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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0349590 | XP_039687084.1 | 83.607 | 122 | 20 | 0 | 1 | 122 | 1 | 122 | 2.53e-70 | 216 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0349590 | G7INX6 | 83.607 | 122 | 20 | 0 | 1 | 122 | 1 | 122 | 1.21e-70 | 216 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0349590 | TF | B3 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0349590 | MtrunA17_Chr2g0281511 | 83.607 | 122 | 20 | 0 | 1 | 122 | 1 | 122 | 2.32e-74 | 216 |
| Msa0349590 | MtrunA17_Chr2g0309121 | 80.328 | 122 | 23 | 1 | 1 | 122 | 1 | 121 | 3.79e-69 | 203 |
| Msa0349590 | MtrunA17_Chr3g0081891 | 83.544 | 79 | 13 | 0 | 1 | 79 | 1 | 79 | 3.00e-44 | 139 |
| Msa0349590 | MtrunA17_Chr7g0276661 | 35.115 | 131 | 65 | 4 | 7 | 119 | 38 | 166 | 3.15e-21 | 83.6 |
| Msa0349590 | MtrunA17_Chr0c01g0489371 | 40.659 | 91 | 52 | 1 | 22 | 110 | 224 | 314 | 1.29e-16 | 73.9 |
| Msa0349590 | MtrunA17_Chr8g0356961 | 39.326 | 89 | 52 | 1 | 24 | 110 | 77 | 165 | 4.98e-16 | 70.1 |
| Msa0349590 | MtrunA17_Chr8g0372431 | 28.866 | 97 | 69 | 0 | 24 | 120 | 6 | 102 | 6.81e-16 | 67.8 |
| Msa0349590 | MtrunA17_Chr6g0485871 | 33.721 | 86 | 56 | 1 | 24 | 108 | 214 | 299 | 1.13e-12 | 62.8 |
| Msa0349590 | MtrunA17_Chr8g0356951 | 34.021 | 97 | 60 | 2 | 18 | 110 | 211 | 307 | 5.95e-12 | 60.8 |
| Msa0349590 | MtrunA17_Chr5g0434641 | 32.967 | 91 | 59 | 1 | 22 | 110 | 208 | 298 | 7.67e-12 | 60.5 |
| Msa0349590 | MtrunA17_Chr7g0228081 | 30.000 | 80 | 56 | 0 | 41 | 120 | 13 | 92 | 2.52e-11 | 55.8 |
| Msa0349590 | MtrunA17_Chr5g0430431 | 40.984 | 61 | 36 | 0 | 56 | 116 | 194 | 254 | 3.49e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 23 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAATGTTACTGCTTCTATTT+TGG | 0.123735 | 3_1:+13566628 | Msa0349590:CDS |
| AAAATTCCGATGTTCATTAT+TGG | 0.199581 | 3_1:+13566600 | Msa0349590:CDS |
| GAAGTCAATGGTGCTGAATT+AGG | 0.200131 | 3_1:+13566569 | Msa0349590:CDS |
| TACCAGTTTCTTCATCAAAA+AGG | 0.252196 | 3_1:-13566819 | None:intergenic |
| TGTATGCTACCGTCGTTAAC+TGG | 0.297739 | 3_1:+13566986 | Msa0349590:CDS |
| CCTCGACGTGTTGCCGAGAA+TGG | 0.307864 | 3_1:+13566769 | Msa0349590:CDS |
| CGGTCAATAATCCTCCTAAT+AGG | 0.355854 | 3_1:+13566962 | Msa0349590:CDS |
| TTTGGATGGAAACAATGTTT+TGG | 0.356448 | 3_1:+13566646 | Msa0349590:CDS |
| AAGTCAATGGTGCTGAATTA+GGG | 0.416476 | 3_1:+13566570 | Msa0349590:CDS |
| ACGGTAGCATACATCCTATT+AGG | 0.440754 | 3_1:-13566976 | None:intergenic |
| ATTGGTATACAAACCATTCT+CGG | 0.470714 | 3_1:-13566782 | None:intergenic |
| GTATGCTACCGTCGTTAACT+GGG | 0.522932 | 3_1:+13566987 | Msa0349590:CDS |
| GCATGGATCAGAAATACATA+GGG | 0.559318 | 3_1:+13566878 | Msa0349590:CDS |
| AGCATGGATCAGAAATACAT+AGG | 0.564126 | 3_1:+13566877 | Msa0349590:CDS |
| CTTGAAAAGTGCCTAAAAGT+TGG | 0.570138 | 3_1:+13566922 | Msa0349590:CDS |
| AGAAATACATAGGGAGAGGA+TGG | 0.573439 | 3_1:+13566887 | Msa0349590:CDS |
| TCACGCTGCGTCAAGAAGCA+TGG | 0.586224 | 3_1:+13566861 | Msa0349590:CDS |
| GATCAGAAATACATAGGGAG+AGG | 0.587262 | 3_1:+13566883 | Msa0349590:CDS |
| CCATTCTCGGCAACACGTCG+AGG | 0.599354 | 3_1:-13566769 | None:intergenic |
| GAGATTGGAGTTGAAGTCAA+TGG | 0.619642 | 3_1:+13566557 | Msa0349590:CDS |
| GTAGCATACATCCTATTAGG+AGG | 0.633251 | 3_1:-13566973 | None:intergenic |
| ATACTTCCAATAATGAACAT+CGG | 0.646998 | 3_1:-13566606 | None:intergenic |
