Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene63545.t1 | XP_003598311.1 | 95.9 | 121 | 5 | 0 | 7 | 127 | 50 | 170 | 2.30E-62 | 248.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene63545.t1 | Q9FKT1 | 65.0 | 120 | 39 | 1 | 11 | 127 | 49 | 168 | 1.9e-41 | 169.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene63545.t1 | G7J0F7 | 95.9 | 121 | 5 | 0 | 7 | 127 | 50 | 170 | 1.6e-62 | 248.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051171 | MS.gene63545 | -0.829405 | 5.24E-55 | -1.69E-46 |
| MS.gene051242 | MS.gene63545 | -0.813857 | 2.07E-51 | -1.69E-46 |
| MS.gene051244 | MS.gene63545 | -0.833666 | 4.68E-56 | -1.69E-46 |
| MS.gene051940 | MS.gene63545 | 0.814745 | 1.32E-51 | -1.69E-46 |
| MS.gene052715 | MS.gene63545 | 0.803248 | 3.82E-49 | -1.69E-46 |
| MS.gene056664 | MS.gene63545 | -0.803751 | 3.00E-49 | -1.69E-46 |
| MS.gene057020 | MS.gene63545 | 0.844924 | 5.59E-59 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene63545.t1 | MTR_3g010180 | 95.868 | 121 | 5 | 0 | 7 | 127 | 50 | 170 | 7.39e-84 | 243 |
| MS.gene63545.t1 | MTR_6g025620 | 55.556 | 117 | 52 | 0 | 11 | 127 | 37 | 153 | 7.91e-46 | 146 |
| MS.gene63545.t1 | MTR_6g025670 | 69.880 | 83 | 25 | 0 | 10 | 92 | 55 | 137 | 1.77e-40 | 133 |
| MS.gene63545.t1 | MTR_6g018540 | 69.880 | 83 | 25 | 0 | 10 | 92 | 55 | 137 | 1.77e-40 | 133 |
| MS.gene63545.t1 | MTR_6g011010 | 66.279 | 86 | 28 | 1 | 7 | 91 | 44 | 129 | 5.58e-38 | 125 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene63545.t1 | AT5G56170 | 65.000 | 120 | 39 | 1 | 11 | 127 | 49 | 168 | 1.12e-53 | 166 |
| MS.gene63545.t1 | AT4G26466 | 52.419 | 124 | 55 | 2 | 7 | 127 | 42 | 164 | 8.04e-43 | 139 |
| MS.gene63545.t1 | AT2G20700 | 56.410 | 117 | 51 | 0 | 11 | 127 | 44 | 160 | 1.29e-42 | 138 |
| MS.gene63545.t1 | AT4G28280 | 57.143 | 119 | 48 | 1 | 7 | 125 | 23 | 138 | 3.74e-42 | 136 |
| MS.gene63545.t1 | AT4G28280 | 57.143 | 119 | 48 | 1 | 7 | 125 | 44 | 159 | 3.76e-42 | 137 |
| MS.gene63545.t1 | AT4G28280 | 56.897 | 116 | 47 | 1 | 10 | 125 | 21 | 133 | 1.79e-41 | 134 |
Find 31 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTAGCTACATTAATCTTTA+TGG | 0.084552 | 3.3:-5162583 | MS.gene63545:CDS |
| TCATTTATCACATCAGTATA+AGG | 0.287486 | 3.3:+5162634 | None:intergenic |
| AAATGCTCCACAACATTCCT+TGG | 0.377041 | 3.3:+5162672 | None:intergenic |
| CATTCCTTGGGAGGGTACTT+AGG | 0.429542 | 3.3:+5162685 | None:intergenic |
| AATGCTCCACAACATTCCTT+GGG | 0.478717 | 3.3:+5162673 | None:intergenic |
