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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0590170 | XP_039689897.1 | 90.566 | 53 | 5 | 0 | 1 | 53 | 641 | 693 | 3.00e-23 | 102 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0590170 | sp|Q94F87|CMT2_ARATH | 70.270 | 37 | 11 | 0 | 15 | 51 | 1110 | 1146 | 2.70e-13 | 65.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0366560 | Msa0590170 | 0.828455 | 8.907802e-55 | -8.615850e-47 |
| Msa0506110 | Msa0590170 | 0.820572 | 6.390798e-53 | -8.615850e-47 |
| Msa0590170 | Msa0893330 | 0.810692 | 1.015671e-50 | -8.615850e-47 |
| Msa0590170 | Msa0983970 | 0.810350 | 1.204336e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0590170 | MtrunA17_Chr4g0007641 | 90.566 | 53 | 5 | 0 | 1 | 53 | 641 | 693 | 2.76e-27 | 102 |
| Msa0590170 | MtrunA17_Chr5g0406641 | 81.132 | 53 | 10 | 0 | 1 | 53 | 634 | 686 | 1.93e-24 | 94.0 |
| Msa0590170 | MtrunA17_Chr7g0215341 | 79.245 | 53 | 11 | 0 | 1 | 53 | 625 | 677 | 1.69e-23 | 91.3 |
| Msa0590170 | MtrunA17_Chr6g0484831 | 77.358 | 53 | 12 | 0 | 1 | 53 | 633 | 685 | 1.37e-22 | 88.6 |
| Msa0590170 | MtrunA17_Chr6g0464681 | 72.549 | 51 | 14 | 0 | 1 | 51 | 624 | 674 | 8.08e-20 | 80.9 |
| Msa0590170 | MtrunA17_Chr8g0369361 | 70.270 | 37 | 11 | 0 | 15 | 51 | 602 | 638 | 6.78e-13 | 61.2 |
| Msa0590170 | MtrunA17_Chr6g0486931 | 58.537 | 41 | 17 | 0 | 9 | 49 | 739 | 779 | 1.57e-11 | 57.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0590170 | AT4G19020.2 | 70.270 | 37 | 11 | 0 | 15 | 51 | 1062 | 1098 | 2.49e-14 | 65.5 |
| Msa0590170 | AT4G19020.1 | 70.270 | 37 | 11 | 0 | 15 | 51 | 1110 | 1146 | 2.74e-14 | 65.5 |
| Msa0590170 | AT1G69770.1 | 67.568 | 37 | 12 | 0 | 15 | 51 | 654 | 690 | 4.79e-12 | 58.9 |
Find 11 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCATCGTTATTTAACTTATA+TGG | 0.198097 | 4_2:+13579330 | Msa0590160:intron |
| AGATATGGAACCTTCTTCTT+TGG | 0.258574 | 4_2:+13579285 | Msa0590160:intron |
| TATTAACAAGCACACCCTTT+AGG | 0.330771 | 4_2:+13579168 | Msa0590160:intron |
| TTGCCTCATTCCAAAGAAGA+AGG | 0.460877 | 4_2:-13579295 | Msa0590170:intron |
| GAACCTTCTTCTTTGGAATG+AGG | 0.469060 | 4_2:+13579292 | Msa0590160:intron |
| GGCAAACTTCAGGGACCTAA+AGG | 0.491099 | 4_2:-13579183 | Msa0590170:CDS |
| GTGCTTGTTAATAAGCTCCC+TGG | 0.531763 | 4_2:-13579158 | Msa0590170:CDS |
| GCAAACTTCAGGGACCTAAA+GGG | 0.558745 | 4_2:-13579182 | Msa0590170:CDS |
| TGATCATACAGCAGACCACT+TGG | 0.567396 | 4_2:+13579357 | Msa0590160:intron |
| GTGGTCTGCTGTATGATCAC+AGG | 0.579654 | 4_2:-13579353 | Msa0590170:CDS |
| CACTCTGAAAGAGCACCAAG+TGG | 0.653759 | 4_2:-13579372 | Msa0590170:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATAATATCAATTCAAGATA+TGG | + | chr4_2:13579259-13579278 | Msa0590160:intron | 15.0% |
