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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0039220 | A0A072VQJ3 | 93.651 | 63 | 3 | 1 | 13 | 74 | 719 | 781 | 8.30e-31 | 123 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0039220 | Msa0059890 | 0.806929 | 6.477579e-50 | -8.615850e-47 |
| Msa0039220 | Msa0086840 | 0.933298 | 2.323985e-95 | -8.615850e-47 |
| Msa0039220 | Msa0435220 | 0.802774 | 4.781768e-49 | -8.615850e-47 |
| Msa0039220 | Msa0628290 | 0.804251 | 2.362834e-49 | -8.615850e-47 |
| Msa0039220 | Msa0796440 | 0.809630 | 1.720977e-50 | -8.615850e-47 |
| Msa0039220 | Msa0820250 | 0.806288 | 8.845506e-50 | -8.615850e-47 |
| Msa0039220 | Msa1032170 | 0.813175 | 2.923049e-51 | -8.615850e-47 |
| Msa0039220 | Msa1340810 | 0.812302 | 4.540053e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0039220 | MtrunA17_Chr1g0203341 | 93.651 | 63 | 3 | 1 | 13 | 74 | 803 | 865 | 2.30e-34 | 122 |
| Msa0039220 | MtrunA17_Chr1g0203311 | 84.211 | 57 | 6 | 2 | 21 | 74 | 1 | 57 | 6.75e-26 | 90.1 |
| Msa0039220 | MtrunA17_Chr1g0203351 | 67.797 | 59 | 10 | 3 | 13 | 70 | 637 | 687 | 1.05e-14 | 67.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GACAGGGTTAAGGATTATTA+TGG | 0.244321 | 1_1:-68769861 | Msa0039220:CDS |
| TTAAGGATTATTATGGATCT+TGG | 0.355305 | 1_1:-68769854 | Msa0039220:CDS |
| AGGTATGGTTGACAGGGTTA+AGG | 0.362709 | 1_1:-68769871 | Msa0039220:CDS |
| TGTGGTGATTGATTCTCCTC+AGG | 0.432207 | 1_1:+68769822 | None:intergenic |
| CAGGAAAAGGTATGGTTGAC+AGG | 0.438569 | 1_1:-68769878 | Msa0039220:CDS |
| TAAAGATCATGTTGCAGAAG+TGG | 0.479475 | 1_1:-68769677 | Msa0039220:CDS |
| ATAATTAATGTGGCTAGTCC+AGG | 0.492026 | 1_1:-68769897 | Msa0039220:CDS |
| TTTGAAGAGAATAATTAATG+TGG | 0.538844 | 1_1:-68769907 | Msa0039220:CDS |
| GTTGGCAAAGGTGTGGATGA+AGG | 0.542986 | 1_1:-68769649 | Msa0039220:CDS |
| AATGTGGCTAGTCCAGGAAA+AGG | 0.543824 | 1_1:-68769891 | Msa0039220:CDS |
| GGCTAGTCCAGGAAAAGGTA+TGG | 0.587117 | 1_1:-68769886 | Msa0039220:CDS |
| TGAGGAGAATCAATCACCAC+AGG | 0.595498 | 1_1:-68769820 | Msa0039220:CDS |
| GCAAAGGTGTGGATGAAGGA+AGG | 0.607651 | 1_1:-68769645 | Msa0039220:CDS |
| GTTGCAGAAGTGGAACAAGT+TGG | 0.612425 | 1_1:-68769667 | Msa0039220:CDS |
| ATCTTGGTTTGCTAAACCTG+AGG | 0.638772 | 1_1:-68769838 | Msa0039220:CDS |
| GAAGTGGAACAAGTTGGCAA+AGG | 0.645524 | 1_1:-68769661 | Msa0039220:CDS |
| GGAACAAGTTGGCAAAGGTG+TGG | 0.655366 | 1_1:-68769656 | Msa0039220:CDS |
| AGGAAAAGGTATGGTTGACA+GGG | 0.656335 | 1_1:-68769877 | Msa0039220:CDS |
| GAGGAGAATCAATCACCACA+GGG | 0.732593 | 1_1:-68769819 | Msa0039220:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TATGTTGTTATTATACTTAT+AGG | - | chr1_1:68769833-68769852 | Msa0039220:CDS | 15.0% |
