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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0795000 | XP_003611012.1 | 90.576 | 191 | 14 | 2 | 1 | 187 | 1 | 191 | 5.16e-100 | 297 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0795000 | G7KAM4 | 90.576 | 191 | 14 | 2 | 1 | 187 | 1 | 191 | 2.46e-100 | 297 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0795000 | Msa0973600 | 0.814384 | 1.583410e-51 | -8.615850e-47 |
| Msa0516370 | Msa0795000 | 0.801068 | 1.071840e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0795000 | MtrunA17_Chr5g0396791 | 90.576 | 191 | 14 | 2 | 1 | 187 | 1 | 191 | 4.75e-104 | 297 |
| Msa0795000 | MtrunA17_Chr8g0387971 | 49.718 | 177 | 75 | 6 | 20 | 187 | 4 | 175 | 2.10e-42 | 140 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0795000 | AT5G41810.2 | 47.486 | 179 | 66 | 7 | 25 | 187 | 113 | 279 | 6.16e-34 | 121 |
| Msa0795000 | AT5G41810.1 | 47.486 | 179 | 66 | 7 | 25 | 187 | 122 | 288 | 6.53e-34 | 122 |
| Msa0795000 | AT1G64340.1 | 41.618 | 173 | 78 | 9 | 5 | 177 | 105 | 254 | 2.13e-20 | 85.9 |
| Msa0795000 | AT1G64340.2 | 41.618 | 173 | 78 | 9 | 5 | 177 | 101 | 250 | 2.33e-20 | 85.9 |
Find 27 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCCAAAGAGTGTTTGTATA+TGG | 0.256621 | 5_3:+6883762 | Msa0795000:CDS |
| AACCATATACAAACACTCTT+TGG | 0.339260 | 5_3:-6883764 | None:intergenic |
| ATCTCAAATTCAGGAACTTC+AGG | 0.352303 | 5_3:-6883820 | None:intergenic |
| TATATGGTTTATGATAAGTC+TGG | 0.403894 | 5_3:+6883778 | Msa0795000:CDS |
| AGAACACCAATCTCAAATTC+AGG | 0.405479 | 5_3:-6883829 | None:intergenic |
| CGGTTCACGACCACCACAAT+TGG | 0.418761 | 5_3:+6883895 | Msa0795000:CDS |
| TTTGAAACTATTGCTGCTGC+TGG | 0.434551 | 5_3:-6883725 | None:intergenic |
| TTCGTCTTCTTCTTCTTCGT+CGG | 0.441709 | 5_3:+6883594 | Msa0795000:CDS |
| GAAGTTCCTGAATTTGAGAT+TGG | 0.459665 | 5_3:+6883823 | Msa0795000:CDS |
| GAAACTCTCAAAAGAAGAAA+AGG | 0.464081 | 5_3:+6883381 | Msa0795000:CDS |
| TAGCTATGGCTGAGTCAAGT+TGG | 0.506140 | 5_3:-6883498 | None:intergenic |
| AACAATACTGTGTGGGATTG+TGG | 0.510651 | 5_3:+6883433 | Msa0795000:CDS |
| TCAGGTATAGTAGAAAGAAC+TGG | 0.526063 | 5_3:-6883802 | None:intergenic |
| TTTGAAGGAGTTGAGTTCAA+AGG | 0.528528 | 5_3:-6883473 | None:intergenic |
| TTAACCAAGGAAAATACCTC+AGG | 0.528566 | 5_3:-6883856 | None:intergenic |
| AGTACTGTGACTCGACGCTC+TGG | 0.541151 | 5_3:-6883562 | None:intergenic |
| TATAATGTTTGAATTAGCTA+TGG | 0.559243 | 5_3:-6883512 | None:intergenic |
| AACGTTTCAAGCAGTATCAC+TGG | 0.562635 | 5_3:+6883700 | Msa0795000:CDS |
| GACGCACGCAATACCAATTG+TGG | 0.574615 | 5_3:-6883908 | None:intergenic |
| AAAGAACGAGAAATCTTGTA+CGG | 0.579520 | 5_3:-6883631 | None:intergenic |
| TTAAAAGGTCAGCTTCTGAT+CGG | 0.581046 | 5_3:+6883875 | Msa0795000:CDS |
| GATTGGTGTTCTTTCGCCTG+AGG | 0.584037 | 5_3:+6883840 | Msa0795000:CDS |
| AGTGATACTGCTTGAAACGT+TGG | 0.596196 | 5_3:-6883698 | None:intergenic |
| ACGCTCTGGTAAATGAGACA+TGG | 0.620109 | 5_3:-6883548 | None:intergenic |
| TTACAGTAACAATACTGTGT+GGG | 0.630575 | 5_3:+6883426 | Msa0795000:CDS |
| ATTACAGTAACAATACTGTG+TGG | 0.648163 | 5_3:+6883425 | Msa0795000:CDS |
| GCACGCAATACCAATTGTGG+TGG | 0.661029 | 5_3:-6883905 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATAATGTTTGAATTAGCTA+TGG | - | chr5_3:6883515-6883534 | None:intergenic | 20.0% |