| !!! | TCATCGTTATTTAACTTATA+TGG | + | chr4_2:13579199-13579218 | Msa0590160:intron | 20.0% |
| !! | ATGCACAATTAAAATTTACA+GGG | + | chr4_2:13579306-13579325 | Msa0590160:intron | 20.0% |
| !! | AATGCACAATTAAAATTTAC+AGG | + | chr4_2:13579307-13579326 | Msa0590160:intron | 20.0% |
| ! | CAACTAAAAAATTGAATCCA+GGG | + | chr4_2:13579388-13579407 | Msa0590160:intron | 25.0% |
| GCAACTAAAAAATTGAATCC+AGG | + | chr4_2:13579389-13579408 | Msa0590160:intron | 30.0% | |
| AGATATGGAACCTTCTTCTT+TGG | + | chr4_2:13579244-13579263 | Msa0590160:intron | 35.0% | |
| !!! | TGTGCATTCTTGCCTTTTTT+AGG | - | chr4_2:13579319-13579338 | Msa0590170:CDS | 35.0% |
| !!! | GTGCATTCTTGCCTTTTTTA+GGG | - | chr4_2:13579320-13579339 | Msa0590170:CDS | 35.0% |
| !!! | TGCATTCTTGCCTTTTTTAG+GGG | - | chr4_2:13579321-13579340 | Msa0590170:CDS | 35.0% |
| TATTAACAAGCACACCCTTT+AGG | + | chr4_2:13579361-13579380 | Msa0590160:intron | 35.0% | |
| TTGCCTCATTCCAAAGAAGA+AGG | - | chr4_2:13579231-13579250 | Msa0590170:intron | 40.0% | |
| !! | GAACCTTCTTCTTTGGAATG+AGG | + | chr4_2:13579237-13579256 | Msa0590160:intron | 40.0% |
| !!! | GCATTCTTGCCTTTTTTAGG+GGG | - | chr4_2:13579322-13579341 | Msa0590170:CDS | 40.0% |
| TGAAGTTTGCCCCCTAAAAA+AGG | + | chr4_2:13579334-13579353 | Msa0590160:intron | 40.0% | |
| !!! | TTTTTTAGGGGGCAAACTTC+AGG | - | chr4_2:13579333-13579352 | Msa0590170:CDS | 40.0% |
| !! | TTTTTAGGGGGCAAACTTCA+GGG | - | chr4_2:13579334-13579353 | Msa0590170:CDS | 40.0% |
| TGATCATACAGCAGACCACT+TGG | + | chr4_2:13579172-13579191 | Msa0590160:intron | 45.0% | |
| GCAAACTTCAGGGACCTAAA+GGG | - | chr4_2:13579344-13579363 | Msa0590170:CDS | 45.0% | |
| ! | GTGCTTGTTAATAAGCTCCC+TGG | - | chr4_2:13579368-13579387 | Msa0590170:CDS | 45.0% |
| !! | CACTCTGAAAGAGCACCAAG+TGG | - | chr4_2:13579154-13579173 | Msa0590170:CDS | 50.0% |
| GTGGTCTGCTGTATGATCAC+AGG | - | chr4_2:13579173-13579192 | Msa0590170:CDS | 50.0% | |
| GGCAAACTTCAGGGACCTAA+AGG | - | chr4_2:13579343-13579362 | Msa0590170:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 13579136 | 13579412 | 13579136 | ID=Msa0590170;Name=Msa0590170 |
| chr4_2 | mRNA | 13579136 | 13579412 | 13579136 | ID=Msa0590170-mRNA-1;Parent=Msa0590170;Name=Msa0590170-mRNA-1;_AED=0.80;_eAED=0.80;_QI=0|0|0|0.5|1|1|2|0|62 |
| chr4_2 | exon | 13579296 | 13579412 | 13579296 | ID=Msa0590170-mRNA-1:exon:4001;Parent=Msa0590170-mRNA-1 |
| chr4_2 | exon | 13579136 | 13579207 | 13579136 | ID=Msa0590170-mRNA-1:exon:4000;Parent=Msa0590170-mRNA-1 |
| chr4_2 | CDS | 13579296 | 13579412 | 13579296 | ID=Msa0590170-mRNA-1:cds;Parent=Msa0590170-mRNA-1 |
| chr4_2 | CDS | 13579136 | 13579207 | 13579136 | ID=Msa0590170-mRNA-1:cds;Parent=Msa0590170-mRNA-1 |
| Gene Sequence |
| Protein sequence |
