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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0791530 | XP_013468831.1 | 92.357 | 157 | 12 | 0 | 1 | 157 | 1 | 157 | 8.69e-102 | 298 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0791530 | sp|Q9FJK3|AGL80_ARATH | 46.753 | 154 | 79 | 3 | 1 | 152 | 1 | 153 | 7.32e-30 | 113 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0791530 | A0A072VNB0 | 92.357 | 157 | 12 | 0 | 1 | 157 | 1 | 157 | 4.15e-102 | 298 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0791530 | TF | MADS-M-type |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0791530 | MtrunA17_Chr1g0188681 | 92.357 | 157 | 12 | 0 | 1 | 157 | 1 | 157 | 7.99e-106 | 298 |
| Msa0791530 | MtrunA17_Chr1g0188661 | 75.796 | 157 | 38 | 0 | 1 | 157 | 1 | 157 | 1.76e-78 | 229 |
| Msa0791530 | MtrunA17_Chr5g0420351 | 69.872 | 156 | 47 | 0 | 1 | 156 | 1 | 156 | 4.72e-77 | 226 |
| Msa0791530 | MtrunA17_Chr7g0218151 | 74.522 | 157 | 40 | 0 | 1 | 157 | 1 | 157 | 4.56e-75 | 221 |
| Msa0791530 | MtrunA17_Chr4g0012761 | 72.611 | 157 | 43 | 0 | 1 | 157 | 1 | 157 | 4.86e-74 | 218 |
| Msa0791530 | MtrunA17_Chr1g0193311 | 70.513 | 156 | 46 | 0 | 1 | 156 | 1 | 156 | 2.25e-69 | 206 |
| Msa0791530 | MtrunA17_Chr1g0188651 | 70.701 | 157 | 44 | 1 | 1 | 157 | 1 | 155 | 7.33e-68 | 202 |
| Msa0791530 | MtrunA17_Chr1g0197461 | 57.516 | 153 | 65 | 0 | 3 | 155 | 2 | 154 | 1.16e-57 | 177 |
| Msa0791530 | MtrunA17_Chr1g0197321 | 55.128 | 156 | 69 | 1 | 1 | 155 | 1 | 156 | 1.18e-56 | 174 |
| Msa0791530 | MtrunA17_Chr1g0197261 | 54.839 | 155 | 70 | 0 | 1 | 155 | 1 | 155 | 6.86e-56 | 172 |
| Msa0791530 | MtrunA17_Chr3g0110131 | 48.408 | 157 | 80 | 1 | 1 | 156 | 1 | 157 | 5.08e-37 | 127 |
| Msa0791530 | MtrunA17_Chr3g0107381 | 43.137 | 153 | 86 | 1 | 1 | 152 | 1 | 153 | 6.28e-35 | 121 |
| Msa0791530 | MtrunA17_Chr4g0014321 | 37.662 | 154 | 94 | 2 | 1 | 152 | 1 | 154 | 1.00e-34 | 121 |
| Msa0791530 | MtrunA17_Chr5g0432691 | 36.538 | 156 | 98 | 1 | 1 | 155 | 1 | 156 | 3.80e-34 | 117 |
| Msa0791530 | MtrunA17_Chr4g0014031 | 43.590 | 156 | 86 | 2 | 1 | 154 | 1 | 156 | 7.97e-33 | 116 |
| Msa0791530 | MtrunA17_Chr3g0107331 | 42.667 | 150 | 85 | 1 | 3 | 151 | 2 | 151 | 3.16e-32 | 112 |
| Msa0791530 | MtrunA17_Chr4g0013041 | 36.129 | 155 | 95 | 3 | 1 | 153 | 1 | 153 | 4.77e-32 | 113 |
| Msa0791530 | MtrunA17_Chr8g0351751 | 38.365 | 159 | 94 | 2 | 1 | 155 | 1 | 159 | 1.38e-30 | 110 |
| Msa0791530 | MtrunA17_Chr3g0107361 | 41.060 | 151 | 88 | 1 | 3 | 152 | 2 | 152 | 5.92e-30 | 106 |
| Msa0791530 | MtrunA17_Chr3g0107351 | 40.397 | 151 | 89 | 1 | 3 | 152 | 2 | 152 | 1.15e-29 | 106 |
| Msa0791530 | MtrunA17_Chr2g0283941 | 39.735 | 151 | 89 | 2 | 1 | 149 | 1 | 151 | 1.39e-28 | 105 |
| Msa0791530 | MtrunA17_Chr3g0107341 | 39.073 | 151 | 91 | 1 | 3 | 152 | 2 | 152 | 1.46e-27 | 100 |
