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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0345900 | KAG4392583.1 | 92.683 | 82 | 6 | 0 | 1 | 82 | 6 | 87 | 2.71e-47 | 160 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0345900 | sp|Q9STT5|AB7A_ARATH | 88.750 | 80 | 9 | 0 | 3 | 82 | 728 | 807 | 3.93e-42 | 149 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0345900 | A0A0V0HJT1 | 91.463 | 82 | 7 | 0 | 1 | 82 | 34 | 115 | 2.53e-46 | 158 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0095940 | Msa0345900 | 0.824612 | 7.345279e-54 | -8.615850e-47 |
| Msa0345900 | Msa0744640 | 0.803588 | 3.245012e-49 | -8.615850e-47 |
| Msa0345900 | Msa0833270 | 0.810646 | 1.039100e-50 | -8.615850e-47 |
| Msa0345900 | Msa0841730 | 0.802656 | 5.058876e-49 | -8.615850e-47 |
| Msa0345900 | Msa0870510 | 0.811545 | 6.635010e-51 | -8.615850e-47 |
| Msa0345900 | Msa1256060 | 0.804259 | 2.354203e-49 | -8.615850e-47 |
| Msa0345900 | Msa1404050 | 0.817107 | 3.914816e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0345900 | MtrunA17_Chr3g0093091 | 93.902 | 82 | 5 | 0 | 1 | 82 | 730 | 811 | 2.82e-47 | 160 |
| Msa0345900 | MtrunA17_Chr4g0060431 | 87.805 | 82 | 10 | 0 | 1 | 82 | 710 | 791 | 1.60e-44 | 152 |
| Msa0345900 | MtrunA17_Chr4g0060501 | 86.585 | 82 | 11 | 0 | 1 | 82 | 725 | 806 | 6.35e-44 | 151 |
| Msa0345900 | MtrunA17_Chr4g0060421 | 84.146 | 82 | 13 | 0 | 1 | 82 | 245 | 326 | 1.41e-43 | 146 |
| Msa0345900 | MtrunA17_Chr4g0060471 | 81.707 | 82 | 15 | 0 | 1 | 82 | 78 | 159 | 2.81e-43 | 142 |
| Msa0345900 | MtrunA17_Chr4g0060401 | 82.927 | 82 | 14 | 0 | 1 | 82 | 723 | 804 | 3.29e-42 | 146 |
| Msa0345900 | MtrunA17_Chr3g0093041 | 55.128 | 78 | 33 | 1 | 5 | 82 | 294 | 369 | 1.63e-23 | 93.2 |
| Msa0345900 | MtrunA17_Chr3g0132711 | 51.282 | 78 | 36 | 1 | 5 | 82 | 308 | 383 | 9.04e-22 | 88.2 |
| Msa0345900 | MtrunA17_Chr7g0257341 | 50.000 | 66 | 30 | 1 | 20 | 82 | 1588 | 1653 | 1.80e-16 | 73.2 |
| Msa0345900 | MtrunA17_Chr7g0257341 | 40.964 | 83 | 43 | 2 | 6 | 82 | 662 | 744 | 7.15e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0345900 | AT3G47780.1 | 88.750 | 80 | 9 | 0 | 3 | 82 | 728 | 807 | 4.00e-43 | 149 |
| Msa0345900 | AT5G61740.3 | 82.927 | 82 | 14 | 0 | 1 | 82 | 561 | 642 | 3.39e-41 | 143 |
| Msa0345900 | AT5G61740.2 | 82.927 | 82 | 14 | 0 | 1 | 82 | 666 | 747 | 4.20e-41 | 143 |
| Msa0345900 | AT3G47740.1 | 85.000 | 80 | 12 | 0 | 3 | 82 | 725 | 804 | 4.46e-41 | 143 |
| Msa0345900 | AT5G61740.1 | 82.927 | 82 | 14 | 0 | 1 | 82 | 700 | 781 | 4.84e-41 | 143 |
| Msa0345900 | AT5G61700.2 | 79.070 | 86 | 18 | 0 | 1 | 86 | 708 | 793 | 1.80e-40 | 141 |
| Msa0345900 | AT5G61700.4 | 79.070 | 86 | 18 | 0 | 1 | 86 | 708 | 793 | 1.80e-40 | 141 |
| Msa0345900 | AT3G47770.2 | 85.000 | 80 | 12 | 0 | 3 | 82 | 725 | 804 | 2.82e-40 | 141 |
| Msa0345900 | AT3G47770.1 | 85.000 | 80 | 12 | 0 | 3 | 82 | 699 | 778 | 3.34e-40 | 140 |