| CATTTATCACATCAGTATAA+GGG | 0.483862 | 3.3:+5162635 | None:intergenic |
| CACTCGCTCGCAAAGAGGCC+AGG | 0.497941 | 3.3:+5162550 | None:intergenic |
| TTGTTTCACATTGCACCTGC+AGG | 0.503151 | 3.3:-5162766 | MS.gene63545:CDS |
| CACGACACTCGCTCGCAAAG+AGG | 0.542743 | 3.3:+5162545 | None:intergenic |
| ACATACTCCATCTCTAGTGC+TGG | 0.553326 | 3.3:-5162449 | MS.gene63545:CDS |
| TATTAAAATTAAGAAGATGC+AGG | 0.556222 | 3.3:+5162417 | None:intergenic |
| CGCTCGCAAAGAGGCCAGGA+GGG | 0.563412 | 3.3:+5162554 | None:intergenic |
| GAGCGAGTGTCGTGAAGGGA+AGG | 0.564311 | 3.3:-5162536 | MS.gene63545:CDS |
| GATTTGATTTGCAGTATCAT+CGG | 0.571086 | 3.3:+5162474 | None:intergenic |
| AAATTCACAGAACAGCCTGC+AGG | 0.577799 | 3.3:+5162751 | None:intergenic |
| GTGAGCACCAGCACTAGAGA+TGG | 0.582002 | 3.3:+5162442 | None:intergenic |
| GTATCATCGGCGGACACTGA+TGG | 0.584167 | 3.3:+5162487 | None:intergenic |
| CTTTATGGAAGATACCCTCC+TGG | 0.585291 | 3.3:-5162568 | MS.gene63545:CDS |
| TACCCTCCCAAGGAATGTTG+TGG | 0.591187 | 3.3:-5162679 | MS.gene63545:CDS |
| TTTGCGAGCGAGTGTCGTGA+AGG | 0.593755 | 3.3:-5162541 | MS.gene63545:CDS |
| CTCCACAACATTCCTTGGGA+GGG | 0.609435 | 3.3:+5162677 | None:intergenic |
| TTGCGAGCGAGTGTCGTGAA+GGG | 0.616291 | 3.3:-5162540 | MS.gene63545:CDS |
| GCTCCACAACATTCCTTGGG+AGG | 0.623412 | 3.3:+5162676 | None:intergenic |
| GAGTGTCGTGAAGGGAAGGA+AGG | 0.628790 | 3.3:-5162532 | MS.gene63545:CDS |
| TCGCTCGCAAAGAGGCCAGG+AGG | 0.631835 | 3.3:+5162553 | None:intergenic |
| AAGATTAATGTAGCTAAACA+TGG | 0.635506 | 3.3:+5162588 | None:intergenic |
| ATAATCACAAGCAAATGCAA+AGG | 0.641999 | 3.3:-5162709 | MS.gene63545:CDS |
| AATGTAGCTAAACATGGTTG+AGG | 0.646232 | 3.3:+5162594 | None:intergenic |
| TCATCGGCGGACACTGATGG+TGG | 0.646590 | 3.3:+5162490 | None:intergenic |
| AGGACCTAAGTACCCTCCCA+AGG | 0.651427 | 3.3:-5162689 | MS.gene63545:CDS |
| TTGATTTGCAGTATCATCGG+CGG | 0.696584 | 3.3:+5162477 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATTAAAATTAAGAAGATGC+AGG | + | chr3.3:5162769-5162788 | None:intergenic | 20.0% |
| !! | TTTAGCTACATTAATCTTTA+TGG | - | chr3.3:5162600-5162619 | MS.gene63545:CDS | 20.0% |
| ! | AAGATTAATGTAGCTAAACA+TGG | + | chr3.3:5162598-5162617 | None:intergenic | 25.0% |
| ! | CATTTATCACATCAGTATAA+GGG | + | chr3.3:5162551-5162570 | None:intergenic | 25.0% |
| ! | TCATTTATCACATCAGTATA+AGG | + | chr3.3:5162552-5162571 | None:intergenic | 25.0% |
| ATAATCACAAGCAAATGCAA+AGG | - | chr3.3:5162474-5162493 | MS.gene63545:CDS | 30.0% | |
| !! | GATTTGATTTGCAGTATCAT+CGG | + | chr3.3:5162712-5162731 | None:intergenic | 30.0% |
