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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0196000 | AES64365.2 | 72.222 | 90 | 25 | 0 | 1 | 90 | 1 | 90 | 2.13e-37 | 142 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0196000 | G7IKF9 | 72.222 | 90 | 25 | 0 | 1 | 90 | 1 | 90 | 1.02e-37 | 142 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0007440 | Msa0196000 | 0.806573 | 7.702958e-50 | -8.615850e-47 |
| Msa0105620 | Msa0196000 | 0.803946 | 2.734831e-49 | -8.615850e-47 |
| Msa0189300 | Msa0196000 | 0.829449 | 5.116352e-55 | -8.615850e-47 |
| Msa0196000 | Msa0209500 | 0.808034 | 3.776405e-50 | -8.615850e-47 |
| Msa0196000 | Msa0231660 | 0.811596 | 6.469212e-51 | -8.615850e-47 |
| Msa0196000 | Msa0259210 | 0.801250 | 9.839564e-49 | -8.615850e-47 |
| Msa0196000 | Msa0279240 | 0.809632 | 1.719335e-50 | -8.615850e-47 |
| Msa0196000 | Msa0320590 | 0.807526 | 4.841908e-50 | -8.615850e-47 |
| Msa0196000 | Msa0336320 | 0.810097 | 1.365208e-50 | -8.615850e-47 |
| Msa0196000 | Msa0615440 | 0.800623 | 1.321267e-48 | -8.615850e-47 |
| Msa0196000 | Msa0698490 | 0.800647 | 1.306711e-48 | -8.615850e-47 |
| Msa0196000 | Msa0887250 | 0.807108 | 5.938326e-50 | -8.615850e-47 |
| Msa0196000 | Msa0890550 | 0.818124 | 2.308741e-52 | -8.615850e-47 |
| Msa0196000 | Msa0999970 | 0.803064 | 4.166960e-49 | -8.615850e-47 |
| Msa0196000 | Msa1064250 | 0.801155 | 1.028767e-48 | -8.615850e-47 |
| Msa0196000 | Msa1091940 | 0.802525 | 5.384374e-49 | -8.615850e-47 |
| Msa0196000 | Msa1126450 | 0.800441 | 1.439448e-48 | -8.615850e-47 |
| Msa0196000 | Msa1208880 | 0.802201 | 6.277294e-49 | -8.615850e-47 |
| Msa0196000 | Msa1216260 | 0.815722 | 7.990375e-52 | -8.615850e-47 |
| Msa0196000 | Msa1259060 | 0.805766 | 1.139294e-49 | -8.615850e-47 |
| Msa0196000 | Msa1287460 | 0.801237 | 9.900128e-49 | -8.615850e-47 |
| Msa0196000 | Msa1398090 | 0.807687 | 4.475844e-50 | -8.615850e-47 |
| Msa0196000 | Msa1400580 | 0.816805 | 4.576199e-52 | -8.615850e-47 |
| Msa0196000 | Msa1419870 | 0.802291 | 6.014530e-49 | -8.615850e-47 |
| Msa0196000 | Msa1437270 | 0.807574 | 4.730022e-50 | -8.615850e-47 |
| Msa0196000 | Msa1457920 | 0.804793 | 1.821111e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0196000 | MtrunA17_Chr2g0287351 | 72.222 | 90 | 25 | 0 | 1 | 90 | 1 | 90 | 1.96e-41 | 142 |
| Msa0196000 | MtrunA17_Chr2g0287311 | 37.273 | 220 | 117 | 3 | 1 | 215 | 12 | 215 | 3.72e-36 | 126 |
| Msa0196000 | MtrunA17_Chr2g0286581 | 34.188 | 234 | 90 | 4 | 1 | 218 | 12 | 197 | 1.02e-34 | 122 |
| Msa0196000 | MtrunA17_Chr2g0287401 | 36.818 | 220 | 86 | 3 | 1 | 220 | 2 | 168 | 3.82e-34 | 120 |
| Msa0196000 | MtrunA17_Chr2g0287321 | 36.818 | 220 | 84 | 4 | 1 | 218 | 11 | 177 | 2.11e-31 | 113 |
| Msa0196000 | MtrunA17_Chr2g0287391 | 35.747 | 221 | 87 | 4 | 2 | 211 | 3 | 179 | 3.17e-28 | 105 |
