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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1395490 | PNX86169.1 | 85.294 | 68 | 10 | 0 | 1 | 68 | 1 | 68 | 3.85e-38 | 133 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1395490 | sp|Q9LRH8|BAMS_PEA | 92.647 | 68 | 5 | 0 | 1 | 68 | 1 | 68 | 1.26e-38 | 137 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1395490 | A0A2K3M5X1 | 85.294 | 68 | 10 | 0 | 1 | 68 | 1 | 68 | 1.84e-38 | 133 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1092010 | Msa1395490 | 0.801604 | 8.324623e-49 | -8.615850e-47 |
| Msa0967380 | Msa1395490 | 0.811118 | 8.215920e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1395490 | MtrunA17_Chr4g0020031 | 97.059 | 68 | 2 | 0 | 1 | 68 | 1 | 68 | 2.49e-41 | 142 |
| Msa1395490 | MtrunA17_Chr3g0090611 | 78.571 | 70 | 15 | 0 | 1 | 70 | 1 | 70 | 3.32e-40 | 126 |
| Msa1395490 | MtrunA17_Chr8g0342301 | 77.941 | 68 | 15 | 0 | 1 | 68 | 1 | 68 | 1.18e-38 | 125 |
| Msa1395490 | MtrunA17_Chr8g0342331 | 77.941 | 68 | 15 | 0 | 1 | 68 | 1 | 68 | 2.15e-38 | 122 |
| Msa1395490 | MtrunA17_Chr4g0000131 | 89.706 | 68 | 7 | 0 | 1 | 68 | 1 | 68 | 5.68e-38 | 132 |
| Msa1395490 | MtrunA17_Chr7g0228111 | 82.353 | 68 | 12 | 0 | 1 | 68 | 1 | 68 | 3.61e-35 | 124 |
| Msa1395490 | MtrunA17_Chr8g0342281 | 70.588 | 68 | 20 | 0 | 1 | 68 | 1 | 68 | 3.90e-32 | 108 |
| Msa1395490 | MtrunA17_Chr6g0463721 | 51.471 | 68 | 31 | 1 | 1 | 68 | 1 | 66 | 6.06e-19 | 75.9 |
| Msa1395490 | MtrunA17_Chr6g0486381 | 49.275 | 69 | 33 | 1 | 1 | 67 | 1 | 69 | 4.98e-18 | 70.5 |
| Msa1395490 | MtrunA17_Chr6g0488881 | 51.471 | 68 | 31 | 1 | 1 | 68 | 1 | 66 | 9.40e-18 | 75.5 |
| Msa1395490 | MtrunA17_Chr5g0396321 | 52.239 | 67 | 31 | 1 | 1 | 67 | 1 | 66 | 1.09e-17 | 75.1 |
| Msa1395490 | MtrunA17_Chr7g0238831 | 49.254 | 67 | 34 | 0 | 1 | 67 | 1 | 67 | 1.11e-16 | 71.6 |
| Msa1395490 | MtrunA17_Chr6g0488821 | 50.725 | 69 | 32 | 1 | 1 | 67 | 1 | 69 | 1.47e-15 | 68.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1395490 | AT1G66960.3 | 67.647 | 68 | 21 | 1 | 1 | 67 | 1 | 68 | 8.31e-29 | 107 |
| Msa1395490 | AT1G66960.1 | 67.647 | 68 | 21 | 1 | 1 | 67 | 1 | 68 | 8.31e-29 | 107 |
| Msa1395490 | AT1G66960.4 | 67.647 | 68 | 21 | 1 | 1 | 67 | 1 | 68 | 8.31e-29 | 107 |
| Msa1395490 | AT1G66960.2 | 67.647 | 68 | 21 | 1 | 1 | 67 | 10 | 77 | 8.32e-29 | 107 |
| Msa1395490 | AT1G78960.2 | 66.176 | 68 | 22 | 1 | 1 | 67 | 1 | 68 | 2.73e-27 | 102 |
| Msa1395490 | AT1G78960.1 | 66.176 | 68 | 22 | 1 | 1 | 67 | 1 | 68 | 2.73e-27 | 102 |
| Msa1395490 | AT1G78960.3 | 66.176 | 68 | 22 | 1 | 1 | 67 | 1 | 68 | 2.73e-27 | 102 |
| Msa1395490 | AT1G78960.4 | 66.176 | 68 | 22 | 1 | 1 | 67 | 1 | 68 | 3.38e-27 | 102 |
| Msa1395490 | AT1G78950.2 | 67.647 | 68 | 21 | 1 | 1 | 67 | 10 | 77 | 1.65e-26 | 100 |
| Msa1395490 | AT1G78950.1 | 67.647 | 68 | 21 | 1 | 1 | 67 | 1 | 68 | 1.84e-26 | 100 |
| Msa1395490 | AT1G78970.1 | 64.706 | 68 | 23 | 1 | 1 | 67 | 1 | 68 | 4.74e-25 | 96.3 |
| Msa1395490 | AT1G78970.2 | 64.706 | 68 | 23 | 1 | 1 | 67 | 1 | 68 | 4.74e-25 | 96.3 |
