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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0253120 | XP_027929706.1 | 76.250 | 80 | 17 | 1 | 1 | 78 | 1 | 80 | 6.03e-37 | 129 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0253120 | sp|Q9SKX9|CSTM6_ARATH | 57.895 | 57 | 20 | 2 | 22 | 78 | 19 | 71 | 2.04e-15 | 67.0 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0253120 | A0A4D6NCS9 | 76.250 | 80 | 17 | 1 | 1 | 78 | 1 | 80 | 2.88e-37 | 129 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0207260 | Msa0253120 | 0.817820 | 2.704661e-52 | -8.615850e-47 |
| Msa0253120 | Msa0291900 | 0.945174 | 4.998894e-104 | -8.615850e-47 |
| Msa0253120 | Msa0291920 | 0.889878 | 1.631696e-73 | -8.615850e-47 |
| Msa0253120 | Msa0329880 | 0.867364 | 1.444776e-65 | -8.615850e-47 |
| Msa0253120 | Msa0329890 | 0.801472 | 8.862352e-49 | -8.615850e-47 |
| Msa0253120 | Msa0481740 | 0.869954 | 2.101881e-66 | -8.615850e-47 |
| Msa0253120 | Msa0481770 | 0.858163 | 9.948583e-63 | -8.615850e-47 |
| Msa0253120 | Msa0935830 | 0.816612 | 5.054394e-52 | -8.615850e-47 |
| Msa0253120 | Msa0973000 | 0.821926 | 3.114142e-53 | -8.615850e-47 |
| Msa0253120 | Msa1069770 | 0.804688 | 1.915304e-49 | -8.615850e-47 |
| Msa0253120 | Msa1080650 | 0.867626 | 1.190928e-65 | -8.615850e-47 |
| Msa0253120 | Msa1126440 | 0.867634 | 1.184304e-65 | -8.615850e-47 |
| Msa0253120 | Msa1331950 | 0.802151 | 6.428767e-49 | -8.615850e-47 |
| Msa0253120 | Msa1338580 | 0.806376 | 8.477502e-50 | -8.615850e-47 |
| Msa0253120 | Msa1432180 | 0.800433 | 1.444759e-48 | -8.615850e-47 |
| Msa0253120 | Msa1453600 | 0.849553 | 3.003170e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0253120 | MtrunA17_Chr2g0312051 | 87.179 | 78 | 8 | 1 | 1 | 78 | 1 | 76 | 1.80e-36 | 117 |
| Msa0253120 | MtrunA17_Chr1g0166081 | 79.747 | 79 | 15 | 1 | 1 | 78 | 1 | 79 | 1.27e-35 | 115 |
| Msa0253120 | MtrunA17_Chr5g0417951 | 78.481 | 79 | 16 | 1 | 1 | 78 | 1 | 79 | 5.23e-35 | 114 |
| Msa0253120 | MtrunA17_Chr4g0048281 | 85.000 | 80 | 10 | 2 | 1 | 78 | 1 | 80 | 7.92e-33 | 108 |
| Msa0253120 | MtrunA17_Chr2g0312011 | 53.968 | 63 | 21 | 3 | 1 | 62 | 1 | 56 | 4.62e-13 | 58.2 |
| Msa0253120 | MtrunA17_Chr2g0312031 | 86.842 | 38 | 5 | 0 | 41 | 78 | 17 | 54 | 3.82e-11 | 52.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0253120 | AT2G32210.1 | 57.895 | 57 | 20 | 2 | 22 | 78 | 19 | 71 | 2.08e-16 | 67.0 |
| Msa0253120 | AT2G32190.1 | 57.895 | 57 | 20 | 2 | 22 | 78 | 19 | 71 | 2.24e-16 | 67.0 |
| Msa0253120 | AT2G32200.2 | 48.333 | 60 | 24 | 3 | 22 | 78 | 53 | 108 | 6.00e-12 | 56.6 |
| Msa0253120 | AT2G32200.1 | 48.333 | 60 | 24 | 3 | 22 | 78 | 19 | 74 | 9.00e-12 | 55.5 |
| Msa0253120 | AT1G56060.2 | 53.571 | 56 | 20 | 3 | 26 | 78 | 19 | 71 | 6.23e-11 | 53.1 |
Find 32 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTTGTGGTGGATATGATAC+TGG | 0.286254 | 2_2:-44749740 | None:intergenic |
