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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0520540 | XP_003603212.1 | 93.750 | 112 | 6 | 1 | 1 | 111 | 1 | 112 | 2.06e-59 | 188 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0520540 | G7J8F6 | 93.750 | 112 | 6 | 1 | 1 | 111 | 1 | 112 | 9.84e-60 | 188 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0382040 | Msa0520540 | 0.819834 | 9.429665e-53 | -8.615850e-47 |
| Msa0431540 | Msa0520540 | 0.849841 | 2.495987e-60 | -8.615850e-47 |
| Msa0520540 | Msa0734660 | 0.803441 | 3.480624e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0520540 | MtrunA17_Chr3g0136311 | 93.750 | 112 | 6 | 1 | 1 | 111 | 1 | 112 | 1.89e-63 | 188 |
| Msa0520540 | MtrunA17_Chr1g0150981 | 62.162 | 111 | 42 | 0 | 1 | 111 | 1 | 111 | 6.69e-39 | 126 |
| Msa0520540 | MtrunA17_Chr1g0151011 | 62.162 | 111 | 42 | 0 | 1 | 111 | 1 | 111 | 9.37e-39 | 125 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGGCCGTGTTTGATCGTTAC+TGG | 0.227732 | 3_4:-73091123 | Msa0520540:CDS |
| CATAGAGTTTGTGGTTCTTC+AGG | 0.329172 | 3_4:-73091097 | Msa0520540:CDS |
| GAACTTGGAGCTTGCGGAAA+AGG | 0.388286 | 3_4:-73091346 | Msa0520540:CDS |
| AACCCACAAATGTTGCTGTT+TGG | 0.408031 | 3_4:-73091210 | Msa0520540:CDS |
| TACTGGATTCATAGAGTTTG+TGG | 0.417096 | 3_4:-73091106 | Msa0520540:CDS |
| CACTCATAAATCATGGAACT+TGG | 0.440880 | 3_4:-73091361 | None:intergenic |
| TGTGGCTTCTACTCTTTACA+TGG | 0.447712 | 3_4:-73091269 | Msa0520540:CDS |
| AGCTTTCTTGGACCAGAGCT+TGG | 0.471430 | 3_4:-73091143 | Msa0520540:CDS |
| CGGTTTGGTGGTTCTTGCTG+TGG | 0.481772 | 3_4:-73091287 | Msa0520540:CDS |
| GATCAAACACGGCCAAGCTC+TGG | 0.503201 | 3_4:+73091131 | None:intergenic |
| GAGACTAGCTACCATCGGTT+TGG | 0.505895 | 3_4:-73091302 | Msa0520540:CDS |
| GGAGCTTGCGGAAAAGGAAA+CGG | 0.505911 | 3_4:-73091340 | Msa0520540:CDS |
| AACCAAACAGCAACATTTGT+GGG | 0.519674 | 3_4:+73091208 | None:intergenic |
| TAACCAAACAGCAACATTTG+TGG | 0.524122 | 3_4:+73091207 | None:intergenic |
| ATCATGGAACTTGGAGCTTG+CGG | 0.535061 | 3_4:-73091352 | Msa0520540:CDS |
| TCATCTTCCAACTCACACTC+TGG | 0.536497 | 3_4:+73091238 | None:intergenic |
| ACTAGCTACCATCGGTTTGG+TGG | 0.545343 | 3_4:-73091299 | Msa0520540:CDS |
| GCGAAAGCCAGAGTGTGAGT+TGG | 0.568295 | 3_4:-73091245 | Msa0520540:CDS |
| AGAGTTTGTGGTTCTTCAGG+CGG | 0.609490 | 3_4:-73091094 | Msa0520540:CDS |
| AGCAAGAACCACCAAACCGA+TGG | 0.625486 | 3_4:+73091291 | None:intergenic |
| TATGAGAGACTAGCTACCAT+CGG | 0.655093 | 3_4:-73091307 | Msa0520540:CDS |
