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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1351740 | RHN49087.1 | 84.946 | 93 | 8 | 1 | 1 | 93 | 4 | 90 | 4.50e-47 | 155 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1351740 | sp|Q6NNN0|RADL3_ARATH | 50.820 | 61 | 29 | 1 | 8 | 68 | 12 | 71 | 8.32e-13 | 61.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1351740 | A0A396HDW1 | 84.946 | 93 | 8 | 1 | 1 | 93 | 4 | 90 | 2.15e-47 | 155 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1351740 | Msa1423780 | 0.812455 | 4.203115e-51 | -8.615850e-47 |
| Msa1351740 | Msa1459100 | 0.801994 | 6.924571e-49 | -8.615850e-47 |
| Msa0696850 | Msa1351740 | 0.804338 | 2.266250e-49 | -8.615850e-47 |
| Msa0195100 | Msa1351740 | 0.827279 | 1.708108e-54 | -8.615850e-47 |
| Msa0202800 | Msa1351740 | 0.801008 | 1.102522e-48 | -8.615850e-47 |
| Msa0230320 | Msa1351740 | 0.815760 | 7.836334e-52 | -8.615850e-47 |
| Msa1285550 | Msa1351740 | 0.804142 | 2.489956e-49 | -8.615850e-47 |
| Msa0389770 | Msa1351740 | 0.800096 | 1.691681e-48 | -8.615850e-47 |
| Msa0476680 | Msa1351740 | 0.811306 | 7.477797e-51 | -8.615850e-47 |
| Msa0308630 | Msa1351740 | 0.804892 | 1.736328e-49 | -8.615850e-47 |
| Msa1127380 | Msa1351740 | 0.805210 | 1.490408e-49 | -8.615850e-47 |
| Msa1177560 | Msa1351740 | 0.806428 | 8.266927e-50 | -8.615850e-47 |
| Msa0521010 | Msa1351740 | 0.809435 | 1.895267e-50 | -8.615850e-47 |
| Msa0921420 | Msa1351740 | 0.808447 | 3.083457e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1351740 | MtrunA17_Chr7g0270711 | 84.946 | 93 | 8 | 1 | 1 | 93 | 4 | 90 | 4.14e-51 | 155 |
| Msa1351740 | MtrunA17_Chr1g0194071 | 70.115 | 87 | 25 | 1 | 4 | 90 | 7 | 92 | 5.08e-37 | 120 |
| Msa1351740 | MtrunA17_Chr6g0449111 | 44.444 | 63 | 34 | 1 | 4 | 66 | 6 | 67 | 9.11e-13 | 58.5 |
| Msa1351740 | MtrunA17_Chr3g0081631 | 50.847 | 59 | 29 | 0 | 8 | 66 | 10 | 68 | 1.14e-12 | 58.5 |
| Msa1351740 | MtrunA17_Chr3g0144631 | 54.386 | 57 | 25 | 1 | 8 | 64 | 16 | 71 | 2.93e-12 | 57.4 |
| Msa1351740 | MtrunA17_Chr8g0373131 | 45.902 | 61 | 31 | 1 | 6 | 66 | 3 | 61 | 1.90e-11 | 55.1 |
| Msa1351740 | MtrunA17_Chr8g0373111 | 45.902 | 61 | 31 | 1 | 6 | 66 | 3 | 61 | 2.32e-11 | 54.7 |
| Msa1351740 | MtrunA17_Chr8g0373121 | 45.902 | 61 | 31 | 1 | 6 | 66 | 3 | 61 | 2.32e-11 | 54.7 |
| Msa1351740 | MtrunA17_Chr5g0404101 | 47.458 | 59 | 30 | 1 | 8 | 66 | 19 | 76 | 2.96e-11 | 55.1 |
| Msa1351740 | MtrunA17_Chr5g0404301 | 42.424 | 66 | 36 | 1 | 5 | 70 | 1 | 64 | 4.29e-11 | 53.9 |
| Msa1351740 | MtrunA17_Chr1g0155181 | 45.902 | 61 | 32 | 1 | 4 | 64 | 3 | 62 | 5.75e-11 | 53.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1351740 | AT1G75250.2 | 46.032 | 63 | 33 | 1 | 4 | 66 | 8 | 69 | 3.55e-12 | 57.8 |
| Msa1351740 | AT1G75250.1 | 46.032 | 63 | 33 | 1 | 4 | 66 | 8 | 69 | 9.55e-12 | 57.4 |
| Msa1351740 | AT4G39250.1 | 45.614 | 57 | 30 | 1 | 8 | 64 | 14 | 69 | 2.39e-11 | 55.8 |
Find 18 sgRNAs with CRISPR-Local
Find 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GACTTGCATGTTATAGAATC+TGG | 0.410281 | tig0012392:+9595 | Msa1351740:CDS |
| ATGAGAAACATCCGAAAAGA+TGG | 0.426846 | tig0012392:+9497 | Msa1351740:CDS |
| TAGTGTCCTTGTTGAGTGTA+AGG | 0.461181 | tig0012392:+9651 | Msa1351740:CDS |
| AGAGAACAAGTTGTTTGAGT+TGG | 0.468112 | tig0012392:+9459 | Msa1351740:CDS |
| GAGGTAGTAGCAGCCATGGT+TGG | 0.549964 | tig0012392:+9520 | Msa1351740:CDS |