| Msa0196000 | MtrunA17_Chr2g0287331 | 63.014 | 73 | 27 | 0 | 6 | 78 | 3 | 75 | 9.23e-27 | 99.4 |
| Msa0196000 | MtrunA17_Chr1g0170131 | 31.984 | 247 | 109 | 9 | 1 | 210 | 1 | 225 | 5.15e-23 | 92.8 |
| Msa0196000 | MtrunA17_Chr5g0420551 | 32.353 | 238 | 135 | 4 | 6 | 220 | 2 | 236 | 1.06e-22 | 92.4 |
| Msa0196000 | MtrunA17_Chr4g0019961 | 53.846 | 78 | 36 | 0 | 1 | 78 | 1 | 78 | 1.58e-22 | 90.5 |
| Msa0196000 | MtrunA17_Chr2g0287301 | 39.844 | 128 | 61 | 2 | 1 | 128 | 12 | 123 | 8.15e-22 | 87.8 |
| Msa0196000 | MtrunA17_Chr1g0156951 | 48.936 | 94 | 39 | 2 | 1 | 94 | 1 | 85 | 1.64e-21 | 88.6 |
| Msa0196000 | MtrunA17_Chr2g0287341 | 52.308 | 65 | 21 | 2 | 2 | 66 | 3 | 57 | 2.63e-14 | 68.9 |
| Msa0196000 | MtrunA17_Chr2g0288061 | 46.667 | 75 | 38 | 1 | 8 | 82 | 11 | 83 | 1.72e-13 | 66.6 |
| Msa0196000 | MtrunA17_Chr1g0156961 | 30.973 | 226 | 116 | 7 | 1 | 217 | 15 | 209 | 1.97e-13 | 66.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 42 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGATGATCGAAATCCTATTT+AGG | 0.141736 | 2_1:-12976243 | Msa0196000:CDS |
| GATGATCGAAATCCTATTTA+GGG | 0.289195 | 2_1:-12976242 | Msa0196000:CDS |
| AGTTTCTCAGTTGCATAATC+TGG | 0.318379 | 2_1:-12975891 | Msa0196000:CDS |
| AGTTGCTGAGTTGGATGATT+TGG | 0.351868 | 2_1:-12975924 | Msa0196000:CDS |
| TGCTCAAATCAACCCTAAAT+AGG | 0.353861 | 2_1:+12976230 | None:intergenic |
| GGCAGCTCAGTTGGAGGAGC+AGG | 0.378310 | 2_1:-12975816 | Msa0196000:CDS |
| GGCAATTCAGTTGGAGGAGC+AGG | 0.408968 | 2_1:-12975837 | Msa0196000:CDS |
| ACTTAATTTGCTAGCTCAGT+TGG | 0.422432 | 2_1:-12975726 | Msa0196000:CDS |
| GCAACAGCAGCAGAAGGAAA+AGG | 0.442747 | 2_1:-12976010 | Msa0196000:CDS |
| GGAGCAGGCAGCAGCTCAGT+TGG | 0.465294 | 2_1:-12975801 | Msa0196000:CDS |
| CAATATCAAAGTTGCTCAGT+TGG | 0.467218 | 2_1:-12975867 | Msa0196000:CDS |
| GGAGGAGCAGGCAGCTCAGT+TGG | 0.472256 | 2_1:-12975825 | Msa0196000:CDS |
| GTCACCGAGCACCGTACTAC+CGG | 0.476154 | 2_1:-12976272 | Msa0196000:CDS |
| TGTTGTTCTTGAAGCGTGAT+GGG | 0.481863 | 2_1:+12976043 | None:intergenic |
| CATCAGTTCACCCGGTAGTA+CGG | 0.482833 | 2_1:+12976261 | None:intergenic |
| TGAGCAATCCTCTGCAATTG+AGG | 0.486873 | 2_1:-12976213 | Msa0196000:CDS |
| ATGTTGTTCTTGAAGCGTGA+TGG | 0.496284 | 2_1:+12976042 | None:intergenic |
| TGCTGAGTTGGATGATTTGG+TGG | 0.505467 | 2_1:-12975921 | Msa0196000:CDS |
| TGAGAGGATGAAGATGTTTG+TGG | 0.507888 | 2_1:+12975659 | None:intergenic |
| GGCGCTGATGGCAGAAGCCA+CGG | 0.509560 | 2_1:-12976299 | None:intergenic |
| AGTTGCTCAGTTGGAGGAGG+AGG | 0.509992 | 2_1:-12975858 | Msa0196000:CDS |
| ACTTTGCATGAAGCTGCGAT+TGG | 0.514370 | 2_1:+12976068 | None:intergenic |
| GATGAAAATAGTTGCTGAGT+TGG | 0.517350 | 2_1:-12975933 | Msa0196000:CDS |
| GGAGGAGGAGGCAATTCAGT+TGG | 0.517966 | 2_1:-12975846 | Msa0196000:CDS |