| Msa0345900 | AT3G47790.2 | 78.824 | 85 | 18 | 0 | 1 | 85 | 580 | 664 | 4.33e-40 | 140 |
| Msa0345900 | AT5G61700.1 | 80.488 | 82 | 16 | 0 | 1 | 82 | 708 | 789 | 6.19e-40 | 140 |
| Msa0345900 | AT3G47790.3 | 78.824 | 85 | 18 | 0 | 1 | 85 | 699 | 783 | 6.41e-40 | 140 |
| Msa0345900 | AT3G47790.1 | 79.268 | 82 | 17 | 0 | 1 | 82 | 699 | 780 | 2.75e-39 | 138 |
| Msa0345900 | AT3G47760.3 | 82.500 | 80 | 14 | 0 | 3 | 82 | 729 | 808 | 3.97e-39 | 137 |
| Msa0345900 | AT3G47760.2 | 82.500 | 80 | 14 | 0 | 3 | 82 | 699 | 778 | 4.23e-39 | 137 |
| Msa0345900 | AT3G47760.1 | 82.500 | 80 | 14 | 0 | 3 | 82 | 689 | 768 | 4.98e-39 | 137 |
| Msa0345900 | AT3G47750.1 | 77.500 | 80 | 18 | 0 | 3 | 82 | 730 | 809 | 1.48e-35 | 127 |
| Msa0345900 | AT3G47730.1 | 56.410 | 78 | 32 | 1 | 5 | 82 | 645 | 720 | 9.73e-26 | 99.8 |
| Msa0345900 | AT5G61730.2 | 60.000 | 65 | 26 | 0 | 18 | 82 | 658 | 722 | 1.26e-24 | 96.7 |
| Msa0345900 | AT5G61730.1 | 60.000 | 65 | 26 | 0 | 18 | 82 | 648 | 712 | 2.31e-24 | 95.9 |
| Msa0345900 | AT5G61690.2 | 58.462 | 65 | 27 | 0 | 18 | 82 | 657 | 721 | 2.57e-24 | 95.9 |
| Msa0345900 | AT5G61690.1 | 58.462 | 65 | 27 | 0 | 18 | 82 | 656 | 720 | 2.65e-24 | 95.9 |
| Msa0345900 | AT2G41700.2 | 46.970 | 66 | 32 | 1 | 20 | 82 | 1541 | 1606 | 5.70e-15 | 69.3 |
| Msa0345900 | AT2G41700.1 | 46.970 | 66 | 32 | 1 | 20 | 82 | 1583 | 1648 | 6.60e-15 | 68.9 |
Find 18 sgRNAs with CRISPR-Local
Find 27 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGCAACCCCTCCATGAAAA+AGG | 0.279146 | 3_1:+5606376 | None:intergenic |
| CTGCATCAAGAAAGAACTTA+TGG | 0.316016 | 3_1:-5606138 | Msa0345900:CDS |
| AGTGTTGCAATTTCATTGAT+TGG | 0.350979 | 3_1:-5606309 | Msa0345900:CDS |
| CATAAGTTCTTTCTTGATGC+AGG | 0.365907 | 3_1:+5606139 | None:intergenic |
| TGTTGTTAATCGTGCAAAAC+AGG | 0.409280 | 3_1:-5606113 | Msa0345900:CDS |
| ATTTAACATGCTGCAGGCGG+TGG | 0.465612 | 3_1:-5606421 | None:intergenic |
| TTTCATTGATTGGAGATCCT+AGG | 0.471519 | 3_1:-5606299 | Msa0345900:CDS |
| TTCATTGATTGGAGATCCTA+GGG | 0.479591 | 3_1:-5606298 | Msa0345900:intron |
| AAGAAAATTTAACATGCTGC+AGG | 0.487401 | 3_1:-5606427 | None:intergenic |
| ATAAGTTCTTTCTTGATGCA+GGG | 0.489419 | 3_1:+5606140 | None:intergenic |
| TATATGGATGAACCAAGTAC+TGG | 0.513490 | 3_1:-5606169 | Msa0345900:CDS |
| TCATAAATTAATCTACAACT+TGG | 0.533782 | 3_1:+5606035 | None:intergenic |
| GCAGGGTCTAATCCAGTACT+TGG | 0.558449 | 3_1:+5606157 | None:intergenic |
| ATAGTGGAGGAATGAAGAGG+AGG | 0.594450 | 3_1:-5606335 | Msa0345900:CDS |
| AATATAGTGGAGGAATGAAG+AGG | 0.604137 | 3_1:-5606338 | Msa0345900:CDS |
| AAAATTTAACATGCTGCAGG+CGG | 0.641977 | 3_1:-5606424 | None:intergenic |
| AAAGCTGGAAAATATAGTGG+AGG | 0.644848 | 3_1:-5606348 | Msa0345900:CDS |
| TACTAGTCAGAATGATCGCA+CGG | 0.657396 | 3_1:+5606089 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAAAAAAAAAACATACCCT+AGG | + | chr3_1:5606177-5606196 | None:intergenic | 20.0% |
| !!! | ATGTTTTCTAATTCTGTTAT+TGG | - | chr3_1:5606245-5606264 | Msa0345900:intron | 20.0% |
