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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0691360 | AFK39618.1 | 96.471 | 85 | 3 | 0 | 1 | 85 | 1 | 85 | 1.85e-52 | 168 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0691360 | sp|Q9SIV2|PSD2A_ARATH | 91.765 | 85 | 7 | 0 | 1 | 85 | 807 | 891 | 4.90e-49 | 168 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0691360 | I3SH76 | 96.471 | 85 | 3 | 0 | 1 | 85 | 1 | 85 | 8.86e-53 | 168 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0691360 | Msa1382960 | 0.817727 | 2.838917e-52 | -8.615850e-47 |
| Msa0149230 | Msa0691360 | 0.808797 | 2.596063e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0691360 | MtrunA17_Chr4g0040471 | 98.824 | 85 | 1 | 0 | 1 | 85 | 802 | 886 | 5.77e-53 | 176 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0691360 | AT2G20580.1 | 91.765 | 85 | 7 | 0 | 1 | 85 | 807 | 891 | 4.98e-50 | 168 |
| Msa0691360 | AT4G28470.1 | 91.765 | 85 | 7 | 0 | 1 | 85 | 807 | 891 | 1.08e-49 | 167 |
Find 34 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAAAGGACAATCCAGATTAT+AGG | 0.228060 | 4_4:-59448411 | Msa0691360:CDS |
| ACCCCTGTTCTCCTGGCTGC+TGG | 0.245592 | 4_4:-59448585 | Msa0691360:CDS |
| TTCTCCTGGCTGCTGGGGAT+AGG | 0.305991 | 4_4:-59448578 | Msa0691360:CDS |
| AAAGGACAATCCAGATTATA+GGG | 0.325952 | 4_4:-59448410 | Msa0691360:CDS |
| TCCCCAGCAGCCAGGAGAAC+AGG | 0.334078 | 4_4:+59448582 | None:intergenic |
| CCCCTGTTCTCCTGGCTGCT+GGG | 0.345055 | 4_4:-59448584 | Msa0691360:CDS |
| CCCCTATCACCAATTCTTGA+AGG | 0.345401 | 4_4:-59448445 | Msa0691360:CDS |
| TGAAAGCCGGTGATTGTCTT+AGG | 0.351647 | 4_4:+59448618 | None:intergenic |
| ATTACAAAACCTTCAAGAAT+TGG | 0.353080 | 4_4:+59448436 | None:intergenic |
| GCCTCTATCAGTGCCTGTTC+GGG | 0.382032 | 4_4:-59448679 | Msa0691360:CDS |
| AGCCTCTATCAGTGCCTGTT+CGG | 0.386811 | 4_4:-59448680 | Msa0691360:CDS |
| TCATTCTACCCCTGTTCTCC+TGG | 0.393262 | 4_4:-59448592 | Msa0691360:CDS |
| TCTCCTGGCTGCTGGGGATA+GGG | 0.401494 | 4_4:-59448577 | Msa0691360:CDS |
| CATCACTCTTCCCTATAATC+TGG | 0.405215 | 4_4:+59448400 | None:intergenic |
| AACCTTCAAGAATTGGTGAT+AGG | 0.407353 | 4_4:+59448443 | None:intergenic |
| ACTGCTTGGCCAACCCGAAC+AGG | 0.423439 | 4_4:+59448666 | None:intergenic |
| AGCAGTAGACGTTGTTGGAC+AGG | 0.459860 | 4_4:-59448649 | Msa0691360:CDS |
| ACCTTCAAGAATTGGTGATA+GGG | 0.476467 | 4_4:+59448444 | None:intergenic |
| CTGCCCTATCCCCAGCAGCC+AGG | 0.494849 | 4_4:+59448574 | None:intergenic |
| CCCTGTTCTCCTGGCTGCTG+GGG | 0.508335 | 4_4:-59448583 | Msa0691360:CDS |
| ACCCGAACAGGCACTGATAG+AGG | 0.514416 | 4_4:+59448678 | None:intergenic |
| CCCCAGCAGCCAGGAGAACA+GGG | 0.529499 | 4_4:+59448583 | None:intergenic |
| GTCCAACAACGTCTACTGCT+TGG | 0.531076 | 4_4:+59448652 | None:intergenic |
| GGCCAAGCAGTAGACGTTGT+TGG | 0.547192 | 4_4:-59448654 | Msa0691360:CDS |