| Msa1395490 | AT1G78970.3 | 64.706 | 68 | 23 | 1 | 1 | 67 | 1 | 68 | 4.74e-25 | 96.3 |
| Msa1395490 | AT1G78955.1 | 64.706 | 68 | 23 | 1 | 1 | 67 | 1 | 68 | 6.41e-25 | 96.3 |
| Msa1395490 | AT5G36150.1 | 55.882 | 68 | 29 | 1 | 1 | 67 | 1 | 68 | 2.79e-21 | 85.9 |
| Msa1395490 | AT5G36150.2 | 55.882 | 68 | 29 | 1 | 1 | 67 | 1 | 68 | 2.79e-21 | 85.9 |
| Msa1395490 | AT4G15340.1 | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 3.60e-21 | 85.5 |
| Msa1395490 | AT4G15340.2 | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 4.32e-21 | 85.1 |
| Msa1395490 | AT4G15370.1 | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 8.31e-21 | 84.3 |
| Msa1395490 | AT4G15370.2 | 58.824 | 68 | 27 | 1 | 1 | 67 | 1 | 68 | 8.48e-21 | 84.3 |
| Msa1395490 | AT1G78500.2 | 57.353 | 68 | 28 | 1 | 1 | 67 | 1 | 68 | 1.06e-19 | 81.3 |
| Msa1395490 | AT1G78500.1 | 57.353 | 68 | 28 | 1 | 1 | 67 | 1 | 68 | 1.06e-19 | 81.3 |
| Msa1395490 | AT2G07050.1 | 58.209 | 67 | 27 | 1 | 1 | 67 | 1 | 66 | 1.10e-18 | 78.2 |
| Msa1395490 | AT5G42600.1 | 55.882 | 68 | 29 | 1 | 1 | 67 | 1 | 68 | 1.70e-18 | 77.8 |
| Msa1395490 | AT5G48010.1 | 47.059 | 68 | 35 | 1 | 1 | 67 | 1 | 68 | 6.82e-16 | 70.5 |
| Msa1395490 | AT5G48010.2 | 47.059 | 68 | 35 | 1 | 1 | 67 | 1 | 68 | 7.45e-16 | 70.5 |
| Msa1395490 | AT3G29255.1 | 50.000 | 64 | 31 | 1 | 2 | 64 | 6 | 69 | 9.58e-16 | 70.1 |
| Msa1395490 | AT3G45130.4 | 49.254 | 67 | 30 | 1 | 1 | 67 | 1 | 63 | 3.62e-14 | 65.5 |
| Msa1395490 | AT3G45130.1 | 49.254 | 67 | 30 | 1 | 1 | 67 | 1 | 63 | 3.62e-14 | 65.5 |
| Msa1395490 | AT3G45130.5 | 49.254 | 67 | 30 | 1 | 1 | 67 | 1 | 63 | 3.62e-14 | 65.5 |
| Msa1395490 | AT3G45130.2 | 49.254 | 67 | 30 | 1 | 1 | 67 | 1 | 63 | 3.88e-14 | 65.5 |
| Msa1395490 | AT3G45130.3 | 49.254 | 67 | 30 | 1 | 1 | 67 | 1 | 63 | 3.88e-14 | 65.5 |
Find 22 sgRNAs with CRISPR-Local
Find 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTTCTTCACTACCTGCTTC+TGG | 0.268680 | tig0021943:-34662 | None:intergenic |
| TTATTTGTACTGAATAAGTA+TGG | 0.274999 | tig0021943:-34608 | None:intergenic |
| TTTCTATAACAAACGCTTCA+AGG | 0.383261 | tig0021943:+34715 | Msa1395490:CDS |
| AGCCCTGCGGTGATCTCCTC+TGG | 0.402392 | tig0021943:+34741 | Msa1395490:CDS |
| TTCAGTACAAATAACTTTGT+GGG | 0.434097 | tig0021943:+34617 | Msa1395490:CDS |
| ATTCAGTACAAATAACTTTG+TGG | 0.439961 | tig0021943:+34616 | Msa1395490:CDS |
| TCTTACGAGCTTCTTCAACT+TGG | 0.447078 | tig0021943:-34691 | None:intergenic |
| CTTACGAGCTTCTTCAACTT+GGG | 0.467021 | tig0021943:-34690 | None:intergenic |
| ACGCCAGAGGAGATCACCGC+AGG | 0.499083 | tig0021943:-34744 | None:intergenic |
| GGCTGAAGATAGCAGAAGGT+GGG | 0.550865 | tig0021943:+34579 | Msa1395490:CDS |
| TATTTGTACTGAATAAGTAT+GGG | 0.564113 | tig0021943:-34607 | None:intergenic |
| TGGGAGTATGATCCAGAAGC+AGG | 0.576042 | tig0021943:+34650 | Msa1395490:CDS |
| CAAAAGAAAGAAAGATGTGG+AGG | 0.606090 | tig0021943:+34558 | None:intergenic |
| CGCCAGAGGAGATCACCGCA+GGG | 0.613959 | tig0021943:-34743 | None:intergenic |