| !!! | TGTTATTGGTAATTTTGTTA+AGG | - | chr3_1:5606259-5606278 | Msa0345900:intron | 20.0% |
| !!! | TTTTGTTAAGGTTGTTTATA+TGG | - | chr3_1:5606271-5606290 | Msa0345900:intron | 20.0% |
| !!! | AAAAGTGTAAACCTTTTTCA+TGG | - | chr3_1:5606069-5606088 | Msa0345900:CDS | 25.0% |
| ! | AAAAAAGCTGGAAAATATAG+TGG | - | chr3_1:5606105-5606124 | Msa0345900:CDS | 25.0% |
| AGTGTTGCAATTTCATTGAT+TGG | - | chr3_1:5606147-5606166 | Msa0345900:CDS | 30.0% | |
| ATAAGTTCTTTCTTGATGCA+GGG | + | chr3_1:5606319-5606338 | None:intergenic | 30.0% | |
| !! | AGTGTAAACCTTTTTCATGG+AGG | - | chr3_1:5606072-5606091 | Msa0345900:CDS | 35.0% |
| !! | GTGTAAACCTTTTTCATGGA+GGG | - | chr3_1:5606073-5606092 | Msa0345900:CDS | 35.0% |
| !! | TGTAAACCTTTTTCATGGAG+GGG | - | chr3_1:5606074-5606093 | Msa0345900:CDS | 35.0% |
| AAAGCTGGAAAATATAGTGG+AGG | - | chr3_1:5606108-5606127 | Msa0345900:CDS | 35.0% | |
| ! | AATATAGTGGAGGAATGAAG+AGG | - | chr3_1:5606118-5606137 | Msa0345900:CDS | 35.0% |
| ! | TTTCATTGATTGGAGATCCT+AGG | - | chr3_1:5606157-5606176 | Msa0345900:CDS | 35.0% |
| ! | TTCATTGATTGGAGATCCTA+GGG | - | chr3_1:5606158-5606177 | Msa0345900:CDS | 35.0% |
| TATATGGATGAACCAAGTAC+TGG | - | chr3_1:5606287-5606306 | Msa0345900:intron | 35.0% | |
| CATAAGTTCTTTCTTGATGC+AGG | + | chr3_1:5606320-5606339 | None:intergenic | 35.0% | |
| CTGCATCAAGAAAGAACTTA+TGG | - | chr3_1:5606318-5606337 | Msa0345900:CDS | 35.0% | |
| TGTTGTTAATCGTGCAAAAC+AGG | - | chr3_1:5606343-5606362 | Msa0345900:CDS | 35.0% | |
| TACTAGTCAGAATGATCGCA+CGG | + | chr3_1:5606370-5606389 | None:intergenic | 40.0% | |
| !!! | CTAGTACGTTTTTTCTCCCT+CGG | - | chr3_1:5606384-5606403 | Msa0345900:CDS | 40.0% |
| GGTACTGTTTCAAAAACCGA+GGG | + | chr3_1:5606403-5606422 | None:intergenic | 40.0% | |
| TGGTACTGTTTCAAAAACCG+AGG | + | chr3_1:5606404-5606423 | None:intergenic | 40.0% | |
| GGGGTTGCTGATAAAAAAGC+TGG | - | chr3_1:5606093-5606112 | Msa0345900:CDS | 45.0% | |
| ! | ATAGTGGAGGAATGAAGAGG+AGG | - | chr3_1:5606121-5606140 | Msa0345900:CDS | 45.0% |
| CAGCAACCCCTCCATGAAAA+AGG | + | chr3_1:5606083-5606102 | None:intergenic | 50.0% | |
| GCAGGGTCTAATCCAGTACT+TGG | + | chr3_1:5606302-5606321 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 5606042 | 5606436 | 5606042 | ID=Msa0345900;Name=Msa0345900 |
| chr3_1 | mRNA | 5606042 | 5606436 | 5606042 | ID=Msa0345900-mRNA-1;Parent=Msa0345900;Name=Msa0345900-mRNA-1;_AED=0.54;_eAED=0.55;_QI=0|0|0|1|1|1|2|0|97 |
| chr3_1 | exon | 5606299 | 5606436 | 5606299 | ID=Msa0345900-mRNA-1:exon:1681;Parent=Msa0345900-mRNA-1 |
| chr3_1 | exon | 5606042 | 5606197 | 5606042 | ID=Msa0345900-mRNA-1:exon:1680;Parent=Msa0345900-mRNA-1 |
| chr3_1 | CDS | 5606299 | 5606436 | 5606299 | ID=Msa0345900-mRNA-1:cds;Parent=Msa0345900-mRNA-1 |
| chr3_1 | CDS | 5606042 | 5606197 | 5606042 | ID=Msa0345900-mRNA-1:cds;Parent=Msa0345900-mRNA-1 |
| Gene Sequence |
| Protein sequence |