| CTATCAGTGCCTGTTCGGGT+TGG | 0.551095 | 4_4:-59448675 | Msa0691360:CDS |
| GATGTTGTTGACTGTGGATG+AGG | 0.554247 | 4_4:-59448709 | Msa0691360:CDS |
| CCTTCAAGAATTGGTGATAG+GGG | 0.557370 | 4_4:+59448445 | None:intergenic |
| TCCACAGTCAACAACATCCT+CGG | 0.571268 | 4_4:+59448714 | None:intergenic |
| GGTCGTCCTAAGACAATCAC+CGG | 0.576068 | 4_4:-59448624 | Msa0691360:CDS |
| GTAGACGTTGTTGGACAGGC+AGG | 0.584047 | 4_4:-59448645 | Msa0691360:CDS |
| CCCAGCAGCCAGGAGAACAG+GGG | 0.638606 | 4_4:+59448584 | None:intergenic |
| GGTAGAATGAGTCTGAAAGC+CGG | 0.642327 | 4_4:+59448605 | None:intergenic |
| GAGACTCAAACAAACCTGCA+TGG | 0.668674 | 4_4:+59448802 | None:intergenic |
| GCCGAGGATGTTGTTGACTG+TGG | 0.669421 | 4_4:-59448715 | Msa0691360:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATAGTATATTACTTTTCTG+TGG | + | chr4_4:59448660-59448679 | None:intergenic | 20.0% |
| !!! | TGAAGGTTTTGTAATTTTAA+AGG | - | chr4_4:59448774-59448793 | Msa0691360:intron | 20.0% |
| !!! | ATTAAGACTAGCTTCAAATA+GGG | + | chr4_4:59448450-59448469 | None:intergenic | 25.0% |
| !!! | AATTAAGACTAGCTTCAAAT+AGG | + | chr4_4:59448451-59448470 | None:intergenic | 25.0% |
| ! | ATTACAAAACCTTCAAGAAT+TGG | + | chr4_4:59448769-59448788 | None:intergenic | 25.0% |
| !! | TTAAGACTAGCTTCAAATAG+GGG | + | chr4_4:59448449-59448468 | None:intergenic | 30.0% |
| AGTAATATACTATTGCCTTG+TGG | - | chr4_4:59448666-59448685 | Msa0691360:CDS | 30.0% | |
| TAAAGGACAATCCAGATTAT+AGG | - | chr4_4:59448791-59448810 | Msa0691360:intron | 30.0% | |
| AAAGGACAATCCAGATTATA+GGG | - | chr4_4:59448792-59448811 | Msa0691360:intron | 30.0% | |
| !!! | GCTTGTTTTAAAGTACCACA+AGG | + | chr4_4:59448684-59448703 | None:intergenic | 35.0% |
| ! | ACCTTCAAGAATTGGTGATA+GGG | + | chr4_4:59448761-59448780 | None:intergenic | 35.0% |
| ! | AACCTTCAAGAATTGGTGAT+AGG | + | chr4_4:59448762-59448781 | None:intergenic | 35.0% |
| ! | ACTAGCTTCAAATAGGGGAA+GGG | + | chr4_4:59448444-59448463 | None:intergenic | 40.0% |
| ! | CCTTCAAGAATTGGTGATAG+GGG | + | chr4_4:59448760-59448779 | None:intergenic | 40.0% |
| !! | GACTAGCTTCAAATAGGGGA+AGG | + | chr4_4:59448445-59448464 | None:intergenic | 45.0% |
| ATACTCTGTTGTAACAGCCG+AGG | - | chr4_4:59448471-59448490 | Msa0691360:intron | 45.0% | |
| TCCACAGTCAACAACATCCT+CGG | + | chr4_4:59448491-59448510 | None:intergenic | 45.0% | |
| ! | GATGTTGTTGACTGTGGATG+AGG | - | chr4_4:59448493-59448512 | Msa0691360:intron | 45.0% |
| TGAAAGCCGGTGATTGTCTT+AGG | + | chr4_4:59448587-59448606 | None:intergenic | 45.0% | |
| GGTAGAATGAGTCTGAAAGC+CGG | + | chr4_4:59448600-59448619 | None:intergenic | 45.0% | |
| CCCCTATCACCAATTCTTGA+AGG | - | chr4_4:59448757-59448776 | Msa0691360:intron | 45.0% | |
| AGCCTCTATCAGTGCCTGTT+CGG | - | chr4_4:59448522-59448541 | Msa0691360:intron | 50.0% | |
