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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0665540 | XP_024638013.1 | 96.226 | 106 | 4 | 0 | 1 | 106 | 1 | 106 | 6.39e-67 | 206 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0665540 | sp|Q9SSC1|Y1801_ARATH | 42.254 | 142 | 42 | 6 | 1 | 106 | 1 | 138 | 3.67e-23 | 89.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0665540 | A0A396HYZ6 | 96.226 | 106 | 4 | 0 | 1 | 106 | 1 | 106 | 3.05e-67 | 206 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0405200 | Msa0665540 | 0.816540 | 5.247219e-52 | -8.615850e-47 |
| Msa0345050 | Msa0665540 | 0.803416 | 3.522312e-49 | -8.615850e-47 |
| Msa0497680 | Msa0665540 | 0.800831 | 1.198055e-48 | -8.615850e-47 |
| Msa0587560 | Msa0665540 | 0.941142 | 6.955628e-101 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0665540 | MtrunA17_Chr4g0003631 | 96.226 | 106 | 4 | 0 | 1 | 106 | 1 | 106 | 5.88e-71 | 206 |
| Msa0665540 | MtrunA17_Chr2g0332771 | 57.627 | 118 | 38 | 1 | 1 | 106 | 1 | 118 | 1.10e-39 | 128 |
| Msa0665540 | MtrunA17_Chr4g0063471 | 53.191 | 94 | 32 | 4 | 1 | 93 | 1 | 83 | 4.34e-23 | 85.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0665540 | AT1G80180.1 | 42.254 | 142 | 42 | 6 | 1 | 106 | 1 | 138 | 3.73e-24 | 89.7 |
| Msa0665540 | AT5G20100.1 | 47.959 | 98 | 47 | 2 | 3 | 96 | 2 | 99 | 6.85e-22 | 83.2 |
| Msa0665540 | AT1G15400.3 | 40.152 | 132 | 45 | 6 | 1 | 103 | 1 | 127 | 5.43e-20 | 79.3 |
| Msa0665540 | AT1G15400.2 | 40.152 | 132 | 45 | 6 | 1 | 103 | 1 | 127 | 5.67e-20 | 79.0 |
| Msa0665540 | AT1G15400.1 | 40.152 | 132 | 45 | 6 | 1 | 103 | 1 | 127 | 5.94e-20 | 79.3 |
Find 31 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGGTTCATCTGGTCTTGTT+TGG | 0.224185 | 4_4:-5131574 | Msa0665540:CDS |
| AGGTTCATCTGGTCTTGTTT+GGG | 0.315565 | 4_4:-5131573 | Msa0665540:CDS |
| TGTGGATTCTGTAGCCCTTT+TGG | 0.323362 | 4_4:-5131362 | Msa0665540:CDS |
| CTACCTCGACCGACGTTTAC+CGG | 0.339840 | 4_4:+5131316 | None:intergenic |
| TGGGATGACAGATTCTTATC+AGG | 0.348639 | 4_4:-5131554 | Msa0665540:CDS |
| CTGAATGATACTTCAGATCT+TGG | 0.351403 | 4_4:+5131602 | None:intergenic |
| GGAGACGGTGGTTCGATCGC+TGG | 0.391781 | 4_4:+5131398 | None:intergenic |
| TTCAGAAGATCAGGTTCATC+TGG | 0.432719 | 4_4:-5131584 | Msa0665540:CDS |
| GAAGTATCATTCAGAAGATC+AGG | 0.445781 | 4_4:-5131593 | Msa0665540:CDS |
| AGAAGCCATTCCACCGGTGC+TGG | 0.447002 | 4_4:-5131449 | Msa0665540:CDS |
| GGTGGAATGGCTTCTTTGTA+CGG | 0.453050 | 4_4:+5131457 | None:intergenic |
| GAGACGGTGGTTCGATCGCT+GGG | 0.462717 | 4_4:+5131399 | None:intergenic |