| !! | TTTGAAGAGAATAATTAATG+TGG | - | chr1_1:68769653-68769672 | Msa0039220:CDS | 20.0% |
| ! | TTAAGGATTATTATGGATCT+TGG | - | chr1_1:68769706-68769725 | Msa0039220:CDS | 25.0% |
| ! | GTTATTATACTTATAGGTGT+AGG | - | chr1_1:68769839-68769858 | Msa0039220:CDS | 25.0% |
| ! | ATAATTAATGTGGCTAGTCC+AGG | - | chr1_1:68769663-68769682 | Msa0039220:CDS | 35.0% |
| GACAGGGTTAAGGATTATTA+TGG | - | chr1_1:68769699-68769718 | Msa0039220:CDS | 35.0% | |
| AGAGAAAAAGAATTACCCTG+TGG | + | chr1_1:68769759-68769778 | None:intergenic | 35.0% | |
| TAAAGATCATGTTGCAGAAG+TGG | - | chr1_1:68769883-68769902 | Msa0039220:CDS | 35.0% | |
| ! | AGGAAAAGGTATGGTTGACA+GGG | - | chr1_1:68769683-68769702 | Msa0039220:CDS | 40.0% |
| !! | ATCTTGGTTTGCTAAACCTG+AGG | - | chr1_1:68769722-68769741 | Msa0039220:intron | 40.0% |
| ! | AATGTGGCTAGTCCAGGAAA+AGG | - | chr1_1:68769669-68769688 | Msa0039220:CDS | 45.0% |
| ! | CTGTCAACCATACCTTTTCC+TGG | + | chr1_1:68769684-68769703 | None:intergenic | 45.0% |
| ! | CAGGAAAAGGTATGGTTGAC+AGG | - | chr1_1:68769682-68769701 | Msa0039220:CDS | 45.0% |
| AGGTATGGTTGACAGGGTTA+AGG | - | chr1_1:68769689-68769708 | Msa0039220:CDS | 45.0% | |
| ! | TGTGGTGATTGATTCTCCTC+AGG | + | chr1_1:68769741-68769760 | None:intergenic | 45.0% |
| TGAGGAGAATCAATCACCAC+AGG | - | chr1_1:68769740-68769759 | Msa0039220:intron | 45.0% | |
| GAGGAGAATCAATCACCACA+GGG | - | chr1_1:68769741-68769760 | Msa0039220:intron | 45.0% | |
| GTTGCAGAAGTGGAACAAGT+TGG | - | chr1_1:68769893-68769912 | Msa0039220:CDS | 45.0% | |
| ! | GAAGTGGAACAAGTTGGCAA+AGG | - | chr1_1:68769899-68769918 | Msa0039220:CDS | 45.0% |
| ! | GGCTAGTCCAGGAAAAGGTA+TGG | - | chr1_1:68769674-68769693 | Msa0039220:CDS | 50.0% |
| ! | GGAACAAGTTGGCAAAGGTG+TGG | - | chr1_1:68769904-68769923 | Msa0039220:CDS | 50.0% |
| ! | GTTGGCAAAGGTGTGGATGA+AGG | - | chr1_1:68769911-68769930 | Msa0039220:CDS | 50.0% |
| ! | GCAAAGGTGTGGATGAAGGA+AGG | - | chr1_1:68769915-68769934 | Msa0039220:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 68769633 | 68769949 | 68769633 | ID=Msa0039220;Name=Msa0039220 |
| chr1_1 | mRNA | 68769633 | 68769949 | 68769633 | ID=Msa0039220-mRNA-1;Parent=Msa0039220;Name=Msa0039220-mRNA-1;_AED=0.49;_eAED=0.57;_QI=0|0|0|1|1|1|2|0|74 |
| chr1_1 | exon | 68769820 | 68769949 | 68769820 | ID=Msa0039220-mRNA-1:exon:22502;Parent=Msa0039220-mRNA-1 |
| chr1_1 | exon | 68769633 | 68769727 | 68769633 | ID=Msa0039220-mRNA-1:exon:22501;Parent=Msa0039220-mRNA-1 |
| chr1_1 | CDS | 68769820 | 68769949 | 68769820 | ID=Msa0039220-mRNA-1:cds;Parent=Msa0039220-mRNA-1 |
| chr1_1 | CDS | 68769633 | 68769727 | 68769633 | ID=Msa0039220-mRNA-1:cds;Parent=Msa0039220-mRNA-1 |
| Gene Sequence |
| Protein sequence |