| TGGAGGCTGAAGATAGCAGA+AGG | 0.644474 | tig0021943:+34575 | Msa1395490:CDS |
| CGCTTCAAGGTCAAGCCCTG+CGG | 0.647899 | tig0021943:+34728 | Msa1395490:CDS |
| AAGCAGGTAGTGAAGAAGAG+AGG | 0.648505 | tig0021943:+34666 | Msa1395490:CDS |
| CTTTGTGGGAAGACAAACAT+GGG | 0.648543 | tig0021943:+34631 | Msa1395490:CDS |
| AGGCTGAAGATAGCAGAAGG+TGG | 0.654406 | tig0021943:+34578 | Msa1395490:CDS |
| ACTTTGTGGGAAGACAAACA+TGG | 0.666531 | tig0021943:+34630 | Msa1395490:CDS |
| ACATAGTATAGCCATTAACC+AGG | 0.686248 | tig0021943:-34776 | None:intergenic |
| CAGGTACCTGAAAACGCCAG+AGG | 0.733364 | tig0021943:-34757 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATTTGTACTGAATAAGTAT+GGG | - | tig0021943:34610-34629 | None:intergenic | 20.0% |
| !! | TTATTTGTACTGAATAAGTA+TGG | - | tig0021943:34611-34630 | None:intergenic | 20.0% |
| ! | ATTCAGTACAAATAACTTTG+TGG | + | tig0021943:34616-34635 | Msa1395490:CDS | 25.0% |
| ! | TTCAGTACAAATAACTTTGT+GGG | + | tig0021943:34617-34636 | Msa1395490:CDS | 25.0% |
| TTTCTATAACAAACGCTTCA+AGG | + | tig0021943:34715-34734 | Msa1395490:CDS | 30.0% | |
| ACTTTGTGGGAAGACAAACA+TGG | + | tig0021943:34630-34649 | Msa1395490:CDS | 40.0% | |
| CTTTGTGGGAAGACAAACAT+GGG | + | tig0021943:34631-34650 | Msa1395490:CDS | 40.0% | |
| CTTACGAGCTTCTTCAACTT+GGG | - | tig0021943:34693-34712 | None:intergenic | 40.0% | |
| TCTTACGAGCTTCTTCAACT+TGG | - | tig0021943:34694-34713 | None:intergenic | 40.0% | |
| TCTTCTTCACTACCTGCTTC+TGG | - | tig0021943:34665-34684 | None:intergenic | 45.0% | |
| AAGCAGGTAGTGAAGAAGAG+AGG | + | tig0021943:34666-34685 | Msa1395490:CDS | 45.0% | |
| TGGAGGCTGAAGATAGCAGA+AGG | + | tig0021943:34575-34594 | Msa1395490:CDS | 50.0% | |
| AGGCTGAAGATAGCAGAAGG+TGG | + | tig0021943:34578-34597 | Msa1395490:CDS | 50.0% | |
| GGCTGAAGATAGCAGAAGGT+GGG | + | tig0021943:34579-34598 | Msa1395490:CDS | 50.0% | |
| ! | TGGGAGTATGATCCAGAAGC+AGG | + | tig0021943:34650-34669 | Msa1395490:CDS | 50.0% |
| ! | TGATCTCCTCTGGCGTTTTC+AGG | + | tig0021943:34751-34770 | Msa1395490:CDS | 50.0% |
| CAGGTACCTGAAAACGCCAG+AGG | - | tig0021943:34760-34779 | None:intergenic | 55.0% | |
| !!! | CTCTGGCGTTTTCAGGTACC+TGG | + | tig0021943:34758-34777 | Msa1395490:CDS | 55.0% |
| CGCTTCAAGGTCAAGCCCTG+CGG | + | tig0021943:34728-34747 | Msa1395490:CDS | 60.0% | |
| AGCCCTGCGGTGATCTCCTC+TGG | + | tig0021943:34741-34760 | Msa1395490:CDS | 65.0% | |
| CGCCAGAGGAGATCACCGCA+GGG | - | tig0021943:34746-34765 | None:intergenic | 65.0% | |
| ACGCCAGAGGAGATCACCGC+AGG | - | tig0021943:34747-34766 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0021943 | gene | 34572 | 34784 | 34572 | ID=Msa1395490;Name=Msa1395490 |
| tig0021943 | mRNA | 34572 | 34784 | 34572 | ID=Msa1395490-mRNA-1;Parent=Msa1395490;Name=Msa1395490-mRNA-1;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|70 |
| tig0021943 | exon | 34572 | 34784 | 34572 | ID=Msa1395490-mRNA-1:exon:14914;Parent=Msa1395490-mRNA-1 |
| tig0021943 | CDS | 34572 | 34784 | 34572 | ID=Msa1395490-mRNA-1:cds;Parent=Msa1395490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
