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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0736270 | XP_024639454.1 | 95.238 | 42 | 2 | 0 | 1 | 42 | 489 | 530 | 1.77e-17 | 86.3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0736270 | A0A396HXY4 | 95.238 | 42 | 2 | 0 | 1 | 42 | 485 | 526 | 8.98e-18 | 86.3 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0736270 | Msa0815380 | 0.808852 | 2.526466e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0736270 | MtrunA17_Chr5g0433421 | 95.238 | 42 | 2 | 0 | 1 | 42 | 485 | 526 | 1.73e-21 | 86.3 |
| Msa0736270 | MtrunA17_Chr5g0433511 | 85.714 | 42 | 6 | 0 | 1 | 42 | 419 | 460 | 8.77e-18 | 75.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 13 sgRNAs with CRISPR-Local
Find 16 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAATTTGTGAAGCAGAGATT+TGG | 0.331302 | 5_1:-52372803 | Msa0736270:CDS |
| TTTGAGAAAATTTGCTCTCT+AGG | 0.357550 | 5_1:+52373004 | None:intergenic |
| GTGCATACAAGGAAAATATA+AGG | 0.370607 | 5_1:-52372922 | Msa0736270:CDS |
| GCTCCATGGTCATGATACTT+TGG | 0.451138 | 5_1:+52372825 | None:intergenic |
| TTGAGAAAATTTGCTCTCTA+GGG | 0.475004 | 5_1:+52373005 | None:intergenic |
| AGGGATATGTGAAGAGAGCA+AGG | 0.483369 | 5_1:-52372868 | Msa0736270:CDS |
| TACAAGGAAAATATAAGGTA+TGG | 0.503727 | 5_1:-52372917 | Msa0736270:intron |
| AAGCTTAATGCAGCTGCTTG+AGG | 0.542347 | 5_1:-52373029 | None:intergenic |
| ATCTGCATATAGTGCATACA+AGG | 0.548269 | 5_1:-52372933 | Msa0736270:CDS |
| CTGCTTCACAAATTGCTCCA+TGG | 0.567182 | 5_1:+52372811 | None:intergenic |
| TATTTGTAGCAAAATCATCA+AGG | 0.574237 | 5_1:+52372966 | None:intergenic |
| ATTTGTAGCAAAATCATCAA+GGG | 0.604824 | 5_1:+52372967 | None:intergenic |
| ATACCAAAGTATCATGACCA+TGG | 0.651702 | 5_1:-52372828 | Msa0736270:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | ATTTGTAGCAAAATCATCAA+GGG | + | chr5_1:52372849-52372868 | None:intergenic | 25.0% |
| ! | TATTTGTAGCAAAATCATCA+AGG | + | chr5_1:52372850-52372869 | None:intergenic | 25.0% |
| ! | TACAAGGAAAATATAAGGTA+TGG | - | chr5_1:52372896-52372915 | Msa0736270:intron | 25.0% |
| ! | TTGAGAAAATTTGCTCTCTA+GGG | + | chr5_1:52372811-52372830 | None:intergenic | 30.0% |
| ! | TTTGAGAAAATTTGCTCTCT+AGG | + | chr5_1:52372812-52372831 | None:intergenic | 30.0% |
| ! | AGAGCAAATTTTCTCAAAGA+TGG | - | chr5_1:52372814-52372833 | Msa0736270:CDS | 30.0% |
| ! | GAGCAAATTTTCTCAAAGAT+GGG | - | chr5_1:52372815-52372834 | Msa0736270:CDS | 30.0% |
| GTGCATACAAGGAAAATATA+AGG | - | chr5_1:52372891-52372910 | Msa0736270:intron | 30.0% | |
| !! | TGATGATTCTTTGACTTTTG+AGG | - | chr5_1:52372925-52372944 | Msa0736270:CDS | 30.0% |
| !! | GATGATTCTTTGACTTTTGA+GGG | - | chr5_1:52372926-52372945 | Msa0736270:CDS | 30.0% |
| ATCTGCATATAGTGCATACA+AGG | - | chr5_1:52372880-52372899 | Msa0736270:intron | 35.0% | |
| ! | ATACCAAAGTATCATGACCA+TGG | - | chr5_1:52372985-52373004 | Msa0736270:CDS | 35.0% |
| CAATTTGTGAAGCAGAGATT+TGG | - | chr5_1:52373010-52373029 | Msa0736270:CDS | 35.0% | |
| AGGGATATGTGAAGAGAGCA+AGG | - | chr5_1:52372945-52372964 | Msa0736270:CDS | 45.0% | |
| GCTCCATGGTCATGATACTT+TGG | + | chr5_1:52372991-52373010 | None:intergenic | 45.0% | |
| CTGCTTCACAAATTGCTCCA+TGG | + | chr5_1:52373005-52373024 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 52372791 | 52373044 | 52372791 | ID=Msa0736270;Name=Msa0736270 |
| chr5_1 | mRNA | 52372791 | 52373044 | 52372791 | ID=Msa0736270-mRNA-1;Parent=Msa0736270;Name=Msa0736270-mRNA-1;_AED=0.49;_eAED=0.71;_QI=0|0|0|1|0|0|2|0|74 |
| chr5_1 | exon | 52372918 | 52373044 | 52372918 | ID=Msa0736270-mRNA-1:exon:14793;Parent=Msa0736270-mRNA-1 |
| chr5_1 | exon | 52372791 | 52372888 | 52372791 | ID=Msa0736270-mRNA-1:exon:14792;Parent=Msa0736270-mRNA-1 |
| chr5_1 | CDS | 52372918 | 52373044 | 52372918 | ID=Msa0736270-mRNA-1:cds;Parent=Msa0736270-mRNA-1 |
| chr5_1 | CDS | 52372791 | 52372888 | 52372791 | ID=Msa0736270-mRNA-1:cds;Parent=Msa0736270-mRNA-1 |
| Gene Sequence |
| Protein sequence |