| AATGTAGCTAAACATGGTTG+AGG | + | chr3.3:5162592-5162611 | None:intergenic | 35.0% | |
| AAATGCTCCACAACATTCCT+TGG | + | chr3.3:5162514-5162533 | None:intergenic | 40.0% | |
| AATGCTCCACAACATTCCTT+GGG | + | chr3.3:5162513-5162532 | None:intergenic | 40.0% | |
| !! | TTGATTTGCAGTATCATCGG+CGG | + | chr3.3:5162709-5162728 | None:intergenic | 40.0% |
| AAATTCACAGAACAGCCTGC+AGG | + | chr3.3:5162435-5162454 | None:intergenic | 45.0% | |
| ACATACTCCATCTCTAGTGC+TGG | - | chr3.3:5162734-5162753 | MS.gene63545:CDS | 45.0% | |
| CTTTATGGAAGATACCCTCC+TGG | - | chr3.3:5162615-5162634 | MS.gene63545:CDS | 45.0% | |
| TTGTTTCACATTGCACCTGC+AGG | - | chr3.3:5162417-5162436 | MS.gene63545:CDS | 45.0% | |
| CTCCACAACATTCCTTGGGA+GGG | + | chr3.3:5162509-5162528 | None:intergenic | 50.0% | |
| TACCCTCCCAAGGAATGTTG+TGG | - | chr3.3:5162504-5162523 | MS.gene63545:CDS | 50.0% | |
| !! | CATTCCTTGGGAGGGTACTT+AGG | + | chr3.3:5162501-5162520 | None:intergenic | 50.0% |
| AGGACCTAAGTACCCTCCCA+AGG | - | chr3.3:5162494-5162513 | MS.gene63545:CDS | 55.0% | |
| GCTCCACAACATTCCTTGGG+AGG | + | chr3.3:5162510-5162529 | None:intergenic | 55.0% | |
| GTATCATCGGCGGACACTGA+TGG | + | chr3.3:5162699-5162718 | None:intergenic | 55.0% | |
| GTGAGCACCAGCACTAGAGA+TGG | + | chr3.3:5162744-5162763 | None:intergenic | 55.0% | |
| ! | GAGTGTCGTGAAGGGAAGGA+AGG | - | chr3.3:5162651-5162670 | MS.gene63545:CDS | 55.0% |
| ! | TTGCGAGCGAGTGTCGTGAA+GGG | - | chr3.3:5162643-5162662 | MS.gene63545:CDS | 55.0% |
| ! | TTTGCGAGCGAGTGTCGTGA+AGG | - | chr3.3:5162642-5162661 | MS.gene63545:CDS | 55.0% |
| CACGACACTCGCTCGCAAAG+AGG | + | chr3.3:5162641-5162660 | None:intergenic | 60.0% | |
| TCATCGGCGGACACTGATGG+TGG | + | chr3.3:5162696-5162715 | None:intergenic | 60.0% | |
| ! | GAGCGAGTGTCGTGAAGGGA+AGG | - | chr3.3:5162647-5162666 | MS.gene63545:CDS | 60.0% |
| CACTCGCTCGCAAAGAGGCC+AGG | + | chr3.3:5162636-5162655 | None:intergenic | 65.0% | |
| CGCTCGCAAAGAGGCCAGGA+GGG | + | chr3.3:5162632-5162651 | None:intergenic | 65.0% | |
| TCGCTCGCAAAGAGGCCAGG+AGG | + | chr3.3:5162633-5162652 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 5162411 | 5162794 | 5162411 | ID=MS.gene63545 |
| chr3.3 | mRNA | 5162411 | 5162794 | 5162411 | ID=MS.gene63545.t1;Parent=MS.gene63545 |
| chr3.3 | exon | 5162411 | 5162794 | 5162411 | ID=MS.gene63545.t1.exon1;Parent=MS.gene63545.t1 |
| chr3.3 | CDS | 5162411 | 5162794 | 5162411 | ID=cds.MS.gene63545.t1;Parent=MS.gene63545.t1 |
| Gene Sequence |
| Protein sequence |
