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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0263380 | ABD33067.1 | 67.677 | 99 | 7 | 2 | 1 | 99 | 1 | 74 | 1.98e-28 | 108 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0263380 | Q2HSV6 | 67.677 | 99 | 7 | 2 | 1 | 99 | 1 | 74 | 9.45e-29 | 108 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0077010 | Msa0263380 | 0.804762 | 1.848612e-49 | -8.615850e-47 |
| Msa0263380 | Msa0659990 | 0.807357 | 5.258983e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0263380 | MtrunA17_Chr2g0326261 | 67.677 | 99 | 7 | 2 | 1 | 99 | 1 | 74 | 1.82e-32 | 108 |
| Msa0263380 | MtrunA17_Chr4g0029791 | 46.364 | 110 | 32 | 5 | 1 | 99 | 1 | 94 | 1.07e-17 | 71.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 20 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGTCTTCCTCTTTGTCTTTC+AGG | 0.057066 | 2_2:+62727133 | Msa0263380:CDS |
| ATTCTCCTGCAATGTTAATT+TGG | 0.112196 | 2_2:-62727429 | None:intergenic |
| CTTGGAAGAGAGGGTATTAT+TGG | 0.266004 | 2_2:+62727373 | Msa0263380:CDS |
| GCTAATGTTAATCAAGAAAT+AGG | 0.282507 | 2_2:+62727403 | Msa0263380:CDS |
| GTCTTCCTCTTTGTCTTTCA+GGG | 0.282518 | 2_2:+62727134 | Msa0263380:CDS |
| TTCTCCTGCAATGTTAATTT+GGG | 0.327796 | 2_2:-62727428 | None:intergenic |
| TATAGTTACTCTTGAGAAAG+AGG | 0.399116 | 2_2:-62727172 | None:intergenic |
| GGTACCCAAATTAACATTGC+AGG | 0.423397 | 2_2:+62727424 | Msa0263380:CDS |
| ATTGCAGGAGAATACTTTGA+TGG | 0.453130 | 2_2:+62727439 | Msa0263380:CDS |
| TACTCTTGAGAAAGAGGAAG+AGG | 0.485500 | 2_2:-62727166 | None:intergenic |
| GCAAAGATCACTTGGAAGAG+AGG | 0.494466 | 2_2:+62727363 | Msa0263380:CDS |
| TTCACTACTTTGTGTGTGTG+TGG | 0.510703 | 2_2:+62727550 | Msa0263380:three_prime_UTR |
| ATGAGGAAGCAAAGATCACT+TGG | 0.513383 | 2_2:+62727355 | Msa0263380:CDS |
| CAAAGATCACTTGGAAGAGA+GGG | 0.562619 | 2_2:+62727364 | Msa0263380:CDS |
| GGAACAATAGTACTGTGTAA+AGG | 0.572644 | 2_2:-62727059 | None:intergenic |
| GGATGGTAGATCATGATCGT+AGG | 0.629333 | 2_2:+62727305 | Msa0263380:intron |
| ACCATGACGAATGTTTAACA+TGG | 0.634844 | 2_2:-62727113 | None:intergenic |
| ATGATCCCTGAAAGACAAAG+AGG | 0.635190 | 2_2:-62727139 | None:intergenic |
| TCCATGTTAAACATTCGTCA+TGG | 0.647513 | 2_2:+62727112 | Msa0263380:CDS |
| ACTCTTGAGAAAGAGGAAGA+GGG | 0.652401 | 2_2:-62727165 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTGCTTAATTTCTTTCTT+TGG | - | chr2_2:62727083-62727102 | None:intergenic | 20.0% |
| !!! | TTTGTGTTTTGTTTTGTTGA+TGG | + | chr2_2:62727277-62727296 | Msa0263380:intron | 25.0% |
| !!! | TTGTGTTTTGTTTTGTTGAT+GGG | + | chr2_2:62727278-62727297 | Msa0263380:intron | 25.0% |
| ! | GCTAATGTTAATCAAGAAAT+AGG | + | chr2_2:62727403-62727422 | Msa0263380:CDS | 25.0% |
| TATAGTTACTCTTGAGAAAG+AGG | - | chr2_2:62727175-62727194 | None:intergenic | 30.0% | |
| TTCTCCTGCAATGTTAATTT+GGG | - | chr2_2:62727431-62727450 | None:intergenic | 30.0% | |