| Msa0791530 | MtrunA17_Chr2g0296831 | 44.628 | 121 | 66 | 1 | 1 | 120 | 1 | 121 | 9.70e-27 | 97.4 |
| Msa0791530 | MtrunA17_Chr4g0014121 | 42.138 | 159 | 90 | 2 | 1 | 157 | 29 | 187 | 1.75e-26 | 98.6 |
| Msa0791530 | MtrunA17_Chr4g0014131 | 41.667 | 156 | 89 | 2 | 1 | 154 | 1 | 156 | 9.68e-26 | 97.8 |
| Msa0791530 | MtrunA17_Chr3g0107461 | 36.420 | 162 | 95 | 4 | 1 | 157 | 1 | 159 | 3.21e-25 | 94.7 |
| Msa0791530 | MtrunA17_Chr3g0105791 | 36.364 | 132 | 80 | 3 | 29 | 157 | 1 | 131 | 4.61e-20 | 80.9 |
| Msa0791530 | MtrunA17_Chr4g0031421 | 34.351 | 131 | 84 | 2 | 29 | 157 | 1 | 131 | 1.65e-19 | 79.3 |
| Msa0791530 | MtrunA17_Chr2g0296861 | 31.373 | 153 | 104 | 1 | 1 | 152 | 1 | 153 | 2.99e-19 | 79.3 |
| Msa0791530 | MtrunA17_Chr4g0008701 | 29.814 | 161 | 94 | 5 | 1 | 157 | 1 | 146 | 4.33e-18 | 80.1 |
| Msa0791530 | MtrunA17_Chr3g0106501 | 32.061 | 131 | 87 | 2 | 29 | 157 | 1 | 131 | 1.14e-17 | 75.1 |
| Msa0791530 | MtrunA17_Chr7g0267601 | 28.571 | 161 | 96 | 5 | 1 | 157 | 1 | 146 | 6.49e-17 | 76.6 |
| Msa0791530 | MtrunA17_Chr3g0106421 | 33.846 | 130 | 82 | 3 | 29 | 155 | 1 | 129 | 2.77e-16 | 72.8 |
| Msa0791530 | MtrunA17_Chr1g0162181 | 39.362 | 94 | 56 | 1 | 64 | 156 | 22 | 115 | 8.33e-13 | 61.6 |
| Msa0791530 | MtrunA17_Chr1g0162261 | 37.234 | 94 | 58 | 1 | 64 | 156 | 22 | 115 | 1.45e-12 | 60.8 |
| Msa0791530 | MtrunA17_Chr1g0161931 | 38.298 | 94 | 57 | 1 | 64 | 156 | 28 | 121 | 2.68e-12 | 60.1 |
| Msa0791530 | MtrunA17_Chr6g0449861 | 31.858 | 113 | 69 | 3 | 1 | 106 | 9 | 120 | 1.57e-11 | 60.8 |
| Msa0791530 | MtrunA17_Chr3g0128721 | 25.926 | 162 | 112 | 3 | 3 | 156 | 6 | 167 | 2.80e-11 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0791530 | AT5G26630.1 | 42.484 | 153 | 87 | 1 | 1 | 152 | 1 | 153 | 4.85e-32 | 114 |
| Msa0791530 | AT3G05860.2 | 40.940 | 149 | 87 | 1 | 1 | 148 | 1 | 149 | 5.05e-31 | 111 |
| Msa0791530 | AT5G48670.1 | 46.753 | 154 | 79 | 3 | 1 | 152 | 1 | 153 | 7.44e-31 | 113 |
| Msa0791530 | AT3G05860.3 | 40.940 | 149 | 87 | 1 | 1 | 148 | 1 | 149 | 3.62e-30 | 110 |
| Msa0791530 | AT3G05860.1 | 40.940 | 149 | 87 | 1 | 1 | 148 | 1 | 149 | 5.88e-30 | 109 |
| Msa0791530 | AT1G65330.1 | 38.776 | 147 | 89 | 1 | 3 | 148 | 2 | 148 | 5.09e-29 | 107 |
| Msa0791530 | AT1G65300.1 | 36.424 | 151 | 95 | 1 | 3 | 152 | 2 | 152 | 1.55e-28 | 106 |
| Msa0791530 | AT5G26650.1 | 36.667 | 150 | 94 | 1 | 4 | 152 | 2 | 151 | 1.45e-25 | 100 |
| Msa0791530 | AT5G27960.1 | 43.925 | 107 | 59 | 1 | 4 | 109 | 2 | 108 | 2.35e-24 | 96.3 |
| Msa0791530 | AT1G31630.1 | 30.323 | 155 | 106 | 2 | 3 | 156 | 2 | 155 | 2.42e-22 | 91.3 |
| Msa0791530 | AT1G22590.2 | 30.128 | 156 | 105 | 2 | 1 | 155 | 1 | 153 | 1.87e-20 | 82.8 |
| Msa0791530 | AT1G31640.1 | 34.014 | 147 | 95 | 2 | 3 | 148 | 2 | 147 | 4.81e-20 | 85.9 |