| CAAGGTGAGGCTTATTCTTC+AGG | 0.358678 | 2_2:+44749758 | Msa0253120:CDS |
| TGTAACTGCCCCACCACCTA+TGG | 0.386713 | 2_2:+44749787 | Msa0253120:CDS |
| CCCCTGGATGTAGTCTGGTC+TGG | 0.437327 | 2_2:-44749857 | None:intergenic |
| CTTGTGGTGGATATGATACT+GGG | 0.456581 | 2_2:-44749739 | None:intergenic |
| GGTCTGGAATCCTTTGTTGA+GGG | 0.462481 | 2_2:-44749841 | None:intergenic |
| TAACTTAAAAGCAAATATCA+AGG | 0.472631 | 2_2:-44749928 | None:intergenic |
| CATCACCCCTGGATGTAGTC+TGG | 0.478425 | 2_2:-44749862 | None:intergenic |
| GGTGGTGGGGCAGTTACATA+TGG | 0.492370 | 2_2:-44749782 | None:intergenic |
| GAAGGATAACCCATAGGTGG+TGG | 0.499225 | 2_2:-44749797 | None:intergenic |
| CCTTCCAAGGATAGCTCTGA+AGG | 0.509331 | 2_2:+44749815 | Msa0253120:CDS |
| GTACCCTTCAGAGCTATCCT+TGG | 0.526753 | 2_2:-44749819 | None:intergenic |
| TGGTCTGGAATCCTTTGTTG+AGG | 0.548204 | 2_2:-44749842 | None:intergenic |
| TTCCAGACCAGACTACATCC+AGG | 0.550841 | 2_2:+44749855 | Msa0253120:CDS |
| AAGGATAACCCATAGGTGGT+GGG | 0.565440 | 2_2:-44749796 | None:intergenic |
| GTAACTGCCCCACCACCTAT+GGG | 0.572378 | 2_2:+44749788 | Msa0253120:CDS |
| CAGACTACATCCAGGGGTGA+TGG | 0.573015 | 2_2:+44749863 | Msa0253120:CDS |
| ACCTATGGGTTATCCTTCCA+AGG | 0.583023 | 2_2:+44749802 | Msa0253120:CDS |
| CCTTCAGAGCTATCCTTGGA+AGG | 0.595376 | 2_2:-44749815 | None:intergenic |
| ATCATATCCACCACAAGGTG+AGG | 0.605203 | 2_2:+44749745 | Msa0253120:CDS |
| AGGATAACCCATAGGTGGTG+GGG | 0.605641 | 2_2:-44749795 | None:intergenic |
| TCCAGACCAGACTACATCCA+GGG | 0.615949 | 2_2:+44749856 | Msa0253120:CDS |
| AACTTAAAAGCAAATATCAA+GGG | 0.622606 | 2_2:-44749927 | None:intergenic |
| CTTCCAAGGATAGCTCTGAA+GGG | 0.626012 | 2_2:+44749816 | Msa0253120:CDS |
| GAAGAATAAGCCTCACCTTG+TGG | 0.633630 | 2_2:-44749755 | None:intergenic |
| GAATAAGCCTCACCTTGTGG+TGG | 0.634598 | 2_2:-44749752 | None:intergenic |
| CCAGTATCATATCCACCACA+AGG | 0.655076 | 2_2:+44749740 | Msa0253120:CDS |
| CTGAAGGGTACCCTCAACAA+AGG | 0.674821 | 2_2:+44749831 | Msa0253120:CDS |
| TTGGAAGGATAACCCATAGG+TGG | 0.675232 | 2_2:-44749800 | None:intergenic |
| TCCTTGGAAGGATAACCCAT+AGG | 0.680712 | 2_2:-44749803 | None:intergenic |
| TTGTGGTGGATATGATACTG+GGG | 0.688601 | 2_2:-44749738 | None:intergenic |
| CCAGACCAGACTACATCCAG+GGG | 0.729280 | 2_2:+44749857 | Msa0253120:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTGTGGTGGATATGATACTG+GGG | - | chr2_2:44749741-44749760 | None:intergenic | 40.0% |
| !! | CTTGTGGTGGATATGATACT+GGG | - | chr2_2:44749742-44749761 | None:intergenic | 40.0% |
| !! | CCTTGTGGTGGATATGATAC+TGG | - | chr2_2:44749743-44749762 | None:intergenic | 45.0% |
| CCAGTATCATATCCACCACA+AGG | + | chr2_2:44749740-44749759 | Msa0253120:CDS | 45.0% | |
| ATCATATCCACCACAAGGTG+AGG | + | chr2_2:44749745-44749764 | Msa0253120:CDS | 45.0% | |
| GAAGAATAAGCCTCACCTTG+TGG | - | chr2_2:44749758-44749777 | None:intergenic | 45.0% | |
| CAAGGTGAGGCTTATTCTTC+AGG | + | chr2_2:44749758-44749777 | Msa0253120:CDS | 45.0% | |
