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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0431540 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0431540 | 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 | Msa0431540 | 0.962653 | 3.911143e-121 | -8.615850e-47 |
| Msa0431540 | Msa0520540 | 0.849841 | 2.495987e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0431540 | MtrunA17_Chr3g0136311 | 93.750 | 112 | 6 | 1 | 1 | 111 | 1 | 112 | 1.89e-63 | 188 |
| Msa0431540 | MtrunA17_Chr1g0150981 | 62.162 | 111 | 42 | 0 | 1 | 111 | 1 | 111 | 6.69e-39 | 126 |
| Msa0431540 | 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_2:-83579139 | Msa0431540:CDS |
| CATAGAGTTTGTGGTTCTTC+AGG | 0.329172 | 3_2:-83579113 | Msa0431540:CDS |
| GAACTTGGAGCTTGCGGAAA+AGG | 0.388286 | 3_2:-83579362 | Msa0431540:CDS |
| AACCCACAAATGTTGCTGTT+TGG | 0.408031 | 3_2:-83579226 | Msa0431540:CDS |
| TACTGGATTCATAGAGTTTG+TGG | 0.417096 | 3_2:-83579122 | Msa0431540:CDS |
| CACTCATAAATCATGGAACT+TGG | 0.440880 | 3_2:-83579377 | None:intergenic |
| TGTGGCTTCTACTCTTTACA+TGG | 0.447712 | 3_2:-83579285 | Msa0431540:CDS |
| AGCTTTCTTGGACCAGAGCT+TGG | 0.471430 | 3_2:-83579159 | Msa0431540:CDS |
| CGGTTTGGTGGTTCTTGCTG+TGG | 0.481772 | 3_2:-83579303 | Msa0431540:CDS |
| GATCAAACACGGCCAAGCTC+TGG | 0.503201 | 3_2:+83579147 | None:intergenic |
| GAGACTAGCTACCATCGGTT+TGG | 0.505895 | 3_2:-83579318 | Msa0431540:CDS |
| GGAGCTTGCGGAAAAGGAAA+CGG | 0.505911 | 3_2:-83579356 | Msa0431540:CDS |
| AACCAAACAGCAACATTTGT+GGG | 0.519674 | 3_2:+83579224 | None:intergenic |
| TAACCAAACAGCAACATTTG+TGG | 0.524122 | 3_2:+83579223 | None:intergenic |
| ATCATGGAACTTGGAGCTTG+CGG | 0.535061 | 3_2:-83579368 | Msa0431540:CDS |
| TCATCTTCCAACTCACACTC+TGG | 0.536497 | 3_2:+83579254 | None:intergenic |
| ACTAGCTACCATCGGTTTGG+TGG | 0.545343 | 3_2:-83579315 | Msa0431540:CDS |
| GCGAAAGCCAGAGTGTGAGT+TGG | 0.568295 | 3_2:-83579261 | Msa0431540:CDS |
| AGAGTTTGTGGTTCTTCAGG+CGG | 0.609490 | 3_2:-83579110 | Msa0431540:CDS |
| AGCAAGAACCACCAAACCGA+TGG | 0.625486 | 3_2:+83579307 | None:intergenic |
| TATGAGAGACTAGCTACCAT+CGG | 0.655093 | 3_2:-83579323 | Msa0431540:CDS |
| AATCCAGTAACGATCAAACA+CGG | 0.690606 | 3_2:+83579136 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTCTTTTTCTTATTTTGAAG+TGG | - | chr3_2:83579350-83579369 | Msa0431540:CDS | 20.0% |
| ATCAATAAAAAGAGCAGCAA+AGG | + | chr3_2:83579220-83579239 | None:intergenic | 30.0% | |
| !!! | CATAGTTTTATCAGCTTTCT+TGG | - | chr3_2:83579246-83579265 | Msa0431540:CDS | 30.0% |
| AACCAAACAGCAACATTTGT+GGG | + | chr3_2:83579196-83579215 | None:intergenic | 35.0% | |
| TAACCAAACAGCAACATTTG+TGG | + | chr3_2:83579197-83579216 | None:intergenic | 35.0% | |
| AATCCAGTAACGATCAAACA+CGG | + | chr3_2:83579284-83579303 | None:intergenic | 35.0% | |
| TACTGGATTCATAGAGTTTG+TGG | - | chr3_2:83579295-83579314 | Msa0431540:CDS | 35.0% | |
| ! | TATGAGAGACTAGCTACCAT+CGG | - | chr3_2:83579094-83579113 | Msa0431540:CDS | 40.0% |
| TGTGGCTTCTACTCTTTACA+TGG | - | chr3_2:83579132-83579151 | Msa0431540:CDS | 40.0% | |
| ! | AACCCACAAATGTTGCTGTT+TGG | - | chr3_2:83579191-83579210 | Msa0431540:CDS | 40.0% |
| CATAGAGTTTGTGGTTCTTC+AGG | - | chr3_2:83579304-83579323 | Msa0431540:CDS | 40.0% | |
| TCATCTTCCAACTCACACTC+TGG | + | chr3_2:83579166-83579185 | None:intergenic | 45.0% | |
| AGAGTTTGTGGTTCTTCAGG+CGG | - | chr3_2:83579307-83579326 | Msa0431540:CDS | 45.0% | |
| GAACTTGGAGCTTGCGGAAA+AGG | - | chr3_2:83579055-83579074 | Msa0431540:CDS | 50.0% | |
| GGAGCTTGCGGAAAAGGAAA+CGG | - | chr3_2:83579061-83579080 | Msa0431540:CDS | 50.0% | |
| ! | GAGACTAGCTACCATCGGTT+TGG | - | chr3_2:83579099-83579118 | Msa0431540:CDS | 50.0% |
| !! | ACTAGCTACCATCGGTTTGG+TGG | - | chr3_2:83579102-83579121 | Msa0431540:CDS | 50.0% |
| AGCAAGAACCACCAAACCGA+TGG | + | chr3_2:83579113-83579132 | None:intergenic | 50.0% | |
| AGCTTTCTTGGACCAGAGCT+TGG | - | chr3_2:83579258-83579277 | Msa0431540:CDS | 50.0% | |
| TGGCCGTGTTTGATCGTTAC+TGG | - | chr3_2:83579278-83579297 | Msa0431540:CDS | 50.0% | |
| !! | CGGTTTGGTGGTTCTTGCTG+TGG | - | chr3_2:83579114-83579133 | Msa0431540:CDS | 55.0% |
| GCGAAAGCCAGAGTGTGAGT+TGG | - | chr3_2:83579156-83579175 | Msa0431540:CDS | 55.0% | |
| GATCAAACACGGCCAAGCTC+TGG | + | chr3_2:83579273-83579292 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 83579052 | 83579387 | 83579052 | ID=Msa0431540;Name=Msa0431540 |
| chr3_2 | mRNA | 83579052 | 83579387 | 83579052 | ID=Msa0431540-mRNA-1;Parent=Msa0431540;Name=Msa0431540-mRNA-1;_AED=0.40;_eAED=0.40;_QI=0|-1|0|1|-1|1|1|0|111 |
| chr3_2 | exon | 83579052 | 83579387 | 83579052 | ID=Msa0431540-mRNA-1:exon:23419;Parent=Msa0431540-mRNA-1 |
| chr3_2 | CDS | 83579052 | 83579387 | 83579052 | ID=Msa0431540-mRNA-1:cds;Parent=Msa0431540-mRNA-1 |
| Gene Sequence |
| Protein sequence |