| TGAGGTGCATTTGCAAGTTG+TGG | 0.525150 | 2_1:-12976195 | Msa0196000:CDS |
| AAGTGCTTCTTCATGAAAAG+AGG | 0.529207 | 2_1:+12976154 | None:intergenic |
| GGAGGAGGCAATTCAGTTGG+AGG | 0.558331 | 2_1:-12975843 | Msa0196000:CDS |
| TATCAAAGTTGCTCAGTTGG+AGG | 0.558827 | 2_1:-12975864 | Msa0196000:CDS |
| GGAGCAGGCAGCTCAGTTGG+AGG | 0.559133 | 2_1:-12975822 | Msa0196000:CDS |
| GAAGCAGCAACAGCAGCAGA+AGG | 0.569942 | 2_1:-12976016 | Msa0196000:CDS |
| CAAAGTTGCTCAGTTGGAGG+AGG | 0.591958 | 2_1:-12975861 | Msa0196000:CDS |
| AATCAAAGATCTACATGGCA+AGG | 0.592084 | 2_1:-12976113 | Msa0196000:CDS |
| TCACCGAGCACCGTACTACC+GGG | 0.616217 | 2_1:-12976271 | Msa0196000:CDS |
| ATTTCGATCATCAGTTCACC+CGG | 0.622076 | 2_1:+12976253 | None:intergenic |
| AATTGATAATCATAATTGAG+AGG | 0.622097 | 2_1:+12975643 | None:intergenic |
| CAAATGCACCTCAATTGCAG+AGG | 0.622136 | 2_1:+12976205 | None:intergenic |
| AGATCTACATGGCAAGGACA+AGG | 0.628676 | 2_1:-12976107 | Msa0196000:CDS |
| TCACCCGGTAGTACGGTGCT+CGG | 0.642487 | 2_1:+12976268 | None:intergenic |
| ACTGAAATCAAAGATCTACA+TGG | 0.648273 | 2_1:-12976118 | Msa0196000:CDS |
| GTTGTTCTTGAAGCGTGATG+GGG | 0.666706 | 2_1:+12976044 | None:intergenic |
| GGTGCTCGGTGACTCCGCCG+TGG | 0.682002 | 2_1:+12976282 | None:intergenic |
| GCTGATGGCAGAAGCCACGG+CGG | 0.743517 | 2_1:-12976296 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGATGATCGAAATCCTATTT+AGG | - | chr2_1:12975701-12975720 | Msa0196000:CDS | 30.0% | |
| GATGATCGAAATCCTATTTA+GGG | - | chr2_1:12975702-12975721 | Msa0196000:CDS | 30.0% | |
| ACTGAAATCAAAGATCTACA+TGG | - | chr2_1:12975826-12975845 | Msa0196000:CDS | 30.0% | |
| !! | TCAGTTGGATAATGTTTTAG+CGG | - | chr2_1:12976158-12976177 | Msa0196000:CDS | 30.0% |
| !!! | ATAATGTTTTAGCGGTTGTT+AGG | - | chr2_1:12976166-12976185 | Msa0196000:CDS | 30.0% |
| TGCTCAAATCAACCCTAAAT+AGG | + | chr2_1:12975717-12975736 | None:intergenic | 35.0% | |
| AAGTGCTTCTTCATGAAAAG+AGG | + | chr2_1:12975793-12975812 | None:intergenic | 35.0% | |
| AATCAAAGATCTACATGGCA+AGG | - | chr2_1:12975831-12975850 | Msa0196000:CDS | 35.0% | |
| GATGAAAATAGTTGCTGAGT+TGG | - | chr2_1:12976011-12976030 | Msa0196000:CDS | 35.0% | |
| AGTTTCTCAGTTGCATAATC+TGG | - | chr2_1:12976053-12976072 | Msa0196000:CDS | 35.0% | |
| CAATATCAAAGTTGCTCAGT+TGG | - | chr2_1:12976077-12976096 | Msa0196000:CDS | 35.0% | |
| !! | ACTTAATTTGCTAGCTCAGT+TGG | - | chr2_1:12976218-12976237 | Msa0196000:CDS | 35.0% |
| ATTTCGATCATCAGTTCACC+CGG | + | chr2_1:12975694-12975713 | None:intergenic | 40.0% | |
| TGTTGTTCTTGAAGCGTGAT+GGG | + | chr2_1:12975904-12975923 | None:intergenic | 40.0% | |
| ATGTTGTTCTTGAAGCGTGA+TGG | + | chr2_1:12975905-12975924 | None:intergenic | 40.0% | |
| ! | AGTTGCTGAGTTGGATGATT+TGG | - | chr2_1:12976020-12976039 | Msa0196000:CDS | 40.0% |