| AAAATGGATCATAAATTTGG+AGG | 0.550426 | tig0012392:+9619 | Msa1351740:CDS |
| GTTTGAGTTGGCTTTAGCAA+TGG | 0.556337 | tig0012392:+9471 | Msa1351740:CDS |
| TGAGAAACATCCGAAAAGAT+GGG | 0.568098 | tig0012392:+9498 | Msa1351740:CDS |
| GTGAGATGAATGATATGGCT+TGG | 0.579490 | tig0012392:+9413 | None:intergenic |
| GCGTTATGTGATCCTTCTTG+AGG | 0.581117 | tig0012392:+9573 | Msa1351740:CDS |
| GTAGTAGCAGCCATGGTTGG+AGG | 0.581978 | tig0012392:+9523 | Msa1351740:CDS |
| ACACTTATCACCTCCAACCA+TGG | 0.585946 | tig0012392:-9533 | None:intergenic |
| TTACACTCAACAAGGACACT+AGG | 0.586776 | tig0012392:-9649 | None:intergenic |
| ATGGGAGGTAGTAGCAGCCA+TGG | 0.591560 | tig0012392:+9516 | Msa1351740:CDS |
| TAACATGCAAGTCCTCAAGA+AGG | 0.604027 | tig0012392:-9585 | None:intergenic |
| ACTCTTCCTTACACTCAACA+AGG | 0.660110 | tig0012392:-9657 | None:intergenic |
| TGGAGGTGATAAGTGTGCAG+TGG | 0.675166 | tig0012392:+9540 | Msa1351740:CDS |
| GAAACATCCGAAAAGATGGG+AGG | 0.709307 | tig0012392:+9501 | Msa1351740:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGTTATAGAATCTGGAAAAA+TGG | + | tig0012392:9603-9622 | Msa1351740:CDS | 25.0% |
| ! | GGAAAAATGGATCATAAATT+TGG | + | tig0012392:9616-9635 | Msa1351740:CDS | 25.0% |
| ! | AAAATGGATCATAAATTTGG+AGG | + | tig0012392:9619-9638 | Msa1351740:CDS | 25.0% |
| AGAGAACAAGTTGTTTGAGT+TGG | + | tig0012392:9459-9478 | Msa1351740:CDS | 35.0% | |
| ATGAGAAACATCCGAAAAGA+TGG | + | tig0012392:9497-9516 | Msa1351740:CDS | 35.0% | |
| TGAGAAACATCCGAAAAGAT+GGG | + | tig0012392:9498-9517 | Msa1351740:CDS | 35.0% | |
| GACTTGCATGTTATAGAATC+TGG | + | tig0012392:9595-9614 | Msa1351740:CDS | 35.0% | |
| !! | GTTTGAGTTGGCTTTAGCAA+TGG | + | tig0012392:9471-9490 | Msa1351740:CDS | 40.0% |
| TAACATGCAAGTCCTCAAGA+AGG | - | tig0012392:9588-9607 | None:intergenic | 40.0% | |
| TTACACTCAACAAGGACACT+AGG | - | tig0012392:9652-9671 | None:intergenic | 40.0% | |
| TAGTGTCCTTGTTGAGTGTA+AGG | + | tig0012392:9651-9670 | Msa1351740:CDS | 40.0% | |
| ACTCTTCCTTACACTCAACA+AGG | - | tig0012392:9660-9679 | None:intergenic | 40.0% | |
| GAAACATCCGAAAAGATGGG+AGG | + | tig0012392:9501-9520 | Msa1351740:CDS | 45.0% | |
| ! | GCTACTACCTCCCATCTTTT+CGG | - | tig0012392:9511-9530 | None:intergenic | 45.0% |
| ACACTTATCACCTCCAACCA+TGG | - | tig0012392:9536-9555 | None:intergenic | 45.0% | |
| GCGTTATGTGATCCTTCTTG+AGG | + | tig0012392:9573-9592 | Msa1351740:CDS | 45.0% | |
| TGGAGGTGATAAGTGTGCAG+TGG | + | tig0012392:9540-9559 | Msa1351740:CDS | 50.0% | |
| !! | TGGCTTGGAGCTTTTGTGGG+TGG | + | tig0012392:9428-9447 | Msa1351740:CDS | 55.0% |
| ! | GGAGCTTTTGTGGGTGGAGT+TGG | + | tig0012392:9434-9453 | Msa1351740:CDS | 55.0% |
| ATGGGAGGTAGTAGCAGCCA+TGG | + | tig0012392:9516-9535 | Msa1351740:CDS | 55.0% | |
| GAGGTAGTAGCAGCCATGGT+TGG | + | tig0012392:9520-9539 | Msa1351740:CDS | 55.0% | |
| GTAGTAGCAGCCATGGTTGG+AGG | + | tig0012392:9523-9542 | Msa1351740:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0012392 | gene | 9427 | 9735 | 9427 | ID=Msa1351740;Name=Msa1351740 |
| tig0012392 | mRNA | 9427 | 9735 | 9427 | ID=Msa1351740-mRNA-1;Parent=Msa1351740;Name=Msa1351740-mRNA-1;_AED=0.08;_eAED=0.08;_QI=0|-1|0|1|-1|1|1|0|102 |
| tig0012392 | exon | 9427 | 9735 | 9427 | ID=Msa1351740-mRNA-1:exon:7830;Parent=Msa1351740-mRNA-1 |
| tig0012392 | CDS | 9427 | 9735 | 9427 | ID=Msa1351740-mRNA-1:cds;Parent=Msa1351740-mRNA-1 |
| Gene Sequence |
| Protein sequence |
