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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0650550 | KEH30808.1 | 86.275 | 102 | 14 | 0 | 1 | 102 | 140 | 241 | 6.85e-51 | 172 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0650550 | A0A072UP61 | 86.275 | 102 | 14 | 0 | 1 | 102 | 140 | 241 | 3.27e-51 | 172 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002690 | Msa0650550 | -0.819069 | 1.409128e-52 | -8.615850e-47 |
| Msa0002700 | Msa0650550 | -0.818245 | 2.167533e-52 | -8.615850e-47 |
| Msa0004180 | Msa0650550 | -0.837822 | 4.143237e-57 | -8.615850e-47 |
| Msa0004990 | Msa0650550 | 0.803495 | 3.392272e-49 | -8.615850e-47 |
| Msa0021240 | Msa0650550 | -0.818489 | 1.908327e-52 | -8.615850e-47 |
| Msa0021400 | Msa0650550 | 0.821487 | 3.933265e-53 | -8.615850e-47 |
| Msa0021570 | Msa0650550 | -0.820587 | 6.340768e-53 | -8.615850e-47 |
| Msa0024320 | Msa0650550 | -0.802379 | 5.769006e-49 | -8.615850e-47 |
| Msa0027020 | Msa0650550 | -0.823315 | 1.480015e-53 | -8.615850e-47 |
| Msa0028410 | Msa0650550 | -0.804450 | 2.147363e-49 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0650550 | MtrunA17_Chr4g0042801 | 86.275 | 102 | 14 | 0 | 1 | 102 | 140 | 241 | 6.30e-55 | 172 |
| Msa0650550 | MtrunA17_Chr4g0042781 | 68.033 | 122 | 39 | 0 | 1 | 122 | 163 | 284 | 1.68e-51 | 164 |
| Msa0650550 | MtrunA17_Chr4g0042791 | 63.492 | 126 | 42 | 2 | 1 | 122 | 155 | 280 | 2.98e-34 | 119 |
| Msa0650550 | MtrunA17_Chr4g0042811 | 37.903 | 124 | 58 | 3 | 4 | 111 | 195 | 315 | 2.79e-17 | 75.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0650550 | AT3G11810.1 | 41.129 | 124 | 50 | 2 | 11 | 111 | 202 | 325 | 2.51e-18 | 79.0 |
| Msa0650550 | AT2G03330.1 | 41.935 | 124 | 49 | 3 | 11 | 111 | 239 | 362 | 4.32e-12 | 62.0 |
Find 22 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGGAGAAGCACACTGAAGT+TGG | 0.523808 | 4_3:-57665793 | Msa0650550:CDS |
| AGAAGTTGGAAATTGGTGAA+AGG | 0.577351 | 4_3:-57665982 | Msa0650550:CDS |
| AGCATAAGCATTGTTTGTAT+AGG | 0.477285 | 4_3:+57665856 | None:intergenic |
| AGTGAAAGTTATTGTTGTGG+TGG | 0.580518 | 4_3:-57666034 | Msa0650550:CDS |
| ATTGAAAAGAAGTTGGAAAT+TGG | 0.291924 | 4_3:-57665989 | Msa0650550:CDS |
| ATTTGAGAAGGCAAAGGACG+AGG | 0.569011 | 4_3:-57665761 | Msa0650550:CDS |
| CTTAGTGAAAGTTATTGTTG+TGG | 0.623664 | 4_3:-57666037 | Msa0650550:CDS |
| GAAGCACACTGAAGTTGGAG+AGG | 0.605440 | 4_3:-57665788 | Msa0650550:CDS |
| GCACACTGAAGTTGGAGAGG+AGG | 0.554051 | 4_3:-57665785 | Msa0650550:CDS |
| GGAGGAATTTGAGAAGGCAA+AGG | 0.622313 | 4_3:-57665767 | Msa0650550:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTTAGTGAAAGTTATTGTTG+TGG | - | chr4_3:57665785-57665804 | Msa0650550:CDS | 30.0% | |
| TCTTAGAAGTGATATTGCTA+TGG | - | chr4_3:57665904-57665923 | Msa0650550:CDS | 30.0% | |
| AGTGAAAGTTATTGTTGTGG+TGG | - | chr4_3:57665788-57665807 | Msa0650550:CDS | 35.0% | |
| TGGAACCATTGAAAAGAAGT+TGG | - | chr4_3:57665826-57665845 | Msa0650550:CDS | 35.0% | |
| AGAAGTTGGAAATTGGTGAA+AGG | - | chr4_3:57665840-57665859 | Msa0650550:CDS | 35.0% | |
| GTGATATTGCTATGGATAAG+TGG | - | chr4_3:57665912-57665931 | Msa0650550:CDS | 35.0% | |
| GGTGAAAGGAATGAGAAAGT+TGG | - | chr4_3:57665854-57665873 | Msa0650550:CDS | 40.0% | |
| GGTGGTATACATATACTGCA+AGG | - | chr4_3:57666010-57666029 | Msa0650550:CDS | 40.0% | |
| TGGAGAGGAGGAATTTGAGA+AGG | - | chr4_3:57666049-57666068 | Msa0650550:CDS | 45.0% | |
| GGAGGAATTTGAGAAGGCAA+AGG | - | chr4_3:57666055-57666074 | Msa0650550:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 57665738 | 57666106 | 57665738 | ID=Msa0650550;Name=Msa0650550 |
| chr4_3 | mRNA | 57665738 | 57666106 | 57665738 | ID=Msa0650550-mRNA-1;Parent=Msa0650550;Name=Msa0650550-mRNA-1;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|122 |
| chr4_3 | exon | 57665738 | 57666106 | 57665738 | ID=Msa0650550-mRNA-1:exon:15123;Parent=Msa0650550-mRNA-1 |
| chr4_3 | CDS | 57665738 | 57666106 | 57665738 | ID=Msa0650550-mRNA-1:cds;Parent=Msa0650550-mRNA-1 |
| Gene Sequence |
>Msa0650550 ATGGTTTTAATGCTTGTTTTTATGACGTATTTGGTAGTTAACTTGAGCTTAGTGAAAGTTATTGTTGTGGTGGAATCAAGCTGGGGTTTGGAACCATTGAAAAGAAGTTGGAAATTGGTGAAAGGAATGAGAAAGTTGGTATTTTCGATCTGTTACTTGTTTGGGTTCTTAGAAGTGATATTGCTATGGATAAGTGGTTACAATTTAGTACTGATTTTCGTGATTTCTCCTATACAAACAATGCTTATGCTTTACAATATTGCTGTTTTTACGGTGGTATACATATACTGCAAGGAGAAGCACACTGAAGTTGGAGAGGAGGAATTTGAGAAGGCAAAGGACGAGGCTAGTTTGTCCTTAATTCCATAG |
| Protein sequence |
>Msa0650550 MVLMLVFMTYLVVNLSLVKVIVVVESSWGLEPLKRSWKLVKGMRKLVFSICYLFGFLEVILLWISGYNLVLIFVISPIQTMLMLYNIAVFTVVYIYCKEKHTEVGEEEFEKAKDEASLSLIP* |