| AATCCAGTAACGATCAAACA+CGG | 0.690606 | 3_4:+73091120 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTCTTTTTCTTATTTTGAAG+TGG | - | chr3_4:73091334-73091353 | Msa0520540:CDS | 20.0% |
| ATCAATAAAAAGAGCAGCAA+AGG | + | chr3_4:73091204-73091223 | None:intergenic | 30.0% | |
| !!! | CATAGTTTTATCAGCTTTCT+TGG | - | chr3_4:73091230-73091249 | Msa0520540:CDS | 30.0% |
| AACCAAACAGCAACATTTGT+GGG | + | chr3_4:73091180-73091199 | None:intergenic | 35.0% | |
| TAACCAAACAGCAACATTTG+TGG | + | chr3_4:73091181-73091200 | None:intergenic | 35.0% | |
| AATCCAGTAACGATCAAACA+CGG | + | chr3_4:73091268-73091287 | None:intergenic | 35.0% | |
| TACTGGATTCATAGAGTTTG+TGG | - | chr3_4:73091279-73091298 | Msa0520540:CDS | 35.0% | |
| ! | TATGAGAGACTAGCTACCAT+CGG | - | chr3_4:73091078-73091097 | Msa0520540:CDS | 40.0% |
| TGTGGCTTCTACTCTTTACA+TGG | - | chr3_4:73091116-73091135 | Msa0520540:CDS | 40.0% | |
| ! | AACCCACAAATGTTGCTGTT+TGG | - | chr3_4:73091175-73091194 | Msa0520540:CDS | 40.0% |
| CATAGAGTTTGTGGTTCTTC+AGG | - | chr3_4:73091288-73091307 | Msa0520540:CDS | 40.0% | |
| TCATCTTCCAACTCACACTC+TGG | + | chr3_4:73091150-73091169 | None:intergenic | 45.0% | |
| AGAGTTTGTGGTTCTTCAGG+CGG | - | chr3_4:73091291-73091310 | Msa0520540:CDS | 45.0% | |
| GAACTTGGAGCTTGCGGAAA+AGG | - | chr3_4:73091039-73091058 | Msa0520540:CDS | 50.0% | |
| GGAGCTTGCGGAAAAGGAAA+CGG | - | chr3_4:73091045-73091064 | Msa0520540:CDS | 50.0% | |
| ! | GAGACTAGCTACCATCGGTT+TGG | - | chr3_4:73091083-73091102 | Msa0520540:CDS | 50.0% |
| !! | ACTAGCTACCATCGGTTTGG+TGG | - | chr3_4:73091086-73091105 | Msa0520540:CDS | 50.0% |
| AGCAAGAACCACCAAACCGA+TGG | + | chr3_4:73091097-73091116 | None:intergenic | 50.0% | |
| AGCTTTCTTGGACCAGAGCT+TGG | - | chr3_4:73091242-73091261 | Msa0520540:CDS | 50.0% | |
| TGGCCGTGTTTGATCGTTAC+TGG | - | chr3_4:73091262-73091281 | Msa0520540:CDS | 50.0% | |
| !! | CGGTTTGGTGGTTCTTGCTG+TGG | - | chr3_4:73091098-73091117 | Msa0520540:CDS | 55.0% |
| GCGAAAGCCAGAGTGTGAGT+TGG | - | chr3_4:73091140-73091159 | Msa0520540:CDS | 55.0% | |
| GATCAAACACGGCCAAGCTC+TGG | + | chr3_4:73091257-73091276 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 73091036 | 73091371 | 73091036 | ID=Msa0520540;Name=Msa0520540 |
| chr3_4 | mRNA | 73091036 | 73091371 | 73091036 | ID=Msa0520540-mRNA-1;Parent=Msa0520540;Name=Msa0520540-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|111 |
| chr3_4 | exon | 73091036 | 73091371 | 73091036 | ID=Msa0520540-mRNA-1:exon:20437;Parent=Msa0520540-mRNA-1 |
| chr3_4 | CDS | 73091036 | 73091371 | 73091036 | ID=Msa0520540-mRNA-1:cds;Parent=Msa0520540-mRNA-1 |
| Gene Sequence |
| Protein sequence |
