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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0173430 | G7IAB9 | 94.624 | 93 | 4 | 1 | 1 | 93 | 1 | 92 | 2.74e-47 | 155 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0080910 | Msa0173430 | 0.841273 | 5.252095e-58 | -8.615850e-47 |
| Msa0173430 | Msa1376830 | 0.844009 | 9.858545e-59 | -8.615850e-47 |
| Msa0173430 | Msa1443140 | 0.822382 | 2.440455e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0173430 | MtrunA17_Chr1g0193301 | 94.624 | 93 | 4 | 1 | 1 | 93 | 1 | 92 | 5.27e-51 | 155 |
| Msa0173430 | MtrunA17_Chr1g0193231 | 93.548 | 93 | 4 | 2 | 1 | 93 | 1 | 91 | 2.05e-48 | 148 |
| Msa0173430 | MtrunA17_Chr1g0193261 | 84.946 | 93 | 12 | 2 | 1 | 93 | 1 | 91 | 1.06e-46 | 144 |
| Msa0173430 | MtrunA17_Chr1g0193291 | 84.946 | 93 | 10 | 2 | 1 | 93 | 1 | 89 | 3.52e-43 | 135 |
| Msa0173430 | MtrunA17_Chr7g0271321 | 62.222 | 90 | 26 | 2 | 1 | 90 | 1 | 82 | 2.09e-31 | 105 |
| Msa0173430 | MtrunA17_Chr1g0193271 | 53.846 | 91 | 32 | 5 | 1 | 91 | 1 | 81 | 4.55e-20 | 77.0 |
| Msa0173430 | MtrunA17_Chr1g0193251 | 47.253 | 91 | 38 | 4 | 1 | 91 | 1 | 81 | 1.35e-15 | 65.5 |
| 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 17 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATCTAAATCATCATCATTT+AGG | 0.333148 | 1_4:-58712823 | Msa0173430:CDS |
| GGAGGGTATTATTATGATAA+TGG | 0.388759 | 1_4:-58712749 | Msa0173430:CDS |
| GTAGCTCTCATGTCAATAAC+AGG | 0.406659 | 1_4:+58712665 | None:intergenic |
| TGATGAAGACAGAGGCAGTT+GGG | 0.419629 | 1_4:-58712699 | Msa0173430:CDS |
| AAGCAAAGAGGAGGAGGAGG+AGG | 0.445528 | 1_4:-58712767 | Msa0173430:CDS |
| TTTCTGAATCTGAAATTCAC+TGG | 0.475847 | 1_4:-58712613 | Msa0173430:CDS |
| CTGCCTCTGTCTTCATCACT+AGG | 0.487696 | 1_4:+58712704 | None:intergenic |
| AACAAGCAAAGAGGAGGAGG+AGG | 0.504904 | 1_4:-58712770 | Msa0173430:CDS |
| AGTAACAAGCAAAGAGGAGG+AGG | 0.509012 | 1_4:-58712773 | Msa0173430:CDS |
| TGGGAGGAAACAACAATCAA+AGG | 0.561722 | 1_4:-58712850 | Msa0173430:CDS |
| GTGATGAAGACAGAGGCAGT+TGG | 0.562563 | 1_4:-58712700 | Msa0173430:CDS |
| GCAAGCTCAACCTGATCAGT+AGG | 0.568773 | 1_4:-58712591 | None:intergenic |
| GATGAAGACAGAGGCAGTTG+GGG | 0.609217 | 1_4:-58712698 | Msa0173430:CDS |
| TCAAGCAGTAACAAGCAAAG+AGG | 0.618348 | 1_4:-58712779 | Msa0173430:CDS |
| AGCAGTAACAAGCAAAGAGG+AGG | 0.623740 | 1_4:-58712776 | Msa0173430:CDS |
| AGCAAAGAGGAGGAGGAGGA+GGG | 0.628756 | 1_4:-58712766 | Msa0173430:CDS |
| CTACTCATTAGTAAAATGGG+AGG | 0.661778 | 1_4:-58712866 | None:intergenic |
| TGGCCTAGTGATGAAGACAG+AGG | 0.698060 | 1_4:-58712707 | Msa0173430:CDS |
| GTGCATATGATAACAAAGTG+TGG | 0.728033 | 1_4:-58712727 | Msa0173430:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | CATCTAAATCATCATCATTT+AGG | - | chr1_4:58712620-58712639 | Msa0173430:CDS | 25.0% |
| !! | GGAGGGTATTATTATGATAA+TGG | - | chr1_4:58712694-58712713 | Msa0173430:CDS | 30.0% |
| ! | TTTCTGAATCTGAAATTCAC+TGG | - | chr1_4:58712830-58712849 | Msa0173430:CDS | 30.0% |
| GTGCATATGATAACAAAGTG+TGG | - | chr1_4:58712716-58712735 | Msa0173430:CDS | 35.0% | |
| TGGGAGGAAACAACAATCAA+AGG | - | chr1_4:58712593-58712612 | Msa0173430:CDS | 40.0% | |
| TCAAGCAGTAACAAGCAAAG+AGG | - | chr1_4:58712664-58712683 | Msa0173430:CDS | 40.0% | |
| GTAGCTCTCATGTCAATAAC+AGG | + | chr1_4:58712781-58712800 | None:intergenic | 40.0% | |
| AGCAGTAACAAGCAAAGAGG+AGG | - | chr1_4:58712667-58712686 | Msa0173430:CDS | 45.0% | |
| AGTAACAAGCAAAGAGGAGG+AGG | - | chr1_4:58712670-58712689 | Msa0173430:CDS | 45.0% | |
| TGATGAAGACAGAGGCAGTT+GGG | - | chr1_4:58712744-58712763 | Msa0173430:CDS | 45.0% | |
| AACAAGCAAAGAGGAGGAGG+AGG | - | chr1_4:58712673-58712692 | Msa0173430:CDS | 50.0% | |
| TGGCCTAGTGATGAAGACAG+AGG | - | chr1_4:58712736-58712755 | Msa0173430:CDS | 50.0% | |
| CTGCCTCTGTCTTCATCACT+AGG | + | chr1_4:58712742-58712761 | None:intergenic | 50.0% | |
| GTGATGAAGACAGAGGCAGT+TGG | - | chr1_4:58712743-58712762 | Msa0173430:CDS | 50.0% | |
| GATGAAGACAGAGGCAGTTG+GGG | - | chr1_4:58712745-58712764 | Msa0173430:CDS | 50.0% | |
| AAGCAAAGAGGAGGAGGAGG+AGG | - | chr1_4:58712676-58712695 | Msa0173430:CDS | 55.0% | |
| AGCAAAGAGGAGGAGGAGGA+GGG | - | chr1_4:58712677-58712696 | Msa0173430:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 58712592 | 58712873 | 58712592 | ID=Msa0173430;Name=Msa0173430 |
| chr1_4 | mRNA | 58712592 | 58712873 | 58712592 | ID=Msa0173430-mRNA-1;Parent=Msa0173430;Name=Msa0173430-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|93 |
| chr1_4 | exon | 58712592 | 58712873 | 58712592 | ID=Msa0173430-mRNA-1:exon:18296;Parent=Msa0173430-mRNA-1 |
| chr1_4 | CDS | 58712592 | 58712873 | 58712592 | ID=Msa0173430-mRNA-1:cds;Parent=Msa0173430-mRNA-1 |
| Gene Sequence |
| Protein sequence |