| AAGGATAACCCATAGGTGGT+GGG | - | chr2_2:44749799-44749818 | None:intergenic | 45.0% | |
| TTGGAAGGATAACCCATAGG+TGG | - | chr2_2:44749803-44749822 | None:intergenic | 45.0% | |
| ! | ACCTATGGGTTATCCTTCCA+AGG | + | chr2_2:44749802-44749821 | Msa0253120:CDS | 45.0% |
| TCCTTGGAAGGATAACCCAT+AGG | - | chr2_2:44749806-44749825 | None:intergenic | 45.0% | |
| !! | CTTCCAAGGATAGCTCTGAA+GGG | + | chr2_2:44749816-44749835 | Msa0253120:CDS | 45.0% |
| ! | GGTCTGGAATCCTTTGTTGA+GGG | - | chr2_2:44749844-44749863 | None:intergenic | 45.0% |
| ! | TGGTCTGGAATCCTTTGTTG+AGG | - | chr2_2:44749845-44749864 | None:intergenic | 45.0% |
| !! | AGGGGTGATGGTTTTTGGAA+GGG | + | chr2_2:44749875-44749894 | Msa0253120:CDS | 45.0% |
| GAATAAGCCTCACCTTGTGG+TGG | - | chr2_2:44749755-44749774 | None:intergenic | 50.0% | |
| AGGATAACCCATAGGTGGTG+GGG | - | chr2_2:44749798-44749817 | None:intergenic | 50.0% | |
| GAAGGATAACCCATAGGTGG+TGG | - | chr2_2:44749800-44749819 | None:intergenic | 50.0% | |
| CCTTCAGAGCTATCCTTGGA+AGG | - | chr2_2:44749818-44749837 | None:intergenic | 50.0% | |
| !! | CCTTCCAAGGATAGCTCTGA+AGG | + | chr2_2:44749815-44749834 | Msa0253120:CDS | 50.0% |
| GTACCCTTCAGAGCTATCCT+TGG | - | chr2_2:44749822-44749841 | None:intergenic | 50.0% | |
| !! | CTGAAGGGTACCCTCAACAA+AGG | + | chr2_2:44749831-44749850 | Msa0253120:CDS | 50.0% |
| TTCCAGACCAGACTACATCC+AGG | + | chr2_2:44749855-44749874 | Msa0253120:CDS | 50.0% | |
| TCCAGACCAGACTACATCCA+GGG | + | chr2_2:44749856-44749875 | Msa0253120:CDS | 50.0% | |
| !! | CATCCAGGGGTGATGGTTTT+TGG | + | chr2_2:44749870-44749889 | Msa0253120:CDS | 50.0% |
| CTTCCAAAAACCATCACCCC+TGG | - | chr2_2:44749876-44749895 | None:intergenic | 50.0% | |
| !! | CAGGGGTGATGGTTTTTGGA+AGG | + | chr2_2:44749874-44749893 | Msa0253120:CDS | 50.0% |
| !! | GGTGGTGGGGCAGTTACATA+TGG | - | chr2_2:44749785-44749804 | None:intergenic | 55.0% |
| TGTAACTGCCCCACCACCTA+TGG | + | chr2_2:44749787-44749806 | Msa0253120:CDS | 55.0% | |
| GTAACTGCCCCACCACCTAT+GGG | + | chr2_2:44749788-44749807 | Msa0253120:CDS | 55.0% | |
| CCAGACCAGACTACATCCAG+GGG | + | chr2_2:44749857-44749876 | Msa0253120:CDS | 55.0% | |
| CATCACCCCTGGATGTAGTC+TGG | - | chr2_2:44749865-44749884 | None:intergenic | 55.0% | |
| CAGACTACATCCAGGGGTGA+TGG | + | chr2_2:44749863-44749882 | Msa0253120:CDS | 55.0% | |
| CCCCTGGATGTAGTCTGGTC+TGG | - | chr2_2:44749860-44749879 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 44749710 | 44749946 | 44749710 | ID=Msa0253120;Name=Msa0253120 |
| chr2_2 | mRNA | 44749710 | 44749946 | 44749710 | ID=Msa0253120-mRNA-1;Parent=Msa0253120;Name=Msa0253120-mRNA-1;_AED=0.44;_eAED=0.44;_QI=0|-1|0|1|-1|1|1|0|78 |
| chr2_2 | exon | 44749710 | 44749946 | 44749710 | ID=Msa0253120-mRNA-1:exon:13753;Parent=Msa0253120-mRNA-1 |
| chr2_2 | CDS | 44749710 | 44749946 | 44749710 | ID=Msa0253120-mRNA-1:cds;Parent=Msa0253120-mRNA-1 |
| Gene Sequence |
| Protein sequence |