| ! | TATATGGTTTATGATAAGTC+TGG | + | chr5_3:6883778-6883797 | Msa0795000:CDS | 25.0% |
| GAAACTCTCAAAAGAAGAAA+AGG | + | chr5_3:6883381-6883400 | Msa0795000:CDS | 30.0% | |
| ATTACAGTAACAATACTGTG+TGG | + | chr5_3:6883425-6883444 | Msa0795000:CDS | 30.0% | |
| TTACAGTAACAATACTGTGT+GGG | + | chr5_3:6883426-6883445 | Msa0795000:CDS | 30.0% | |
| AAAGAACGAGAAATCTTGTA+CGG | - | chr5_3:6883634-6883653 | None:intergenic | 30.0% | |
| AACCATATACAAACACTCTT+TGG | - | chr5_3:6883767-6883786 | None:intergenic | 30.0% | |
| ! | AGGTATTTTCCTTGGTTAAA+AGG | + | chr5_3:6883860-6883879 | Msa0795000:CDS | 30.0% |
| TTTGAAGGAGTTGAGTTCAA+AGG | - | chr5_3:6883476-6883495 | None:intergenic | 35.0% | |
| !!! | TGAGTCAAGTTGGTTTTTGA+AGG | - | chr5_3:6883491-6883510 | None:intergenic | 35.0% |
| !!! | ATTCGTTCAGTTTTCAAGTC+AGG | + | chr5_3:6883664-6883683 | Msa0795000:CDS | 35.0% |
| !! | CTCCAAAGAGTGTTTGTATA+TGG | + | chr5_3:6883762-6883781 | Msa0795000:CDS | 35.0% |
| TCAGGTATAGTAGAAAGAAC+TGG | - | chr5_3:6883805-6883824 | None:intergenic | 35.0% | |
| ATCTCAAATTCAGGAACTTC+AGG | - | chr5_3:6883823-6883842 | None:intergenic | 35.0% | |
| ! | GAAGTTCCTGAATTTGAGAT+TGG | + | chr5_3:6883823-6883842 | Msa0795000:CDS | 35.0% |
| AGAACACCAATCTCAAATTC+AGG | - | chr5_3:6883832-6883851 | None:intergenic | 35.0% | |
| TTAACCAAGGAAAATACCTC+AGG | - | chr5_3:6883859-6883878 | None:intergenic | 35.0% | |
| TTAAAAGGTCAGCTTCTGAT+CGG | + | chr5_3:6883875-6883894 | Msa0795000:CDS | 35.0% | |
| AACAATACTGTGTGGGATTG+TGG | + | chr5_3:6883433-6883452 | Msa0795000:CDS | 40.0% | |
| TTCGTCTTCTTCTTCTTCGT+CGG | + | chr5_3:6883594-6883613 | Msa0795000:CDS | 40.0% | |
| AGTGATACTGCTTGAAACGT+TGG | - | chr5_3:6883701-6883720 | None:intergenic | 40.0% | |
| AACGTTTCAAGCAGTATCAC+TGG | + | chr5_3:6883700-6883719 | Msa0795000:CDS | 40.0% | |
| ! | TTTGAAACTATTGCTGCTGC+TGG | - | chr5_3:6883728-6883747 | None:intergenic | 40.0% |
| ! | AGAAGCTGACCTTTTAACCA+AGG | - | chr5_3:6883872-6883891 | None:intergenic | 40.0% |
| TAGCTATGGCTGAGTCAAGT+TGG | - | chr5_3:6883501-6883520 | None:intergenic | 45.0% | |
| ACGCTCTGGTAAATGAGACA+TGG | - | chr5_3:6883551-6883570 | None:intergenic | 45.0% | |
| !! | TTCGCCTGAGGTATTTTCCT+TGG | + | chr5_3:6883852-6883871 | Msa0795000:CDS | 45.0% |
| ! | GATTGGTGTTCTTTCGCCTG+AGG | + | chr5_3:6883840-6883859 | Msa0795000:CDS | 50.0% |
| GCACGCAATACCAATTGTGG+TGG | - | chr5_3:6883908-6883927 | None:intergenic | 50.0% | |
| GACGCACGCAATACCAATTG+TGG | - | chr5_3:6883911-6883930 | None:intergenic | 50.0% | |
| AGTACTGTGACTCGACGCTC+TGG | - | chr5_3:6883565-6883584 | None:intergenic | 55.0% | |
| CGGTTCACGACCACCACAAT+TGG | + | chr5_3:6883895-6883914 | Msa0795000:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 6883370 | 6883933 | 6883370 | ID=Msa0795000;Name=Msa0795000 |
| chr5_3 | mRNA | 6883370 | 6883933 | 6883370 | ID=Msa0795000-mRNA-1;Parent=Msa0795000;Name=Msa0795000-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|187 |
| chr5_3 | exon | 6883370 | 6883933 | 6883370 | ID=Msa0795000-mRNA-1:exon:2818;Parent=Msa0795000-mRNA-1 |
| chr5_3 | CDS | 6883370 | 6883933 | 6883370 | ID=Msa0795000-mRNA-1:cds;Parent=Msa0795000-mRNA-1 |
| Gene Sequence |
| Protein sequence |
