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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0053590 | XP_013465885.1 | 97.479 | 119 | 3 | 0 | 1 | 119 | 1 | 119 | 2.03e-78 | 236 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0053590 | A0A072VEC4 | 97.479 | 119 | 3 | 0 | 1 | 119 | 1 | 119 | 9.71e-79 | 236 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0053590 | Msa0099210 | 0.817617 | 3.005545e-52 | -8.615850e-47 |
| Msa0053590 | Msa0858980 | 0.807988 | 3.862521e-50 | -8.615850e-47 |
| Msa0053590 | Msa1385090 | 0.995129 | 2.756432e-213 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0053590 | MtrunA17_Chr1g0151181 | 97.479 | 119 | 3 | 0 | 1 | 119 | 1 | 119 | 1.87e-82 | 236 |
| Msa0053590 | MtrunA17_Chr3g0135901 | 66.379 | 116 | 31 | 5 | 1 | 116 | 1 | 108 | 2.05e-30 | 105 |
| Msa0053590 | MtrunA17_Chr4g0071001 | 54.264 | 129 | 38 | 9 | 1 | 116 | 1 | 121 | 4.77e-27 | 96.7 |
| Msa0053590 | MtrunA17_Chr2g0329951 | 47.115 | 104 | 46 | 4 | 17 | 119 | 13 | 108 | 3.25e-22 | 84.0 |
| Msa0053590 | MtrunA17_Chr8g0342841 | 48.315 | 89 | 36 | 4 | 31 | 119 | 26 | 104 | 3.16e-16 | 68.6 |
| Msa0053590 | MtrunA17_Chr8g0342831 | 48.315 | 89 | 36 | 4 | 31 | 119 | 26 | 104 | 3.16e-16 | 68.6 |
| Msa0053590 | MtrunA17_Chr7g0269811 | 34.694 | 98 | 55 | 3 | 19 | 116 | 1 | 89 | 2.02e-11 | 55.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0053590 | AT5G11970.1 | 54.622 | 119 | 40 | 7 | 1 | 119 | 1 | 105 | 1.16e-26 | 95.5 |
| Msa0053590 | AT3G13910.1 | 44.554 | 101 | 44 | 4 | 10 | 109 | 8 | 97 | 3.77e-16 | 68.9 |
| Msa0053590 | AT3G13910.2 | 44.554 | 101 | 44 | 4 | 10 | 109 | 8 | 97 | 7.11e-16 | 68.6 |
| Msa0053590 | AT2G19460.1 | 43.333 | 120 | 48 | 5 | 1 | 110 | 1 | 110 | 1.26e-15 | 67.8 |
| Msa0053590 | AT2G19460.2 | 43.333 | 120 | 48 | 5 | 1 | 110 | 53 | 162 | 2.32e-15 | 68.6 |
| Msa0053590 | AT1G72720.1 | 43.158 | 95 | 48 | 2 | 27 | 119 | 37 | 127 | 2.88e-13 | 62.0 |
| Msa0053590 | AT2G47480.1 | 45.161 | 62 | 32 | 1 | 57 | 116 | 47 | 108 | 1.54e-12 | 59.7 |
| Msa0053590 | AT3G05725.1 | 43.478 | 69 | 36 | 2 | 50 | 118 | 59 | 124 | 1.59e-11 | 57.4 |
| Msa0053590 | AT3G62640.1 | 51.163 | 43 | 21 | 0 | 75 | 117 | 68 | 110 | 1.86e-11 | 57.0 |
Find 34 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACTTCAAGTCCTTATTATT+AGG | 0.268756 | 1_2:+8035380 | None:intergenic |
| GAAAAGTGAAAGGTTCATTT+AGG | 0.301962 | 1_2:-8035238 | Msa0053590:CDS |
| TCAAAGGGGTCCTAATAATA+AGG | 0.325607 | 1_2:-8035390 | Msa0053590:CDS |
| TAAGACCTAATATCATAATT+AGG | 0.344095 | 1_2:+8035437 | None:intergenic |
| ATTTCCAAGTCTTGGAGCTT+TGG | 0.345743 | 1_2:-8035323 | Msa0053590:CDS |
| CTAAGCCTAATTATGATATT+AGG | 0.367646 | 1_2:-8035442 | Msa0053590:CDS |
| CTGAATTTCAAAGAAAGAAA+AGG | 0.382930 | 1_2:-8035292 | Msa0053590:CDS |
| GGTCTTCAATTTCCAAGTCT+TGG | 0.385601 | 1_2:-8035331 | Msa0053590:CDS |
| AGGATTACAACAAACAAATT+AGG | 0.424144 | 1_2:-8035514 | Msa0053590:CDS |
| TTCCTATGCACAAACTCAAA+GGG | 0.443805 | 1_2:-8035405 | Msa0053590:CDS |
| AACAAACAAATTAGGCCCTA+TGG | 0.456268 | 1_2:-8035506 | Msa0053590:CDS |
| AGTGGCTAAAGAATAGGTAT+TGG | 0.458659 | 1_2:-8035205 | Msa0053590:CDS |
| TGAATTTCAAAGAAAGAAAA+GGG | 0.462597 | 1_2:-8035291 | Msa0053590:CDS |
| GCTTTAAGTGGCTAAAGAAT+AGG | 0.471892 | 1_2:-8035211 | Msa0053590:CDS |
| CATCATTTGACTATTTCCAT+AGG | 0.472718 | 1_2:+8035490 | None:intergenic |
| ATCACCAAAGCTCCAAGACT+TGG | 0.492773 | 1_2:+8035319 | None:intergenic |
