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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0573110 | XP_013447274.1 | 100.000 | 86 | 0 | 0 | 1 | 86 | 1 | 86 | 2.04e-45 | 166 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0573110 | A0A072TVW4 | 100.000 | 86 | 0 | 0 | 1 | 86 | 1 | 86 | 9.76e-46 | 166 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0035320 | Msa0573110 | 0.853826 | 1.847968e-61 | -8.615850e-47 |
| Msa0573110 | Msa0940050 | 0.812719 | 3.680482e-51 | -8.615850e-47 |
| Msa0573110 | Msa1027780 | 0.834621 | 2.695440e-56 | -8.615850e-47 |
| Msa0573110 | Msa1336030 | 0.822684 | 2.076206e-53 | -8.615850e-47 |
| Msa0573110 | Msa1353550 | 0.801867 | 7.352741e-49 | -8.615850e-47 |
| Msa0573110 | Msa1457470 | 0.808557 | 2.921277e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0573110 | MtrunA17_Chr8g0388901 | 100.000 | 86 | 0 | 0 | 1 | 86 | 1 | 86 | 1.88e-49 | 166 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0573110 | AT2G07360.2 | 53.465 | 101 | 28 | 4 | 1 | 86 | 1 | 97 | 2.63e-19 | 80.9 |
| Msa0573110 | AT2G07360.1 | 53.465 | 101 | 28 | 4 | 1 | 86 | 1 | 97 | 2.68e-19 | 80.9 |
Find 19 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGATTTATGCAGGACTCTTC+CGG | 0.309176 | 4_1:-76160836 | Msa0573110:intron |
| CGCCGATCCAACTCCGTTGC+CGG | 0.344088 | 4_1:-76160789 | Msa0573110:CDS |
| CAGATCCATTAGCGTGGTTC+CGG | 0.346035 | 4_1:+76160817 | None:intergenic |
| CTCTTCCGGAACCACGCTAA+TGG | 0.395108 | 4_1:-76160822 | Msa0573110:CDS |
| ACATCTCAATCTTCAACGTT+AGG | 0.476740 | 4_1:-76160716 | Msa0573110:CDS |
| GATGACGCCGGCAACGGAGT+TGG | 0.502111 | 4_1:+76160782 | None:intergenic |
| GCCTCAAAAGCAGAAGAAGA+AGG | 0.506543 | 4_1:-76160594 | Msa0573110:CDS |
| CGCCGGCAACGGAGTTGGAT+CGG | 0.508476 | 4_1:+76160787 | None:intergenic |
| AGCAGCTTTAGCAGCGGAGA+TGG | 0.509758 | 4_1:+76160634 | None:intergenic |
| GTTGAAGATTGAGATGTTGA+CGG | 0.532217 | 4_1:+76160722 | None:intergenic |
| GACGGCGTTGCTGACGGAGT+TGG | 0.535035 | 4_1:+76160740 | None:intergenic |
| AACGTTAGGTAAACCTGCTA+CGG | 0.536527 | 4_1:-76160702 | Msa0573110:CDS |
| GATGAAGATGACGCCGGCAA+CGG | 0.582642 | 4_1:+76160776 | None:intergenic |
| GATGTTGACGGCGTTGCTGA+CGG | 0.621236 | 4_1:+76160734 | None:intergenic |
| TGCTGACGGAGTTGGAGCAG+CGG | 0.640315 | 4_1:+76160748 | None:intergenic |
| TCGAACAGCAGCTTTAGCAG+CGG | 0.667433 | 4_1:+76160628 | None:intergenic |
| GTCGAAGATGAAGATGACGC+CGG | 0.687968 | 4_1:+76160770 | None:intergenic |
| GGTTATCAGATCCATTAGCG+TGG | 0.700850 | 4_1:+76160811 | None:intergenic |
| CGGCAACGGAGTTGGATCGG+CGG | 0.702752 | 4_1:+76160790 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAAAGTGTGAGAAAGTGAGA+GGG | + | chr4_1:76160603-76160622 | None:intergenic | 35.0% | |
| GTTGAAGATTGAGATGTTGA+CGG | + | chr4_1:76160777-76160796 | None:intergenic | 35.0% | |
