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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0382040 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0382040 | 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 |
| Msa0382040 | Msa0520540 | 0.819834 | 9.429665e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0382040 | MtrunA17_Chr3g0136311 | 93.750 | 112 | 6 | 1 | 1 | 111 | 1 | 112 | 1.89e-63 | 188 |
| Msa0382040 | MtrunA17_Chr1g0150981 | 62.162 | 111 | 42 | 0 | 1 | 111 | 1 | 111 | 6.69e-39 | 126 |
| Msa0382040 | 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_1:-84506863 | Msa0382040:CDS |
| CATAGAGTTTGTGGTTCTTC+AGG | 0.329172 | 3_1:-84506837 | Msa0382040:CDS |
| GAACTTGGAGCTTGCGGAAA+AGG | 0.388286 | 3_1:-84507086 | Msa0382040:CDS |
| AACCCACAAATGTTGCTGTT+TGG | 0.408031 | 3_1:-84506950 | Msa0382040:CDS |
| TACTGGATTCATAGAGTTTG+TGG | 0.417096 | 3_1:-84506846 | Msa0382040:CDS |
| CACTCATAAATCATGGAACT+TGG | 0.440880 | 3_1:-84507101 | None:intergenic |
| TGTGGCTTCTACTCTTTACA+TGG | 0.447712 | 3_1:-84507009 | Msa0382040:CDS |
| AGCTTTCTTGGACCAGAGCT+TGG | 0.471430 | 3_1:-84506883 | Msa0382040:CDS |
| CGGTTTGGTGGTTCTTGCTG+TGG | 0.481772 | 3_1:-84507027 | Msa0382040:CDS |
| GATCAAACACGGCCAAGCTC+TGG | 0.503201 | 3_1:+84506871 | None:intergenic |
| GAGACTAGCTACCATCGGTT+TGG | 0.505895 | 3_1:-84507042 | Msa0382040:CDS |
| GGAGCTTGCGGAAAAGGAAA+CGG | 0.505911 | 3_1:-84507080 | Msa0382040:CDS |
| AACCAAACAGCAACATTTGT+GGG | 0.519674 | 3_1:+84506948 | None:intergenic |
| TAACCAAACAGCAACATTTG+TGG | 0.524122 | 3_1:+84506947 | None:intergenic |
| ATCATGGAACTTGGAGCTTG+CGG | 0.535061 | 3_1:-84507092 | Msa0382040:CDS |
| TCATCTTCCAACTCACACTC+TGG | 0.536497 | 3_1:+84506978 | None:intergenic |
| ACTAGCTACCATCGGTTTGG+TGG | 0.545343 | 3_1:-84507039 | Msa0382040:CDS |
| GCGAAAGCCAGAGTGTGAGT+TGG | 0.568295 | 3_1:-84506985 | Msa0382040:CDS |
| AGAGTTTGTGGTTCTTCAGG+CGG | 0.609490 | 3_1:-84506834 | Msa0382040:CDS |
| AGCAAGAACCACCAAACCGA+TGG | 0.625486 | 3_1:+84507031 | None:intergenic |
| TATGAGAGACTAGCTACCAT+CGG | 0.655093 | 3_1:-84507047 | Msa0382040:CDS |
| AATCCAGTAACGATCAAACA+CGG | 0.690606 | 3_1:+84506860 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTCTTTTTCTTATTTTGAAG+TGG | - | chr3_1:84507074-84507093 | Msa0382040:CDS | 20.0% |
| ATCAATAAAAAGAGCAGCAA+AGG | + | chr3_1:84506944-84506963 | None:intergenic | 30.0% | |
| !!! | CATAGTTTTATCAGCTTTCT+TGG | - | chr3_1:84506970-84506989 | Msa0382040:CDS | 30.0% |
| AACCAAACAGCAACATTTGT+GGG | + | chr3_1:84506920-84506939 | None:intergenic | 35.0% | |
| TAACCAAACAGCAACATTTG+TGG | + | chr3_1:84506921-84506940 | None:intergenic | 35.0% | |
| AATCCAGTAACGATCAAACA+CGG | + | chr3_1:84507008-84507027 | None:intergenic | 35.0% | |
| TACTGGATTCATAGAGTTTG+TGG | - | chr3_1:84507019-84507038 | Msa0382040:CDS | 35.0% | |
| ! | TATGAGAGACTAGCTACCAT+CGG | - | chr3_1:84506818-84506837 | Msa0382040:CDS | 40.0% |
| TGTGGCTTCTACTCTTTACA+TGG | - | chr3_1:84506856-84506875 | Msa0382040:CDS | 40.0% | |
| ! | AACCCACAAATGTTGCTGTT+TGG | - | chr3_1:84506915-84506934 | Msa0382040:CDS | 40.0% |
| CATAGAGTTTGTGGTTCTTC+AGG | - | chr3_1:84507028-84507047 | Msa0382040:CDS | 40.0% | |
| TCATCTTCCAACTCACACTC+TGG | + | chr3_1:84506890-84506909 | None:intergenic | 45.0% | |
| AGAGTTTGTGGTTCTTCAGG+CGG | - | chr3_1:84507031-84507050 | Msa0382040:CDS | 45.0% | |
| GAACTTGGAGCTTGCGGAAA+AGG | - | chr3_1:84506779-84506798 | Msa0382040:CDS | 50.0% | |
| GGAGCTTGCGGAAAAGGAAA+CGG | - | chr3_1:84506785-84506804 | Msa0382040:CDS | 50.0% | |
| ! | GAGACTAGCTACCATCGGTT+TGG | - | chr3_1:84506823-84506842 | Msa0382040:CDS | 50.0% |
| !! | ACTAGCTACCATCGGTTTGG+TGG | - | chr3_1:84506826-84506845 | Msa0382040:CDS | 50.0% |
| AGCAAGAACCACCAAACCGA+TGG | + | chr3_1:84506837-84506856 | None:intergenic | 50.0% | |
| AGCTTTCTTGGACCAGAGCT+TGG | - | chr3_1:84506982-84507001 | Msa0382040:CDS | 50.0% | |
| TGGCCGTGTTTGATCGTTAC+TGG | - | chr3_1:84507002-84507021 | Msa0382040:CDS | 50.0% | |
| !! | CGGTTTGGTGGTTCTTGCTG+TGG | - | chr3_1:84506838-84506857 | Msa0382040:CDS | 55.0% |
| GCGAAAGCCAGAGTGTGAGT+TGG | - | chr3_1:84506880-84506899 | Msa0382040:CDS | 55.0% | |
| GATCAAACACGGCCAAGCTC+TGG | + | chr3_1:84506997-84507016 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 84506776 | 84507111 | 84506776 | ID=Msa0382040;Name=Msa0382040 |
| chr3_1 | mRNA | 84506776 | 84507111 | 84506776 | ID=Msa0382040-mRNA-1;Parent=Msa0382040;Name=Msa0382040-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|111 |
| chr3_1 | exon | 84506776 | 84507111 | 84506776 | ID=Msa0382040-mRNA-1:exon:22026;Parent=Msa0382040-mRNA-1 |
| chr3_1 | CDS | 84506776 | 84507111 | 84506776 | ID=Msa0382040-mRNA-1:cds;Parent=Msa0382040-mRNA-1 |
| Gene Sequence |
| Protein sequence |