| Msa0791530 | AT5G27810.1 | 44.086 | 93 | 51 | 1 | 29 | 120 | 1 | 93 | 3.50e-19 | 78.2 |
| Msa0791530 | AT2G28700.1 | 38.182 | 110 | 67 | 1 | 1 | 109 | 1 | 110 | 2.16e-18 | 80.5 |
| Msa0791530 | AT5G26580.1 | 39.450 | 109 | 53 | 1 | 1 | 109 | 1 | 96 | 1.42e-17 | 78.2 |
| Msa0791530 | AT2G40210.1 | 36.923 | 130 | 77 | 2 | 1 | 127 | 1 | 128 | 6.57e-15 | 71.2 |
| Msa0791530 | AT5G06500.1 | 34.965 | 143 | 86 | 4 | 1 | 141 | 1 | 138 | 1.91e-14 | 68.6 |
Find 27 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTGCAAAAGAAAACTTTCT+TGG | 0.221526 | 5_3:-2549956 | None:intergenic |
| AGCCTTTCTTGCCGAATCAT+TGG | 0.368149 | 5_3:-2549739 | None:intergenic |
| TGTATGGCTCCCTCTAGATT+TGG | 0.415378 | 5_3:-2549879 | None:intergenic |
| CTCCAATGATTCGGCAAGAA+AGG | 0.422860 | 5_3:+2549737 | Msa0791530:CDS |
| TCAAATCATCAGGCAACTCT+TGG | 0.451496 | 5_3:-2550070 | None:intergenic |
| AGAGAGCTCTCTATTCTTTG+TGG | 0.458868 | 5_3:+2549801 | Msa0791530:CDS |
| AAATCTAGAGGGAGCCATAC+AGG | 0.466931 | 5_3:+2549881 | Msa0791530:CDS |
| TCTGTAACAGTCAAATCATC+AGG | 0.472686 | 5_3:-2550080 | None:intergenic |
| TTTCACCTTCTTCCTAGTCA+TGG | 0.474514 | 5_3:-2549703 | None:intergenic |
| AAAGAAGGGTATCATTAAGA+AGG | 0.475254 | 5_3:+2549776 | Msa0791530:CDS |
| TGTTATAGAATCAAACGGAT+TGG | 0.483520 | 5_3:-2549847 | None:intergenic |
| ATACCTCTCAATCACCTGTA+TGG | 0.492173 | 5_3:-2549895 | None:intergenic |
| GCAGCAGATTACTAAAACCA+GGG | 0.508508 | 5_3:+2549974 | Msa0791530:CDS |
| GAATGAGCTGGACATTCATA+TGG | 0.511354 | 5_3:+2550031 | Msa0791530:CDS |
| TGCAGCAGATTACTAAAACC+AGG | 0.515480 | 5_3:+2549973 | Msa0791530:CDS |
| TAGCTACAACAAGAGAAAGA+AGG | 0.531524 | 5_3:+2549761 | Msa0791530:CDS |
| ACCTCTGTTATAGAATCAAA+CGG | 0.538136 | 5_3:-2549852 | None:intergenic |
| CGGATTGGAAATTATAGCAC+AGG | 0.556765 | 5_3:-2549832 | None:intergenic |
| AGCTACAACAAGAGAAAGAA+GGG | 0.560386 | 5_3:+2549762 | Msa0791530:CDS |
| TCCGTTTGATTCTATAACAG+AGG | 0.561391 | 5_3:+2549851 | Msa0791530:CDS |
| ACAGAATAATGAGAATGAGC+TGG | 0.567812 | 5_3:+2550019 | Msa0791530:CDS |
| TTGGAAATTATAGCACAGGC+TGG | 0.567823 | 5_3:-2549828 | None:intergenic |
| AGAGGTGTGGCCAAATCTAG+AGG | 0.598360 | 5_3:+2549869 | Msa0791530:CDS |
| AGCTGGACATTCATATGGTT+AGG | 0.635359 | 5_3:+2550036 | Msa0791530:CDS |
| GAGCCATACAGGTGATTGAG+AGG | 0.637552 | 5_3:+2549892 | Msa0791530:CDS |
| GAGGTGTGGCCAAATCTAGA+GGG | 0.655326 | 5_3:+2549870 | Msa0791530:CDS |
| TTGATTCTATAACAGAGGTG+TGG | 0.661112 | 5_3:+2549856 | Msa0791530:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGCTTTTATCTCCAATGATT+CGG | + | chr5_3:2549728-2549747 | Msa0791530:CDS | 30.0% |
| !! | AAAGAAGGGTATCATTAAGA+AGG | + | chr5_3:2549776-2549795 | Msa0791530:CDS | 30.0% |
| TGTTATAGAATCAAACGGAT+TGG | - | chr5_3:2549850-2549869 | None:intergenic | 30.0% | |
