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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0200460 | XP_013463153.1 | 95.402 | 87 | 4 | 0 | 1 | 87 | 74 | 160 | 4.37e-53 | 172 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0200460 | sp|P17642|PRS2_SOLTU | 51.724 | 87 | 42 | 0 | 1 | 87 | 69 | 155 | 2.28e-27 | 100 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0200460 | A0A072V725 | 95.402 | 87 | 4 | 0 | 1 | 87 | 74 | 160 | 2.09e-53 | 172 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0200460 | Msa0887620 | 0.861989 | 6.962258e-64 | -8.615850e-47 |
| Msa0200460 | Msa1223290 | 0.844045 | 9.639832e-59 | -8.615850e-47 |
| Msa0200460 | Msa1263840 | 0.804434 | 2.164709e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0200460 | MtrunA17_Chr2g0295211 | 95.402 | 87 | 4 | 0 | 1 | 87 | 74 | 160 | 4.02e-57 | 172 |
| Msa0200460 | MtrunA17_Chr4g0067841 | 73.563 | 87 | 23 | 0 | 1 | 87 | 74 | 160 | 5.17e-45 | 142 |
| Msa0200460 | MtrunA17_Chr2g0295021 | 39.759 | 83 | 50 | 0 | 1 | 83 | 73 | 155 | 1.31e-15 | 67.0 |
| Msa0200460 | MtrunA17_Chr2g0295001 | 39.759 | 83 | 50 | 0 | 1 | 83 | 73 | 155 | 1.31e-15 | 67.0 |
| Msa0200460 | MtrunA17_Chr2g0295041 | 37.349 | 83 | 52 | 0 | 1 | 83 | 73 | 155 | 2.78e-15 | 66.2 |
| Msa0200460 | MtrunA17_Chr2g0295051 | 36.145 | 83 | 53 | 0 | 1 | 83 | 73 | 155 | 3.14e-14 | 63.5 |
| Msa0200460 | MtrunA17_Chr2g0295064 | 37.349 | 83 | 52 | 0 | 1 | 83 | 140 | 222 | 9.49e-14 | 63.5 |
| Msa0200460 | MtrunA17_Chr2g0295141 | 34.146 | 82 | 54 | 0 | 2 | 83 | 74 | 155 | 6.81e-12 | 57.4 |
| Msa0200460 | MtrunA17_Chr6g0462311 | 35.366 | 82 | 53 | 0 | 2 | 83 | 74 | 155 | 4.21e-11 | 55.5 |
| Msa0200460 | MtrunA17_Chr4g0067951 | 35.366 | 82 | 53 | 0 | 2 | 83 | 74 | 155 | 6.86e-11 | 55.1 |
| Msa0200460 | MtrunA17_Chr2g0295104 | 32.927 | 82 | 55 | 0 | 2 | 83 | 74 | 155 | 8.34e-11 | 54.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 21 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGACAACCTCCATCATTAA+TGG | 0.296839 | 2_1:-20546563 | None:intergenic |
| ACAAGCAAATACAATGCTAT+TGG | 0.304763 | 2_1:+20546595 | Msa0200460:CDS |
| CAAGCAAATACAATGCTATT+GGG | 0.319492 | 2_1:+20546596 | Msa0200460:CDS |
| GCTTGAGTCAATTGCTTATG+AGG | 0.335592 | 2_1:+20546528 | Msa0200460:CDS |
| AGTCAAAGTGGAAGAGATAA+AGG | 0.348216 | 2_1:+20546627 | Msa0200460:CDS |
| GACTCAAGCTTGTCACCTAA+TGG | 0.355452 | 2_1:-20546514 | None:intergenic |
| TGGAAGAGATAAAGGAAGGA+AGG | 0.434232 | 2_1:+20546635 | Msa0200460:CDS |
| TGCTTATGAGGTTAAGTTTG+AGG | 0.448209 | 2_1:+20546540 | Msa0200460:CDS |
| AAGTTTGAGGCCATTAATGA+TGG | 0.470153 | 2_1:+20546553 | Msa0200460:CDS |
| CTTGGTGTGCAACTACACTA+TGG | 0.480206 | 2_1:+20546480 | Msa0200460:CDS |
| CACAACTTTGCATATTCCAA+TGG | 0.491560 | 2_1:-20546665 | None:intergenic |
| ATGGTTGAAGGAGATCCATT+AGG | 0.495029 | 2_1:+20546499 | Msa0200460:CDS |
| AGTTGTGGAAGCATACTTGA+TGG | 0.517282 | 2_1:+20546681 | Msa0200460:CDS |
| GGAAGAGATAAAGGAAGGAA+GGG | 0.521833 | 2_1:+20546636 | Msa0200460:CDS |