| TATCAAAGTTGCTCAGTTGG+AGG | - | chr2_1:12976080-12976099 | Msa0196000:CDS | 40.0% | |
| ! | GTCTCTCAAAAGCTTTTTGC+AGG | - | chr2_1:12976251-12976270 | Msa0196000:CDS | 40.0% |
| TGAGAGGATGAAGATGTTTG+TGG | + | chr2_1:12976288-12976307 | None:intergenic | 40.0% | |
| TGAGCAATCCTCTGCAATTG+AGG | - | chr2_1:12975731-12975750 | Msa0196000:CDS | 45.0% | |
| CAAATGCACCTCAATTGCAG+AGG | + | chr2_1:12975742-12975761 | None:intergenic | 45.0% | |
| TGAGGTGCATTTGCAAGTTG+TGG | - | chr2_1:12975749-12975768 | Msa0196000:CDS | 45.0% | |
| AGATCTACATGGCAAGGACA+AGG | - | chr2_1:12975837-12975856 | Msa0196000:CDS | 45.0% | |
| ACTTTGCATGAAGCTGCGAT+TGG | + | chr2_1:12975879-12975898 | None:intergenic | 45.0% | |
| GTTGTTCTTGAAGCGTGATG+GGG | + | chr2_1:12975903-12975922 | None:intergenic | 45.0% | |
| ! | TGCTGAGTTGGATGATTTGG+TGG | - | chr2_1:12976023-12976042 | Msa0196000:CDS | 45.0% |
| CATCAGTTCACCCGGTAGTA+CGG | + | chr2_1:12975686-12975705 | None:intergenic | 50.0% | |
| GCAACAGCAGCAGAAGGAAA+AGG | - | chr2_1:12975934-12975953 | Msa0196000:CDS | 50.0% | |
| CAAAGTTGCTCAGTTGGAGG+AGG | - | chr2_1:12976083-12976102 | Msa0196000:CDS | 50.0% | |
| GAAGCAGCAACAGCAGCAGA+AGG | - | chr2_1:12975928-12975947 | Msa0196000:CDS | 55.0% | |
| AGTTGCTCAGTTGGAGGAGG+AGG | - | chr2_1:12976086-12976105 | Msa0196000:CDS | 55.0% | |
| GGAGGAGGAGGCAATTCAGT+TGG | - | chr2_1:12976098-12976117 | Msa0196000:CDS | 55.0% | |
| GGAGGAGGCAATTCAGTTGG+AGG | - | chr2_1:12976101-12976120 | Msa0196000:CDS | 55.0% | |
| GGCAATTCAGTTGGAGGAGC+AGG | - | chr2_1:12976107-12976126 | Msa0196000:CDS | 55.0% | |
| ! | GTCACCGAGCACCGTACTAC+CGG | - | chr2_1:12975672-12975691 | Msa0196000:CDS | 60.0% |
| ! | TCACCGAGCACCGTACTACC+GGG | - | chr2_1:12975673-12975692 | Msa0196000:CDS | 60.0% |
| TCACCCGGTAGTACGGTGCT+CGG | + | chr2_1:12975679-12975698 | None:intergenic | 60.0% | |
| GGAGGAGCAGGCAGCTCAGT+TGG | - | chr2_1:12976119-12976138 | Msa0196000:CDS | 65.0% | |
| GGAGCAGGCAGCTCAGTTGG+AGG | - | chr2_1:12976122-12976141 | Msa0196000:CDS | 65.0% | |
| GGCAGCTCAGTTGGAGGAGC+AGG | - | chr2_1:12976128-12976147 | Msa0196000:CDS | 65.0% | |
| GGAGCAGGCAGCAGCTCAGT+TGG | - | chr2_1:12976143-12976162 | Msa0196000:CDS | 65.0% | |
| ! | GGTGCTCGGTGACTCCGCCG+TGG | + | chr2_1:12975665-12975684 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 12975652 | 12976314 | 12975652 | ID=Msa0196000;Name=Msa0196000 |
| chr2_1 | mRNA | 12975652 | 12976314 | 12975652 | ID=Msa0196000-mRNA-1;Parent=Msa0196000;Name=Msa0196000-mRNA-1;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|220 |
| chr2_1 | exon | 12975652 | 12976314 | 12975652 | ID=Msa0196000-mRNA-1:exon:5660;Parent=Msa0196000-mRNA-1 |
| chr2_1 | CDS | 12975652 | 12976314 | 12975652 | ID=Msa0196000-mRNA-1:cds;Parent=Msa0196000-mRNA-1 |
| Gene Sequence |
| Protein sequence |