| CTCGTCCAGCACCGGTGGAA+TGG | 0.498060 | 4_4:+5131444 | None:intergenic |
| TCTCCGAAGGTTTCTGCGTG+TGG | 0.512115 | 4_4:-5131380 | Msa0665540:CDS |
| CATTCCACCGGTGCTGGACG+AGG | 0.514080 | 4_4:-5131443 | Msa0665540:CDS |
| TACCTCGACCGACGTTTACC+GGG | 0.526089 | 4_4:+5131317 | None:intergenic |
| AATCCACACGCAGAAACCTT+CGG | 0.536395 | 4_4:+5131377 | None:intergenic |
| GAGAGAGAGAACATCATGGC+TGG | 0.540131 | 4_4:-5131629 | None:intergenic |
| ACGGTATCCTCGTCCAGCAC+CGG | 0.568784 | 4_4:+5131436 | None:intergenic |
| AGCCCGGTAAACGTCGGTCG+AGG | 0.570758 | 4_4:-5131319 | Msa0665540:CDS |
| CACGCAGAAACCTTCGGAGA+CGG | 0.583247 | 4_4:+5131383 | None:intergenic |
| AAGGGTCAACGATCAAAGCC+CGG | 0.598386 | 4_4:-5131335 | Msa0665540:CDS |
| GATCGAACCACCGTCTCCGA+AGG | 0.606120 | 4_4:-5131393 | Msa0665540:CDS |
| CGGTAAACGTCGGTCGAGGT+AGG | 0.609038 | 4_4:-5131315 | None:intergenic |
| GGAATGGCTTCTTTGTACGG+TGG | 0.613872 | 4_4:+5131460 | None:intergenic |
| GTATCCTCGTCCAGCACCGG+TGG | 0.623334 | 4_4:+5131439 | None:intergenic |
| GCTGGACGAGGATACCGTAC+CGG | 0.652103 | 4_4:-5131431 | Msa0665540:CDS |
| GCAGAAACCTTCGGAGACGG+TGG | 0.660406 | 4_4:+5131386 | None:intergenic |
| AGACGGTGGTTCGATCGCTG+GGG | 0.689604 | 4_4:+5131400 | None:intergenic |
| GTACAAAGAAGCCATTCCAC+CGG | 0.692582 | 4_4:-5131455 | Msa0665540:CDS |
| GATCAAAGCCCGGTAAACGT+CGG | 0.721418 | 4_4:-5131325 | Msa0665540:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTGAATGATACTTCAGATCT+TGG | + | chr4_4:5131331-5131350 | None:intergenic | 35.0% | |
| ! | GAAGTATCATTCAGAAGATC+AGG | - | chr4_4:5131337-5131356 | Msa0665540:CDS | 35.0% |
| !! | TGTAGCCCTTTTGGAAAAAA+GGG | - | chr4_4:5131577-5131596 | Msa0665540:CDS | 35.0% |
| !!! | GTTGACCCTTTTTTCCAAAA+GGG | + | chr4_4:5131585-5131604 | None:intergenic | 35.0% |
| TTCAGAAGATCAGGTTCATC+TGG | - | chr4_4:5131346-5131365 | Msa0665540:CDS | 40.0% | |
| !! | AGGTTCATCTGGTCTTGTTT+GGG | - | chr4_4:5131357-5131376 | Msa0665540:CDS | 40.0% |
| TGGGATGACAGATTCTTATC+AGG | - | chr4_4:5131376-5131395 | Msa0665540:CDS | 40.0% | |
| ! | GGTTTTCACATGAAGCTCTT+TGG | + | chr4_4:5131452-5131471 | None:intergenic | 40.0% |
| !! | CTGTAGCCCTTTTGGAAAAA+AGG | - | chr4_4:5131576-5131595 | Msa0665540:CDS | 40.0% |
| !!! | CGTTGACCCTTTTTTCCAAA+AGG | + | chr4_4:5131586-5131605 | None:intergenic | 40.0% |
| !! | CAGGTTCATCTGGTCTTGTT+TGG | - | chr4_4:5131356-5131375 | Msa0665540:CDS | 45.0% |
| GGTGGAATGGCTTCTTTGTA+CGG | + | chr4_4:5131476-5131495 | None:intergenic | 45.0% | |
| GTACAAAGAAGCCATTCCAC+CGG | - | chr4_4:5131475-5131494 | Msa0665540:CDS | 45.0% | |
