 | 79 | 1 | 78 | 4.67e-20 | 76.3 |
| Msa1378180 | MtrunA17_Chr3g0084701 | 51.899 | 79 | 36 | 1 | 1 | 79 | 1 | 77 | 1.35e-19 | 74.7 |
| Msa1378180 | MtrunA17_Chr8g0339651 | 45.570 | 79 | 38 | 2 | 4 | 79 | 13 | 89 | 5.06e-18 | 71.2 |
| Msa1378180 | MtrunA17_Chr7g0260561 | 46.341 | 82 | 38 | 4 | 1 | 79 | 1 | 79 | 7.78e-18 | 70.5 |
| Msa1378180 | MtrunA17_Chr8g0357271 | 50.617 | 81 | 35 | 4 | 1 | 79 | 1 | 78 | 2.14e-17 | 69.3 |
| Msa1378180 | MtrunA17_Chr8g0345161 | 49.351 | 77 | 35 | 2 | 3 | 79 | 4 | 76 | 2.73e-17 | 68.9 |
| Msa1378180 | MtrunA17_Chr8g0339481 | 43.750 | 80 | 44 | 1 | 1 | 79 | 1 | 80 | 8.07e-14 | 60.5 |
| Msa1378180 | MtrunA17_Chr8g0339571 | 48.101 | 79 | 38 | 2 | 1 | 79 | 9 | 84 | 3.88e-13 | 58.5 |
| Msa1378180 | MtrunA17_Chr8g0359831 | 42.466 | 73 | 37 | 2 | 8 | 79 | 9 | 77 | 5.63e-13 | 58.2 |
| Msa1378180 | MtrunA17_Chr8g0339501 | 45.312 | 64 | 34 | 1 | 1 | 63 | 1 | 64 | 1.30e-12 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378180 | AT1G19610.1 | 51.351 | 74 | 33 | 1 | 9 | 79 | 5 | 78 | 1.88e-21 | 80.1 |
| Msa1378180 | AT2G26020.1 | 37.975 | 79 | 44 | 1 | 6 | 79 | 2 | 80 | 2.50e-12 | 57.0 |
| Msa1378180 | AT5G44420.1 | 35.443 | 79 | 46 | 1 | 6 | 79 | 2 | 80 | 3.45e-11 | 53.9 |
| Msa1378180 | AT5G44430.1 | 40.506 | 79 | 42 | 2 | 6 | 79 | 2 | 80 | 4.20e-11 | 53.9 |
Find 14 sgRNAs with CRISPR-Local
Find 20 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTCTCCTTATTTCCACATC+TGG | 0.358521 | tig0020056:-51790 | Msa1378180:intron |
| TTGTACCAGATGTGGAAATA+AGG | 0.362903 | tig0020056:+51785 | None:intergenic |
| GCTTGTCACCGTCAAGGCTT+TGG | 0.378692 | tig0020056:-51567 | Msa1378180:CDS |
| GATGTGGAGCAAGCTACTTT+TGG | 0.461271 | tig0020056:-51591 | Msa1378180:CDS |
| AAGCAAAACCAAAGCCTTGA+CGG | 0.464247 | tig0020056:+51559 | None:intergenic |
| AAACGAAGTAAAACGTGGTC+AGG | 0.502910 | tig0020056:-51654 | Msa1378180:CDS |
| TGATTAGTTTGTACCAGATG+TGG | 0.519499 | tig0020056:+51777 | None:intergenic |
| CAGTTTCCTGTGTTAAGACA+AGG | 0.529102 | tig0020056:+51630 | None:intergenic |
| AGATGTGGAAATAAGGAGAA+AGG | 0.535384 | tig0020056:+51792 | None:intergenic |
| TTTGGTGCTTGTCACCGTCA+AGG | 0.553812 | tig0020056:-51573 | Msa1378180:CDS |
| GGTGTAAAATTTACTAGCAG+AGG | 0.563349 | tig0020056:+51837 | None:intergenic |
| TAAAAGACAATGCGTTGATG+TGG | 0.623871 | tig0020056:-51607 | Msa1378180:CDS |
| TGGAAATAAGGAGAAAGGCA+AGG | 0.649319 | tig0020056:+51797 | None:intergenic |