| TAATCAGTCCCAGTTAACGA+CGG | 0.733495 | 3_1:-13566995 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAAATTCCGATGTTCATTAT+TGG | + | chr3_1:13566600-13566619 | Msa0349590:CDS | 25.0% |
| ! | ATACTTCCAATAATGAACAT+CGG | - | chr3_1:13566609-13566628 | None:intergenic | 25.0% |
| !! | TAATGTTACTGCTTCTATTT+TGG | + | chr3_1:13566628-13566647 | Msa0349590:CDS | 25.0% |
| !! | AAGGAGAATTTTAGATTGAT+TGG | - | chr3_1:13566803-13566822 | None:intergenic | 25.0% |
| ! | TTTGGATGGAAACAATGTTT+TGG | + | chr3_1:13566646-13566665 | Msa0349590:CDS | 30.0% |
| ATTGGTATACAAACCATTCT+CGG | - | chr3_1:13566785-13566804 | None:intergenic | 30.0% | |
| TACCAGTTTCTTCATCAAAA+AGG | - | chr3_1:13566822-13566841 | None:intergenic | 30.0% | |
| ! | AAACAATGTCACCAACTTTT+AGG | - | chr3_1:13566936-13566955 | None:intergenic | 30.0% |
| ! | AAGTCAATGGTGCTGAATTA+GGG | + | chr3_1:13566570-13566589 | Msa0349590:CDS | 35.0% |
| !! | GTTACTGCTTCTATTTTGGA+TGG | + | chr3_1:13566632-13566651 | Msa0349590:CDS | 35.0% |
| !!! | GGAAACAATGTTTTGGTTAG+TGG | + | chr3_1:13566653-13566672 | Msa0349590:intron | 35.0% |
| ! | CTCCTTTTTGATGAAGAAAC+TGG | + | chr3_1:13566817-13566836 | Msa0349590:CDS | 35.0% |
| AGCATGGATCAGAAATACAT+AGG | + | chr3_1:13566877-13566896 | Msa0349590:CDS | 35.0% | |
| GCATGGATCAGAAATACATA+GGG | + | chr3_1:13566878-13566897 | Msa0349590:CDS | 35.0% | |
| !! | CTTGAAAAGTGCCTAAAAGT+TGG | + | chr3_1:13566922-13566941 | Msa0349590:CDS | 35.0% |
| !! | TGGTGACATTGTTTTGTTCA+CGG | + | chr3_1:13566942-13566961 | Msa0349590:CDS | 35.0% |
| GAGATTGGAGTTGAAGTCAA+TGG | + | chr3_1:13566557-13566576 | Msa0349590:CDS | 40.0% | |
| ! | GAAGTCAATGGTGCTGAATT+AGG | + | chr3_1:13566569-13566588 | Msa0349590:CDS | 40.0% |
| GATCAGAAATACATAGGGAG+AGG | + | chr3_1:13566883-13566902 | Msa0349590:CDS | 40.0% | |
| AGAAATACATAGGGAGAGGA+TGG | + | chr3_1:13566887-13566906 | Msa0349590:CDS | 40.0% | |
| CGGTCAATAATCCTCCTAAT+AGG | + | chr3_1:13566962-13566981 | Msa0349590:CDS | 40.0% | |
| GTAGCATACATCCTATTAGG+AGG | - | chr3_1:13566976-13566995 | None:intergenic | 40.0% | |
| ACGGTAGCATACATCCTATT+AGG | - | chr3_1:13566979-13566998 | None:intergenic | 40.0% | |
| TGTATGCTACCGTCGTTAAC+TGG | + | chr3_1:13566986-13567005 | Msa0349590:CDS | 45.0% | |
| GTATGCTACCGTCGTTAACT+GGG | + | chr3_1:13566987-13567006 | Msa0349590:CDS | 45.0% | |
| TCACGCTGCGTCAAGAAGCA+TGG | + | chr3_1:13566861-13566880 | Msa0349590:CDS | 55.0% | |
| CCATTCTCGGCAACACGTCG+AGG | - | chr3_1:13566772-13566791 | None:intergenic | 60.0% | |
| CCTCGACGTGTTGCCGAGAA+TGG | + | chr3_1:13566769-13566788 | Msa0349590:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 13566551 | 13567014 | 13566551 | ID=Msa0349590;Name=Msa0349590 |
| chr3_1 | mRNA | 13566551 | 13567014 | 13566551 | ID=Msa0349590-mRNA-1;Parent=Msa0349590;Name=Msa0349590-mRNA-1;_AED=0.06;_eAED=0.06;_QI=0|0|0|1|1|1|2|0|122 |
| chr3_1 | exon | 13566551 | 13566667 | 13566551 | ID=Msa0349590-mRNA-1:exon:3374;Parent=Msa0349590-mRNA-1 |
| chr3_1 | exon | 13566763 | 13567014 | 13566763 | ID=Msa0349590-mRNA-1:exon:3375;Parent=Msa0349590-mRNA-1 |
| chr3_1 | CDS | 13566551 | 13566667 | 13566551 | ID=Msa0349590-mRNA-1:cds;Parent=Msa0349590-mRNA-1 |
| chr3_1 | CDS | 13566763 | 13567014 | 13566763 | ID=Msa0349590-mRNA-1:cds;Parent=Msa0349590-mRNA-1 |
| Gene Sequence |
| Protein sequence |
