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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0873870 | KEH17539.1 | 93.023 | 43 | 3 | 0 | 42 | 84 | 40 | 82 | 6.99e-18 | 81.6 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0873870 | A0A072TIZ2 | 93.023 | 43 | 3 | 0 | 42 | 84 | 40 | 82 | 3.34e-18 | 81.6 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0629240 | Msa0873870 | 0.803976 | 2.696034e-49 | -8.615850e-47 |
| Msa0207350 | Msa0873870 | 0.802942 | 4.415299e-49 | -8.615850e-47 |
| Msa0467100 | Msa0873870 | 0.807222 | 5.617707e-50 | -8.615850e-47 |
| Msa0271770 | Msa0873870 | 0.804956 | 1.684434e-49 | -8.615850e-47 |
| Msa0343850 | Msa0873870 | 0.810425 | 1.160314e-50 | -8.615850e-47 |
| Msa0848990 | Msa0873870 | 0.813869 | 2.056842e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0873870 | MtrunA17_Chr5g0420851 | 90.698 | 43 | 4 | 0 | 42 | 84 | 9 | 51 | 1.32e-20 | 77.4 |
| Msa0873870 | MtrunA17_Chr1g0190171 | 52.083 | 48 | 23 | 0 | 42 | 89 | 357 | 404 | 2.22e-11 | 58.2 |
| Msa0873870 | MtrunA17_Chr1g0172731 | 52.083 | 48 | 23 | 0 | 42 | 89 | 357 | 404 | 2.28e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 12 sgRNAs with CRISPR-Local
Find 12 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTATCGTAGACCGGTTAATT+TGG | 0.229820 | 6_1:-9474662 | Msa0873870:CDS |
| TTCTTTAGTGGTTGCACTAA+TGG | 0.279133 | 6_1:-9474764 | Msa0873870:CDS |
| CTCATTGCAAAATGAACTAT+TGG | 0.318356 | 6_1:-9474828 | None:intergenic |
| TCTTTAGTGGTTGCACTAAT+GGG | 0.381877 | 6_1:-9474763 | Msa0873870:CDS |
| TGAGATGAATCCAAATTAAC+CGG | 0.409097 | 6_1:+9474652 | None:intergenic |
| TACGATAATCATCATGATCA+AGG | 0.435864 | 6_1:+9474677 | None:intergenic |
| TTTGATCTTGAACCGAGTCT+CGG | 0.546929 | 6_1:+9474590 | None:intergenic |
| TCATGATGATTATCGTAGAC+CGG | 0.553818 | 6_1:-9474671 | Msa0873870:CDS |
| TCATCCTCACTAATTCTACA+TGG | 0.599372 | 6_1:+9474709 | None:intergenic |
| GATGAATCATGTCCGAGACT+CGG | 0.605336 | 6_1:-9474602 | Msa0873870:CDS |
| ACGATAATCATCATGATCAA+GGG | 0.621055 | 6_1:+9474678 | None:intergenic |
| AGAGCCATGTAGAATTAGTG+AGG | 0.664058 | 6_1:-9474713 | Msa0873870:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTAAACTAGCTTCTTTAG+TGG | - | chr6_1:9474602-9474621 | Msa0873870:CDS | 25.0% |
| ACGATAATCATCATGATCAA+GGG | + | chr6_1:9474703-9474722 | None:intergenic | 30.0% | |
| TACGATAATCATCATGATCA+AGG | + | chr6_1:9474704-9474723 | None:intergenic | 30.0% | |
| TGAGATGAATCCAAATTAAC+CGG | + | chr6_1:9474729-9474748 | None:intergenic | 30.0% | |
| TTCTTTAGTGGTTGCACTAA+TGG | - | chr6_1:9474614-9474633 | Msa0873870:CDS | 35.0% | |
| TCTTTAGTGGTTGCACTAAT+GGG | - | chr6_1:9474615-9474634 | Msa0873870:CDS | 35.0% | |
| TCATCCTCACTAATTCTACA+TGG | + | chr6_1:9474672-9474691 | None:intergenic | 35.0% | |
| TCATGATGATTATCGTAGAC+CGG | - | chr6_1:9474707-9474726 | Msa0873870:CDS | 35.0% | |
| TTATCGTAGACCGGTTAATT+TGG | - | chr6_1:9474716-9474735 | Msa0873870:CDS | 35.0% | |
| AGAGCCATGTAGAATTAGTG+AGG | - | chr6_1:9474665-9474684 | Msa0873870:CDS | 40.0% | |
| TTTGATCTTGAACCGAGTCT+CGG | + | chr6_1:9474791-9474810 | None:intergenic | 40.0% | |
| GATGAATCATGTCCGAGACT+CGG | - | chr6_1:9474776-9474795 | Msa0873870:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 9474561 | 9474839 | 9474561 | ID=Msa0873870;Name=Msa0873870 |
| chr6_1 | mRNA | 9474561 | 9474839 | 9474561 | ID=Msa0873870-mRNA-1;Parent=Msa0873870;Name=Msa0873870-mRNA-1;_AED=0.27;_eAED=0.27;_QI=0|-1|0|1|-1|1|1|0|92 |
| chr6_1 | exon | 9474561 | 9474839 | 9474561 | ID=Msa0873870-mRNA-1:exon:2895;Parent=Msa0873870-mRNA-1 |
| chr6_1 | CDS | 9474561 | 9474839 | 9474561 | ID=Msa0873870-mRNA-1:cds;Parent=Msa0873870-mRNA-1 |
| Gene Sequence |
| Protein sequence |