| GAAGGAAGGGAAAACTCCAT+TGG | 0.523267 | 2_1:+20546649 | Msa0200460:CDS |
| TGCAACTACACTATGGTTGA+AGG | 0.529212 | 2_1:+20546487 | Msa0200460:CDS |
| TATGATTGATAATGATAACT+TGG | 0.540241 | 2_1:+20546462 | None:intergenic |
| AAAGTGGAAGAGATAAAGGA+AGG | 0.556684 | 2_1:+20546631 | Msa0200460:CDS |
| CATTGGAATATGCAAAGTTG+TGG | 0.585538 | 2_1:+20546666 | Msa0200460:CDS |
| TTTGAGGCCATTAATGATGG+AGG | 0.588869 | 2_1:+20546556 | Msa0200460:CDS |
| AAGCAAATACAATGCTATTG+GGG | 0.591788 | 2_1:+20546597 | Msa0200460:CDS |
| AATAACTAAACATAGACTTG+TGG | 0.604303 | 2_1:-20546709 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACAAGCAAATACAATGCTAT+TGG | + | chr2_1:20546595-20546614 | Msa0200460:CDS | 30.0% | |
| CAAGCAAATACAATGCTATT+GGG | + | chr2_1:20546596-20546615 | Msa0200460:CDS | 30.0% | |
| AAGCAAATACAATGCTATTG+GGG | + | chr2_1:20546597-20546616 | Msa0200460:CDS | 30.0% | |
| TGCTTATGAGGTTAAGTTTG+AGG | + | chr2_1:20546540-20546559 | Msa0200460:CDS | 35.0% | |
| ! | AAGTTTGAGGCCATTAATGA+TGG | + | chr2_1:20546553-20546572 | Msa0200460:CDS | 35.0% |
| AAGACAACCTCCATCATTAA+TGG | - | chr2_1:20546566-20546585 | None:intergenic | 35.0% | |
| AGTCAAAGTGGAAGAGATAA+AGG | + | chr2_1:20546627-20546646 | Msa0200460:CDS | 35.0% | |
| AAAGTGGAAGAGATAAAGGA+AGG | + | chr2_1:20546631-20546650 | Msa0200460:CDS | 35.0% | |
| CACAACTTTGCATATTCCAA+TGG | - | chr2_1:20546668-20546687 | None:intergenic | 35.0% | |
| CATTGGAATATGCAAAGTTG+TGG | + | chr2_1:20546666-20546685 | Msa0200460:CDS | 35.0% | |
| TGCAACTACACTATGGTTGA+AGG | + | chr2_1:20546487-20546506 | Msa0200460:CDS | 40.0% | |
| ATGGTTGAAGGAGATCCATT+AGG | + | chr2_1:20546499-20546518 | Msa0200460:CDS | 40.0% | |
| GCTTGAGTCAATTGCTTATG+AGG | + | chr2_1:20546528-20546547 | Msa0200460:CDS | 40.0% | |
| ! | TTTGAGGCCATTAATGATGG+AGG | + | chr2_1:20546556-20546575 | Msa0200460:CDS | 40.0% |
| !!! | TGGGGATTTTGAAGTCAAAG+TGG | + | chr2_1:20546615-20546634 | Msa0200460:CDS | 40.0% |
| TGGAAGAGATAAAGGAAGGA+AGG | + | chr2_1:20546635-20546654 | Msa0200460:CDS | 40.0% | |
| GGAAGAGATAAAGGAAGGAA+GGG | + | chr2_1:20546636-20546655 | Msa0200460:CDS | 40.0% | |
| ! | AGTTGTGGAAGCATACTTGA+TGG | + | chr2_1:20546681-20546700 | Msa0200460:CDS | 40.0% |
| ! | CTTGGTGTGCAACTACACTA+TGG | + | chr2_1:20546480-20546499 | Msa0200460:CDS | 45.0% |
| GACTCAAGCTTGTCACCTAA+TGG | - | chr2_1:20546517-20546536 | None:intergenic | 45.0% | |
| GAAGGAAGGGAAAACTCCAT+TGG | + | chr2_1:20546649-20546668 | Msa0200460:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 20546463 | 20546726 | 20546463 | ID=Msa0200460;Name=Msa0200460 |
| chr2_1 | mRNA | 20546463 | 20546726 | 20546463 | ID=Msa0200460-mRNA-1;Parent=Msa0200460;Name=Msa0200460-mRNA-1;_AED=0.21;_eAED=0.21;_QI=0|-1|0|1|-1|1|1|0|87 |
| chr2_1 | exon | 20546463 | 20546726 | 20546463 | ID=Msa0200460-mRNA-1:exon:8445;Parent=Msa0200460-mRNA-1 |
| chr2_1 | CDS | 20546463 | 20546726 | 20546463 | ID=Msa0200460-mRNA-1:cds;Parent=Msa0200460-mRNA-1 |
| Gene Sequence |
| Protein sequence |