| TCAGGACCTTGTCTTAACAC+AGG | 0.703356 | tig0020056:-51636 | Msa1378180:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATGAACAGTTATTAATAT+AGG | + | tig0020056:51634-51653 | None:intergenic | 15.0% |
| !!! | TTTATTTTTTTTATGTGTAG+AGG | - | tig0020056:51683-51702 | Msa1378180:intron | 15.0% |
| !! | ACAAGTTAAGAACATAAATA+AGG | + | tig0020056:51663-51682 | None:intergenic | 20.0% |
| !!! | ATTTTTTTTATGTGTAGAGG+TGG | - | tig0020056:51686-51705 | Msa1378180:intron | 25.0% |
| GGTGTAAAATTTACTAGCAG+AGG | + | tig0020056:51546-51565 | None:intergenic | 35.0% | |
| AAGGCAGACAAAAACAAAGA+TGG | + | tig0020056:51567-51586 | None:intergenic | 35.0% | |
| AGATGTGGAAATAAGGAGAA+AGG | + | tig0020056:51591-51610 | None:intergenic | 35.0% | |
| ! | TTTCTCCTTATTTCCACATC+TGG | - | tig0020056:51590-51609 | Msa1378180:CDS | 35.0% |
| TTGTACCAGATGTGGAAATA+AGG | + | tig0020056:51598-51617 | None:intergenic | 35.0% | |
| !! | TGATTAGTTTGTACCAGATG+TGG | + | tig0020056:51606-51625 | None:intergenic | 35.0% |
| GTCAAAAACGAAGTAAAACG+TGG | - | tig0020056:51721-51740 | Msa1378180:intron | 35.0% | |
| ! | TAAAAGACAATGCGTTGATG+TGG | - | tig0020056:51773-51792 | Msa1378180:intron | 35.0% |
| TGGAAATAAGGAGAAAGGCA+AGG | + | tig0020056:51586-51605 | None:intergenic | 40.0% | |
| AAACGAAGTAAAACGTGGTC+AGG | - | tig0020056:51726-51745 | Msa1378180:intron | 40.0% | |
| CAGTTTCCTGTGTTAAGACA+AGG | + | tig0020056:51753-51772 | None:intergenic | 40.0% | |
| AAGCAAAACCAAAGCCTTGA+CGG | + | tig0020056:51824-51843 | None:intergenic | 40.0% | |
| TCAGGACCTTGTCTTAACAC+AGG | - | tig0020056:51744-51763 | Msa1378180:intron | 45.0% | |
| !! | GATGTGGAGCAAGCTACTTT+TGG | - | tig0020056:51789-51808 | Msa1378180:intron | 45.0% |
| !! | TTTGGTGCTTGTCACCGTCA+AGG | - | tig0020056:51807-51826 | Msa1378180:CDS | 50.0% |
| GCTTGTCACCGTCAAGGCTT+TGG | - | tig0020056:51813-51832 | Msa1378180:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020056 | gene | 51536 | 51866 | 51536 | ID=Msa1378180;Name=Msa1378180 |
| tig0020056 | mRNA | 51536 | 51866 | 51536 | ID=Msa1378180-mRNA-1;Parent=Msa1378180;Name=Msa1378180-mRNA-1;_AED=0.44;_eAED=0.44;_QI=0|0|0|1|0|0.5|2|0|79 |
| tig0020056 | exon | 51791 | 51866 | 51791 | ID=Msa1378180-mRNA-1:exon:6007;Parent=Msa1378180-mRNA-1 |
| tig0020056 | exon | 51536 | 51699 | 51536 | ID=Msa1378180-mRNA-1:exon:6006;Parent=Msa1378180-mRNA-1 |
| tig0020056 | CDS | 51791 | 51866 | 51791 | ID=Msa1378180-mRNA-1:cds;Parent=Msa1378180-mRNA-1 |
| tig0020056 | CDS | 51536 | 51699 | 51536 | ID=Msa1378180-mRNA-1:cds;Parent=Msa1378180-mRNA-1 |
| Gene Sequence |
| Protein sequence |