| ATTCTCCTGCAATGTTAATT+TGG | - | chr2_2:62727432-62727451 | None:intergenic | 30.0% | |
| GGAACAATAGTACTGTGTAA+AGG | - | chr2_2:62727062-62727081 | None:intergenic | 35.0% | |
| TCCATGTTAAACATTCGTCA+TGG | + | chr2_2:62727112-62727131 | Msa0263380:CDS | 35.0% | |
| ACCATGACGAATGTTTAACA+TGG | - | chr2_2:62727116-62727135 | None:intergenic | 35.0% | |
| !!! | TTTGTTTTGTTGATGGGTGT+AGG | + | chr2_2:62727284-62727303 | Msa0263380:intron | 35.0% |
| CATCATCATCATCATCATCA+TGG | - | chr2_2:62727338-62727357 | None:intergenic | 35.0% | |
| ! | TGATGATGATGATGATGATG+AGG | + | chr2_2:62727338-62727357 | Msa0263380:CDS | 35.0% |
| ATTGCAGGAGAATACTTTGA+TGG | + | chr2_2:62727439-62727458 | Msa0263380:CDS | 35.0% | |
| GTCTTCCTCTTTGTCTTTCA+GGG | + | chr2_2:62727134-62727153 | Msa0263380:CDS | 40.0% | |
| ATGATCCCTGAAAGACAAAG+AGG | - | chr2_2:62727142-62727161 | None:intergenic | 40.0% | |
| ACTCTTGAGAAAGAGGAAGA+GGG | - | chr2_2:62727168-62727187 | None:intergenic | 40.0% | |
| TACTCTTGAGAAAGAGGAAG+AGG | - | chr2_2:62727169-62727188 | None:intergenic | 40.0% | |
| !! | TTTTGTTGATGGGTGTAGGA+TGG | + | chr2_2:62727288-62727307 | Msa0263380:intron | 40.0% |
| ATGAGGAAGCAAAGATCACT+TGG | + | chr2_2:62727355-62727374 | Msa0263380:CDS | 40.0% | |
| CAAAGATCACTTGGAAGAGA+GGG | + | chr2_2:62727364-62727383 | Msa0263380:CDS | 40.0% | |
| !! | CTTGGAAGAGAGGGTATTAT+TGG | + | chr2_2:62727373-62727392 | Msa0263380:CDS | 40.0% |
| GGTACCCAAATTAACATTGC+AGG | + | chr2_2:62727424-62727443 | Msa0263380:CDS | 40.0% | |
| !!! | CAGCTTTTGCTGTTAAAGTG+TGG | - | chr2_2:62727501-62727520 | None:intergenic | 40.0% |
| TTCACTACTTTGTGTGTGTG+TGG | + | chr2_2:62727550-62727569 | Msa0263380:three_prime_UTR | 40.0% | |
| GGTCTTCCTCTTTGTCTTTC+AGG | + | chr2_2:62727133-62727152 | Msa0263380:CDS | 45.0% | |
| GGATGGTAGATCATGATCGT+AGG | + | chr2_2:62727305-62727324 | Msa0263380:intron | 45.0% | |
| GCAAAGATCACTTGGAAGAG+AGG | + | chr2_2:62727363-62727382 | Msa0263380:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 62727029 | 62727649 | 62727029 | ID=Msa0263380;Name=Msa0263380 |
| chr2_2 | mRNA | 62727029 | 62727649 | 62727029 | ID=Msa0263380-mRNA-1;Parent=Msa0263380;Name=Msa0263380-mRNA-1;_AED=0.00;_eAED=0.00;_QI=77|1|1|1|1|1|2|124|99 |
| chr2_2 | exon | 62727029 | 62727185 | 62727029 | ID=Msa0263380-mRNA-1:exon:19399;Parent=Msa0263380-mRNA-1 |
| chr2_2 | exon | 62727306 | 62727649 | 62727306 | ID=Msa0263380-mRNA-1:exon:19400;Parent=Msa0263380-mRNA-1 |
| chr2_2 | five_prime_UTR | 62727029 | 62727105 | 62727029 | ID=Msa0263380-mRNA-1:five_prime_utr;Parent=Msa0263380-mRNA-1 |
| chr2_2 | CDS | 62727106 | 62727185 | 62727106 | ID=Msa0263380-mRNA-1:cds;Parent=Msa0263380-mRNA-1 |
| chr2_2 | CDS | 62727306 | 62727525 | 62727306 | ID=Msa0263380-mRNA-1:cds;Parent=Msa0263380-mRNA-1 |
| chr2_2 | three_prime_UTR | 62727526 | 62727649 | 62727526 | ID=Msa0263380-mRNA-1:three_prime_utr;Parent=Msa0263380-mRNA-1 |
| Gene Sequence |
| Protein sequence |
