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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1339590 | KEH16426.1 | 96.629 | 89 | 3 | 0 | 1 | 89 | 1 | 89 | 1.25e-56 | 179 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1339590 | A0A072TFW8 | 96.629 | 89 | 3 | 0 | 1 | 89 | 1 | 89 | 5.96e-57 | 179 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0080890 | Msa1339590 | 0.806016 | 1.009173e-49 | -8.615850e-47 |
| Msa1245250 | Msa1339590 | 0.815727 | 7.970956e-52 | -8.615850e-47 |
| Msa1315420 | Msa1339590 | 0.817955 | 2.520542e-52 | -8.615850e-47 |
| Msa0348190 | Msa1339590 | 0.801171 | 1.021249e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1339590 | MtrunA17_Chr1g0193291 | 96.629 | 89 | 3 | 0 | 1 | 89 | 1 | 89 | 1.15e-60 | 179 |
| Msa1339590 | MtrunA17_Chr1g0193231 | 85.714 | 91 | 11 | 2 | 1 | 89 | 1 | 91 | 1.75e-44 | 138 |
| Msa1339590 | MtrunA17_Chr1g0193301 | 78.261 | 92 | 17 | 2 | 1 | 89 | 1 | 92 | 8.20e-44 | 137 |
| Msa1339590 | MtrunA17_Chr1g0193261 | 84.615 | 91 | 12 | 2 | 1 | 89 | 1 | 91 | 1.44e-42 | 134 |
| Msa1339590 | MtrunA17_Chr7g0271321 | 62.069 | 87 | 27 | 3 | 1 | 86 | 1 | 82 | 3.52e-30 | 102 |
| Msa1339590 | MtrunA17_Chr1g0193271 | 51.724 | 87 | 36 | 4 | 1 | 87 | 1 | 81 | 1.11e-20 | 78.2 |
| Msa1339590 | MtrunA17_Chr1g0193251 | 50.000 | 86 | 36 | 4 | 2 | 87 | 3 | 81 | 3.45e-15 | 64.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 17 sgRNAs with CRISPR-Local
Find 13 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGATGAAGATAGAGGTAGTT+GGG | 0.344602 | tig0003359:-7600 | Msa1339590:CDS |
| AGTCTTCTAAATCATCATTC+AGG | 0.386784 | tig0003359:-7718 | Msa1339590:CDS |
| GTAGCTCTCATGTCAATAAC+AGG | 0.406659 | tig0003359:+7566 | None:intergenic |
| TTTCTGAATCTGAAATTCAC+TGG | 0.499455 | tig0003359:-7514 | Msa1339590:CDS |
| CTACCTCTATCTTCATCACT+TGG | 0.508941 | tig0003359:+7605 | None:intergenic |
| AGTAACAAGCAAAGAGGTGG+AGG | 0.512782 | tig0003359:-7668 | Msa1339590:CDS |
| GTGATGAAGATAGAGGTAGT+TGG | 0.534465 | tig0003359:-7601 | Msa1339590:CDS |
| GGAGGAGAGTATTATGATCA+TGG | 0.541749 | tig0003359:-7650 | Msa1339590:CDS |
| TTGTTCGTATCCTACTGCTC+AGG | 0.553904 | tig0003359:+7482 | None:intergenic |
| GCAAGCTCAACCTGAGCAGT+AGG | 0.565667 | tig0003359:-7492 | None:intergenic |
| TGGCCAAGTGATGAAGATAG+AGG | 0.579214 | tig0003359:-7608 | Msa1339590:CDS |
| AGCAGTAACAAGCAAAGAGG+TGG | 0.595597 | tig0003359:-7671 | Msa1339590:CDS |
| GATGAAGATAGAGGTAGTTG+GGG | 0.608901 | tig0003359:-7599 | Msa1339590:CDS |
| TTTCTCTCTTGTAAAATGGG+AGG | 0.608993 | tig0003359:-7755 | None:intergenic |
| AAATGGGAGGAAACAATCAA+AGG | 0.621803 | tig0003359:-7742 | Msa1339590:CDS |
| TCTAGCAGTAACAAGCAAAG+AGG | 0.646145 | tig0003359:-7674 | Msa1339590:CDS |
| GTGCTTATGCTAACAAAGTG+TGG | 0.723534 | tig0003359:-7628 | Msa1339590:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGTCTTCTAAATCATCATTC+AGG | - | tig0003359:7515-7534 | Msa1339590:CDS | 30.0% | |
| ! | TTTCTGAATCTGAAATTCAC+TGG | - | tig0003359:7719-7738 | Msa1339590:CDS | 30.0% |
| TGATGAAGATAGAGGTAGTT+GGG | - | tig0003359:7633-7652 | Msa1339590:CDS | 35.0% | |
| TCTAGCAGTAACAAGCAAAG+AGG | - | tig0003359:7559-7578 | Msa1339590:CDS | 40.0% | |
| !! | GGAGGAGAGTATTATGATCA+TGG | - | tig0003359:7583-7602 | Msa1339590:CDS | 40.0% |
| GTGCTTATGCTAACAAAGTG+TGG | - | tig0003359:7605-7624 | Msa1339590:CDS | 40.0% | |
| CTACCTCTATCTTCATCACT+TGG | + | tig0003359:7631-7650 | None:intergenic | 40.0% | |
| GTGATGAAGATAGAGGTAGT+TGG | - | tig0003359:7632-7651 | Msa1339590:CDS | 40.0% | |
| GATGAAGATAGAGGTAGTTG+GGG | - | tig0003359:7634-7653 | Msa1339590:CDS | 40.0% | |
| GTAGCTCTCATGTCAATAAC+AGG | + | tig0003359:7670-7689 | None:intergenic | 40.0% | |
| AGCAGTAACAAGCAAAGAGG+TGG | - | tig0003359:7562-7581 | Msa1339590:CDS | 45.0% | |
| AGTAACAAGCAAAGAGGTGG+AGG | - | tig0003359:7565-7584 | Msa1339590:CDS | 45.0% | |
| TGGCCAAGTGATGAAGATAG+AGG | - | tig0003359:7625-7644 | Msa1339590:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0003359 | gene | 7493 | 7762 | 7493 | ID=Msa1339590;Name=Msa1339590 |
| tig0003359 | mRNA | 7493 | 7762 | 7493 | ID=Msa1339590-mRNA-1;Parent=Msa1339590;Name=Msa1339590-mRNA-1;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|89 |
| tig0003359 | exon | 7493 | 7762 | 7493 | ID=Msa1339590-mRNA-1:exon:2240;Parent=Msa1339590-mRNA-1 |
| tig0003359 | CDS | 7493 | 7762 | 7493 | ID=Msa1339590-mRNA-1:cds;Parent=Msa1339590-mRNA-1 |
| Gene Sequence |
| Protein sequence |