| AATCCACACGCAGAAACCTT+CGG | + | chr4_4:5131556-5131575 | None:intergenic | 45.0% | |
| ! | TGTGGATTCTGTAGCCCTTT+TGG | - | chr4_4:5131568-5131587 | Msa0665540:CDS | 45.0% |
| GGAATGGCTTCTTTGTACGG+TGG | + | chr4_4:5131473-5131492 | None:intergenic | 50.0% | |
| AAGGGTCAACGATCAAAGCC+CGG | - | chr4_4:5131595-5131614 | Msa0665540:CDS | 50.0% | |
| GATCAAAGCCCGGTAAACGT+CGG | - | chr4_4:5131605-5131624 | Msa0665540:CDS | 50.0% | |
| ! | CTGGGGAGACTTTTCCGGTA+CGG | + | chr4_4:5131516-5131535 | None:intergenic | 55.0% |
| ! | GATCGCTGGGGAGACTTTTC+CGG | + | chr4_4:5131521-5131540 | None:intergenic | 55.0% |
| CACGCAGAAACCTTCGGAGA+CGG | + | chr4_4:5131550-5131569 | None:intergenic | 55.0% | |
| TCTCCGAAGGTTTCTGCGTG+TGG | - | chr4_4:5131550-5131569 | Msa0665540:CDS | 55.0% | |
| TACCTCGACCGACGTTTACC+GGG | + | chr4_4:5131616-5131635 | None:intergenic | 55.0% | |
| CTACCTCGACCGACGTTTAC+CGG | + | chr4_4:5131617-5131636 | None:intergenic | 55.0% | |
| AGAAGCCATTCCACCGGTGC+TGG | - | chr4_4:5131481-5131500 | Msa0665540:CDS | 60.0% | |
| ACGGTATCCTCGTCCAGCAC+CGG | + | chr4_4:5131497-5131516 | None:intergenic | 60.0% | |
| GCTGGACGAGGATACCGTAC+CGG | - | chr4_4:5131499-5131518 | Msa0665540:CDS | 60.0% | |
| AGACGGTGGTTCGATCGCTG+GGG | + | chr4_4:5131533-5131552 | None:intergenic | 60.0% | |
| GAGACGGTGGTTCGATCGCT+GGG | + | chr4_4:5131534-5131553 | None:intergenic | 60.0% | |
| GATCGAACCACCGTCTCCGA+AGG | - | chr4_4:5131537-5131556 | Msa0665540:CDS | 60.0% | |
| GCAGAAACCTTCGGAGACGG+TGG | + | chr4_4:5131547-5131566 | None:intergenic | 60.0% | |
| !! | CTCGTCCAGCACCGGTGGAA+TGG | + | chr4_4:5131489-5131508 | None:intergenic | 65.0% |
| ! | CATTCCACCGGTGCTGGACG+AGG | - | chr4_4:5131487-5131506 | Msa0665540:CDS | 65.0% |
| ! | GTATCCTCGTCCAGCACCGG+TGG | + | chr4_4:5131494-5131513 | None:intergenic | 65.0% |
| GGAGACGGTGGTTCGATCGC+TGG | + | chr4_4:5131535-5131554 | None:intergenic | 65.0% | |
| AGCCCGGTAAACGTCGGTCG+AGG | - | chr4_4:5131611-5131630 | Msa0665540:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 5131316 | 5131636 | 5131316 | ID=Msa0665540;Name=Msa0665540 |
| chr4_4 | mRNA | 5131316 | 5131636 | 5131316 | ID=Msa0665540-mRNA-1;Parent=Msa0665540;Name=Msa0665540-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|106 |
| chr4_4 | exon | 5131316 | 5131636 | 5131316 | ID=Msa0665540-mRNA-1:exon:1698;Parent=Msa0665540-mRNA-1 |
| chr4_4 | CDS | 5131316 | 5131636 | 5131316 | ID=Msa0665540-mRNA-1:cds;Parent=Msa0665540-mRNA-1 |
| Gene Sequence |
| Protein sequence |