| ACCTCTGTTATAGAATCAAA+CGG | - | chr5_3:2549855-2549874 | None:intergenic | 30.0% | |
| GCTAATTGAGAAAAAGATGA+AGG | + | chr5_3:2550121-2550140 | Msa0791530:CDS | 30.0% | |
| GAAAAAGATGAAGGAAATTG+AGG | + | chr5_3:2550130-2550149 | Msa0791530:CDS | 30.0% | |
| TAGCTACAACAAGAGAAAGA+AGG | + | chr5_3:2549761-2549780 | Msa0791530:CDS | 35.0% | |
| AGCTACAACAAGAGAAAGAA+GGG | + | chr5_3:2549762-2549781 | Msa0791530:CDS | 35.0% | |
| TCCGTTTGATTCTATAACAG+AGG | + | chr5_3:2549851-2549870 | Msa0791530:CDS | 35.0% | |
| TTGATTCTATAACAGAGGTG+TGG | + | chr5_3:2549856-2549875 | Msa0791530:CDS | 35.0% | |
| GCTGCAAAAGAAAACTTTCT+TGG | - | chr5_3:2549959-2549978 | None:intergenic | 35.0% | |
| ACAGAATAATGAGAATGAGC+TGG | + | chr5_3:2550019-2550038 | Msa0791530:CDS | 35.0% | |
| TCTGTAACAGTCAAATCATC+AGG | - | chr5_3:2550083-2550102 | None:intergenic | 35.0% | |
| AGAGAGCTCTCTATTCTTTG+TGG | + | chr5_3:2549801-2549820 | Msa0791530:CDS | 40.0% | |
| TTGGAAATTATAGCACAGGC+TGG | - | chr5_3:2549831-2549850 | None:intergenic | 40.0% | |
| ! | CGGATTGGAAATTATAGCAC+AGG | - | chr5_3:2549835-2549854 | None:intergenic | 40.0% |
| ATACCTCTCAATCACCTGTA+TGG | - | chr5_3:2549898-2549917 | None:intergenic | 40.0% | |
| TGCAGCAGATTACTAAAACC+AGG | + | chr5_3:2549973-2549992 | Msa0791530:CDS | 40.0% | |
| GCAGCAGATTACTAAAACCA+GGG | + | chr5_3:2549974-2549993 | Msa0791530:CDS | 40.0% | |
| !!! | TTGCTTTTCTAGTTGTTCCC+TGG | - | chr5_3:2549994-2550013 | None:intergenic | 40.0% |
| GAATGAGCTGGACATTCATA+TGG | + | chr5_3:2550031-2550050 | Msa0791530:CDS | 40.0% | |
| AGCTGGACATTCATATGGTT+AGG | + | chr5_3:2550036-2550055 | Msa0791530:CDS | 40.0% | |
| TCAAATCATCAGGCAACTCT+TGG | - | chr5_3:2550073-2550092 | None:intergenic | 40.0% | |
| ! | CTCCAATGATTCGGCAAGAA+AGG | + | chr5_3:2549737-2549756 | Msa0791530:CDS | 45.0% |
| AGCCTTTCTTGCCGAATCAT+TGG | - | chr5_3:2549742-2549761 | None:intergenic | 45.0% | |
| TGTATGGCTCCCTCTAGATT+TGG | - | chr5_3:2549882-2549901 | None:intergenic | 45.0% | |
| AAATCTAGAGGGAGCCATAC+AGG | + | chr5_3:2549881-2549900 | Msa0791530:CDS | 45.0% | |
| ! | AGAGGTGTGGCCAAATCTAG+AGG | + | chr5_3:2549869-2549888 | Msa0791530:CDS | 50.0% |
| GAGGTGTGGCCAAATCTAGA+GGG | + | chr5_3:2549870-2549889 | Msa0791530:CDS | 50.0% | |
| GAGCCATACAGGTGATTGAG+AGG | + | chr5_3:2549892-2549911 | Msa0791530:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 2549705 | 2550178 | 2549705 | ID=Msa0791530;Name=Msa0791530 |
| chr5_3 | mRNA | 2549705 | 2550178 | 2549705 | ID=Msa0791530-mRNA-1;Parent=Msa0791530;Name=Msa0791530-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|157 |
| chr5_3 | exon | 2549705 | 2550178 | 2549705 | ID=Msa0791530-mRNA-1:exon:1103;Parent=Msa0791530-mRNA-1 |
| chr5_3 | CDS | 2549705 | 2550178 | 2549705 | ID=Msa0791530-mRNA-1:cds;Parent=Msa0791530-mRNA-1 |
| Gene Sequence |
| Protein sequence |