| ACATCTCAATCTTCAACGTT+AGG | - | chr4_1:76160780-76160799 | Msa0573110:CDS | 35.0% | |
| GTAAAGTGTGAGAAAGTGAG+AGG | + | chr4_1:76160604-76160623 | None:intergenic | 40.0% | |
| CCTGCATAAATCGAAGAGTT+AGG | + | chr4_1:76160653-76160672 | None:intergenic | 40.0% | |
| CCTAACTCTTCGATTTATGC+AGG | - | chr4_1:76160650-76160669 | Msa0573110:CDS | 40.0% | |
| AACGTTAGGTAAACCTGCTA+CGG | - | chr4_1:76160794-76160813 | Msa0573110:CDS | 40.0% | |
| !!! | CTGCTTTTGAGGCAAGATAT+TGG | + | chr4_1:76160895-76160914 | None:intergenic | 40.0% |
| !! | ACCTTCTTCTTCTGCTTTTG+AGG | + | chr4_1:76160906-76160925 | None:intergenic | 40.0% |
| CGATTTATGCAGGACTCTTC+CGG | - | chr4_1:76160660-76160679 | Msa0573110:CDS | 45.0% | |
| GGTTATCAGATCCATTAGCG+TGG | + | chr4_1:76160688-76160707 | None:intergenic | 45.0% | |
| ! | TTCGATCTCTTTTCCGTAGC+AGG | + | chr4_1:76160810-76160829 | None:intergenic | 45.0% |
| GCCTCAAAAGCAGAAGAAGA+AGG | - | chr4_1:76160902-76160921 | Msa0573110:intron | 45.0% | |
| CAGATCCATTAGCGTGGTTC+CGG | + | chr4_1:76160682-76160701 | None:intergenic | 50.0% | |
| GTCGAAGATGAAGATGACGC+CGG | + | chr4_1:76160729-76160748 | None:intergenic | 50.0% | |
| ! | TCGAACAGCAGCTTTAGCAG+CGG | + | chr4_1:76160871-76160890 | None:intergenic | 50.0% |
| CTCTTCCGGAACCACGCTAA+TGG | - | chr4_1:76160674-76160693 | Msa0573110:CDS | 55.0% | |
| GATGAAGATGACGCCGGCAA+CGG | + | chr4_1:76160723-76160742 | None:intergenic | 55.0% | |
| GATGTTGACGGCGTTGCTGA+CGG | + | chr4_1:76160765-76160784 | None:intergenic | 55.0% | |
| ! | AGCAGCTTTAGCAGCGGAGA+TGG | + | chr4_1:76160865-76160884 | None:intergenic | 55.0% |
| TGCTGACGGAGTTGGAGCAG+CGG | + | chr4_1:76160751-76160770 | None:intergenic | 60.0% | |
| CGGCAACGGAGTTGGATCGG+CGG | + | chr4_1:76160709-76160728 | None:intergenic | 65.0% | |
| CGCCGATCCAACTCCGTTGC+CGG | - | chr4_1:76160707-76160726 | Msa0573110:CDS | 65.0% | |
| CGCCGGCAACGGAGTTGGAT+CGG | + | chr4_1:76160712-76160731 | None:intergenic | 65.0% | |
| GATGACGCCGGCAACGGAGT+TGG | + | chr4_1:76160717-76160736 | None:intergenic | 65.0% | |
| GACGGCGTTGCTGACGGAGT+TGG | + | chr4_1:76160759-76160778 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 76160589 | 76160929 | 76160589 | ID=Msa0573110;Name=Msa0573110 |
| chr4_1 | mRNA | 76160589 | 76160929 | 76160589 | ID=Msa0573110-mRNA-1;Parent=Msa0573110;Name=Msa0573110-mRNA-1;_AED=0.49;_eAED=0.49;_QI=0|0|0|0.5|1|1|2|0|87 |
| chr4_1 | exon | 76160924 | 76160929 | 76160924 | ID=Msa0573110-mRNA-1:exon:26529;Parent=Msa0573110-mRNA-1 |
| chr4_1 | exon | 76160589 | 76160846 | 76160589 | ID=Msa0573110-mRNA-1:exon:26528;Parent=Msa0573110-mRNA-1 |
| chr4_1 | CDS | 76160924 | 76160929 | 76160924 | ID=Msa0573110-mRNA-1:cds;Parent=Msa0573110-mRNA-1 |
| chr4_1 | CDS | 76160589 | 76160846 | 76160589 | ID=Msa0573110-mRNA-1:cds;Parent=Msa0573110-mRNA-1 |
| Gene Sequence |
| Protein sequence |
