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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1376830 | AES61500.1 | 94.624 | 93 | 4 | 1 | 1 | 93 | 1 | 92 | 5.73e-47 | 155 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1376830 | 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 | Msa1376830 | 0.880758 | 4.217120e-70 | -8.615850e-47 |
| Msa1376830 | Msa1443140 | 0.883362 | 4.783226e-71 | -8.615850e-47 |
| Msa0173430 | Msa1376830 | 0.844009 | 9.858545e-59 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1376830 | MtrunA17_Chr1g0193301 | 94.624 | 93 | 4 | 1 | 1 | 93 | 1 | 92 | 5.27e-51 | 155 |
| Msa1376830 | MtrunA17_Chr1g0193231 | 93.548 | 93 | 4 | 2 | 1 | 93 | 1 | 91 | 2.05e-48 | 148 |
| Msa1376830 | MtrunA17_Chr1g0193261 | 84.946 | 93 | 12 | 2 | 1 | 93 | 1 | 91 | 1.06e-46 | 144 |
| Msa1376830 | MtrunA17_Chr1g0193291 | 84.946 | 93 | 10 | 2 | 1 | 93 | 1 | 89 | 3.52e-43 | 135 |
| Msa1376830 | MtrunA17_Chr7g0271321 | 62.222 | 90 | 26 | 2 | 1 | 90 | 1 | 82 | 2.09e-31 | 105 |
| Msa1376830 | MtrunA17_Chr1g0193271 | 53.846 | 91 | 32 | 5 | 1 | 91 | 1 | 81 | 4.55e-20 | 77.0 |
| Msa1376830 | 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 | tig0019826:+126575 | Msa1376830:CDS |
| GGAGGGTATTATTATGATAA+TGG | 0.388759 | tig0019826:+126649 | Msa1376830:CDS |
| GTAGCTCTCATGTCAATAAC+AGG | 0.406659 | tig0019826:-126733 | None:intergenic |
| TGATGAAGACAGAGGCAGTT+GGG | 0.419629 | tig0019826:+126699 | Msa1376830:CDS |
| AAGCAAAGAGGAGGAGGAGG+AGG | 0.445528 | tig0019826:+126631 | Msa1376830:CDS |
| TTTCTGAATCTGAAATTCAC+TGG | 0.475847 | tig0019826:+126785 | Msa1376830:CDS |
| CTGCCTCTGTCTTCATCACT+AGG | 0.487696 | tig0019826:-126694 | None:intergenic |
| AACAAGCAAAGAGGAGGAGG+AGG | 0.504904 | tig0019826:+126628 | Msa1376830:CDS |
| AGTAACAAGCAAAGAGGAGG+AGG | 0.509012 | tig0019826:+126625 | Msa1376830:CDS |
| TGGGAGGAAACAACAATCAA+AGG | 0.561722 | tig0019826:+126548 | Msa1376830:CDS |
| GTGATGAAGACAGAGGCAGT+TGG | 0.562563 | tig0019826:+126698 | Msa1376830:CDS |
| GCAAGCTCAACCTGATCAGT+AGG | 0.568773 | tig0019826:+126807 | Msa1376830:CDS |
| GATGAAGACAGAGGCAGTTG+GGG | 0.609217 | tig0019826:+126700 | Msa1376830:CDS |
| TCAAGCAGTAACAAGCAAAG+AGG | 0.618348 | tig0019826:+126619 | Msa1376830:CDS |
| AGCAGTAACAAGCAAAGAGG+AGG | 0.623740 | tig0019826:+126622 | Msa1376830:CDS |
| AGCAAAGAGGAGGAGGAGGA+GGG | 0.628756 | tig0019826:+126632 | Msa1376830:CDS |
| CTACTCATTAGTAAAATGGG+AGG | 0.661778 | tig0019826:+126532 | None:intergenic |
| TGGCCTAGTGATGAAGACAG+AGG | 0.698060 | tig0019826:+126691 | Msa1376830:CDS |
| GTGCATATGATAACAAAGTG+TGG | 0.728033 | tig0019826:+126671 | Msa1376830:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | CATCTAAATCATCATCATTT+AGG | + | tig0019826:126575-126594 | Msa1376830:CDS | 25.0% |
| !! | GGAGGGTATTATTATGATAA+TGG | + | tig0019826:126649-126668 | Msa1376830:CDS | 30.0% |
| ! | TTTCTGAATCTGAAATTCAC+TGG | + | tig0019826:126785-126804 | Msa1376830:CDS | 30.0% |
| GTGCATATGATAACAAAGTG+TGG | + | tig0019826:126671-126690 | Msa1376830:CDS | 35.0% | |
| TGGGAGGAAACAACAATCAA+AGG | + | tig0019826:126548-126567 | Msa1376830:CDS | 40.0% | |
| TCAAGCAGTAACAAGCAAAG+AGG | + | tig0019826:126619-126638 | Msa1376830:CDS | 40.0% | |
| GTAGCTCTCATGTCAATAAC+AGG | - | tig0019826:126736-126755 | None:intergenic | 40.0% | |
| AGCAGTAACAAGCAAAGAGG+AGG | + | tig0019826:126622-126641 | Msa1376830:CDS | 45.0% | |
| AGTAACAAGCAAAGAGGAGG+AGG | + | tig0019826:126625-126644 | Msa1376830:CDS | 45.0% | |
| TGATGAAGACAGAGGCAGTT+GGG | + | tig0019826:126699-126718 | Msa1376830:CDS | 45.0% | |
| AACAAGCAAAGAGGAGGAGG+AGG | + | tig0019826:126628-126647 | Msa1376830:CDS | 50.0% | |
| TGGCCTAGTGATGAAGACAG+AGG | + | tig0019826:126691-126710 | Msa1376830:CDS | 50.0% | |
| CTGCCTCTGTCTTCATCACT+AGG | - | tig0019826:126697-126716 | None:intergenic | 50.0% | |
| GTGATGAAGACAGAGGCAGT+TGG | + | tig0019826:126698-126717 | Msa1376830:CDS | 50.0% | |
| GATGAAGACAGAGGCAGTTG+GGG | + | tig0019826:126700-126719 | Msa1376830:CDS | 50.0% | |
| AAGCAAAGAGGAGGAGGAGG+AGG | + | tig0019826:126631-126650 | Msa1376830:CDS | 55.0% | |
| AGCAAAGAGGAGGAGGAGGA+GGG | + | tig0019826:126632-126651 | Msa1376830:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0019826 | gene | 126547 | 126828 | 126547 | ID=Msa1376830;Name=Msa1376830 |
| tig0019826 | mRNA | 126547 | 126828 | 126547 | ID=Msa1376830-mRNA-1;Parent=Msa1376830;Name=Msa1376830-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|93 |
| tig0019826 | exon | 126547 | 126828 | 126547 | ID=Msa1376830-mRNA-1:exon:5324;Parent=Msa1376830-mRNA-1 |
| tig0019826 | CDS | 126547 | 126828 | 126547 | ID=Msa1376830-mRNA-1:cds;Parent=Msa1376830-mRNA-1 |
| Gene Sequence |
| Protein sequence |