| GTCCAACAACGTCTACTGCT+TGG | + | chr4_4:59448553-59448572 | None:intergenic | 50.0% | |
| AGCAGTAGACGTTGTTGGAC+AGG | - | chr4_4:59448553-59448572 | Msa0691360:intron | 50.0% | |
| GGTCGTCCTAAGACAATCAC+CGG | - | chr4_4:59448578-59448597 | Msa0691360:CDS | 50.0% | |
| TCATTCTACCCCTGTTCTCC+TGG | - | chr4_4:59448610-59448629 | Msa0691360:CDS | 50.0% | |
| ! | GCCGAGGATGTTGTTGACTG+TGG | - | chr4_4:59448487-59448506 | Msa0691360:intron | 55.0% |
| GCCTCTATCAGTGCCTGTTC+GGG | - | chr4_4:59448523-59448542 | Msa0691360:intron | 55.0% | |
| !! | ACCCGAACAGGCACTGATAG+AGG | + | chr4_4:59448527-59448546 | None:intergenic | 55.0% |
| CTATCAGTGCCTGTTCGGGT+TGG | - | chr4_4:59448527-59448546 | Msa0691360:intron | 55.0% | |
| GGCCAAGCAGTAGACGTTGT+TGG | - | chr4_4:59448548-59448567 | Msa0691360:intron | 55.0% | |
| GTAGACGTTGTTGGACAGGC+AGG | - | chr4_4:59448557-59448576 | Msa0691360:intron | 55.0% | |
| AGGGGAAGGGAGACAGAGAG+AGG | + | chr4_4:59448431-59448450 | None:intergenic | 60.0% | |
| ACTGCTTGGCCAACCCGAAC+AGG | + | chr4_4:59448539-59448558 | None:intergenic | 60.0% | |
| TTCTCCTGGCTGCTGGGGAT+AGG | - | chr4_4:59448624-59448643 | Msa0691360:CDS | 60.0% | |
| TCTCCTGGCTGCTGGGGATA+GGG | - | chr4_4:59448625-59448644 | Msa0691360:CDS | 60.0% | |
| ACCCCTGTTCTCCTGGCTGC+TGG | - | chr4_4:59448617-59448636 | Msa0691360:CDS | 65.0% | |
| CCCAGCAGCCAGGAGAACAG+GGG | + | chr4_4:59448621-59448640 | None:intergenic | 65.0% | |
| CCCCTGTTCTCCTGGCTGCT+GGG | - | chr4_4:59448618-59448637 | Msa0691360:CDS | 65.0% | |
| CCCCAGCAGCCAGGAGAACA+GGG | + | chr4_4:59448622-59448641 | None:intergenic | 65.0% | |
| CCCTGTTCTCCTGGCTGCTG+GGG | - | chr4_4:59448619-59448638 | Msa0691360:CDS | 65.0% | |
| TCCCCAGCAGCCAGGAGAAC+AGG | + | chr4_4:59448623-59448642 | None:intergenic | 65.0% | |
| CTGCCCTATCCCCAGCAGCC+AGG | + | chr4_4:59448631-59448650 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 59448402 | 59448822 | 59448402 | ID=Msa0691360;Name=Msa0691360 |
| chr4_4 | mRNA | 59448402 | 59448822 | 59448402 | ID=Msa0691360-mRNA-1;Parent=Msa0691360;Name=Msa0691360-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0|0|0|1|1|1|3|0|85 |
| chr4_4 | exon | 59448817 | 59448822 | 59448817 | ID=Msa0691360-mRNA-1:exon:16184;Parent=Msa0691360-mRNA-1 |
| chr4_4 | exon | 59448558 | 59448736 | 59448558 | ID=Msa0691360-mRNA-1:exon:16183;Parent=Msa0691360-mRNA-1 |
| chr4_4 | exon | 59448402 | 59448474 | 59448402 | ID=Msa0691360-mRNA-1:exon:16182;Parent=Msa0691360-mRNA-1 |
| chr4_4 | CDS | 59448817 | 59448822 | 59448817 | ID=Msa0691360-mRNA-1:cds;Parent=Msa0691360-mRNA-1 |
| chr4_4 | CDS | 59448558 | 59448736 | 59448558 | ID=Msa0691360-mRNA-1:cds;Parent=Msa0691360-mRNA-1 |
| chr4_4 | CDS | 59448402 | 59448474 | 59448402 | ID=Msa0691360-mRNA-1:cds;Parent=Msa0691360-mRNA-1 |
| Gene Sequence |
| Protein sequence |