| AGGACTTGAAGTTGAAGAAA+GGG | 0.493735 | 1_2:-8035370 | Msa0053590:CDS |
| CATTTAGGAAAAGCTTTAAG+TGG | 0.499586 | 1_2:-8035223 | Msa0053590:CDS |
| AAGGACTTGAAGTTGAAGAA+AGG | 0.504271 | 1_2:-8035371 | Msa0053590:CDS |
| TACAAAATGTATTCTGTGGA+AGG | 0.507359 | 1_2:-8035260 | Msa0053590:CDS |
| ATCATTTGACTATTTCCATA+GGG | 0.507995 | 1_2:+8035491 | None:intergenic |
| TTGTTTGTTGTAATCCTCCA+TGG | 0.515361 | 1_2:+8035520 | None:intergenic |
| TTTCCTATGCACAAACTCAA+AGG | 0.521927 | 1_2:-8035406 | Msa0053590:CDS |
| ATGCAGATGGAGGGCTACAA+TGG | 0.544528 | 1_2:-8035470 | Msa0053590:CDS |
| GGCATGTGGTTTATAACTTG+TGG | 0.581423 | 1_2:-8035184 | Msa0053590:CDS |
| AAATAGTCAAATGATGCAGA+TGG | 0.594245 | 1_2:-8035483 | Msa0053590:CDS |
| AAGGGAAAAGCATTTCATCA+AGG | 0.598189 | 1_2:-8035352 | Msa0053590:CDS |
| TAGTCAAATGATGCAGATGG+AGG | 0.613440 | 1_2:-8035480 | Msa0053590:CDS |
| AGTCAAATGATGCAGATGGA+GGG | 0.615864 | 1_2:-8035479 | Msa0053590:CDS |
| TCTGTGGAAGGAAAAGTGAA+AGG | 0.617851 | 1_2:-8035248 | Msa0053590:CDS |
| AAAGAATAGGTATTGGCATG+TGG | 0.618847 | 1_2:-8035198 | Msa0053590:CDS |
| TAGCTACAAAATGTATTCTG+TGG | 0.631804 | 1_2:-8035264 | Msa0053590:CDS |
| ACCCCTTTGAGTTTGTGCAT+AGG | 0.638318 | 1_2:+8035403 | None:intergenic |
| TCCTATGCACAAACTCAAAG+GGG | 0.640633 | 1_2:-8035404 | Msa0053590:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAAGACCTAATATCATAATT+AGG | + | chr1_2:8035265-8035284 | None:intergenic | 20.0% |
| !! | TGAATTTCAAAGAAAGAAAA+GGG | - | chr1_2:8035408-8035427 | Msa0053590:CDS | 20.0% |
| ! | AGGATTACAACAAACAAATT+AGG | - | chr1_2:8035185-8035204 | Msa0053590:CDS | 25.0% |
| ! | ATCATTTGACTATTTCCATA+GGG | + | chr1_2:8035211-8035230 | None:intergenic | 25.0% |
| ! | CTAAGCCTAATTATGATATT+AGG | - | chr1_2:8035257-8035276 | Msa0053590:CDS | 25.0% |
| ! | AACTTCAAGTCCTTATTATT+AGG | + | chr1_2:8035322-8035341 | None:intergenic | 25.0% |
| !!! | CTTTTCTTTCTTTGAAATTC+AGG | + | chr1_2:8035409-8035428 | None:intergenic | 25.0% |
| ! | CTGAATTTCAAAGAAAGAAA+AGG | - | chr1_2:8035407-8035426 | Msa0053590:CDS | 25.0% |
| CATCATTTGACTATTTCCAT+AGG | + | chr1_2:8035212-8035231 | None:intergenic | 30.0% | |
| AAATAGTCAAATGATGCAGA+TGG | - | chr1_2:8035216-8035235 | Msa0053590:CDS | 30.0% | |
| TAGCTACAAAATGTATTCTG+TGG | - | chr1_2:8035435-8035454 | Msa0053590:CDS | 30.0% | |
| TACAAAATGTATTCTGTGGA+AGG | - | chr1_2:8035439-8035458 | Msa0053590:CDS | 30.0% | |
| GAAAAGTGAAAGGTTCATTT+AGG | - | chr1_2:8035461-8035480 | Msa0053590:CDS | 30.0% | |
| !! | CATTTAGGAAAAGCTTTAAG+TGG | - | chr1_2:8035476-8035495 | Msa0053590:CDS | 30.0% |
| AACAAACAAATTAGGCCCTA+TGG | - | chr1_2:8035193-8035212 | Msa0053590:CDS | 35.0% | |
| TTTCCTATGCACAAACTCAA+AGG | - | chr1_2:8035293-8035312 | Msa0053590:CDS | 35.0% | |
| TTCCTATGCACAAACTCAAA+GGG | - | chr1_2:8035294-8035313 | Msa0053590:CDS | 35.0% | |
| TCAAAGGGGTCCTAATAATA+AGG | - | chr1_2:8035309-8035328 | Msa0053590:CDS | 35.0% | |
| AAGGACTTGAAGTTGAAGAA+AGG | - | chr1_2:8035328-8035347 | Msa0053590:CDS | 35.0% | |
| AGGACTTGAAGTTGAAGAAA+GGG | - | chr1_2:8035329-8035348 | Msa0053590:CDS | 35.0% | |
| !! | AAGGGAAAAGCATTTCATCA+AGG | - | chr1_2:8035347-8035366 | Msa0053590:CDS | 35.0% |
| ! | GCTTTAAGTGGCTAAAGAAT+AGG | - | chr1_2:8035488-8035507 | Msa0053590:CDS | 35.0% |
| AGTGGCTAAAGAATAGGTAT+TGG | - | chr1_2:8035494-8035513 | Msa0053590:CDS | 35.0% | |
| !! | AAAGAATAGGTATTGGCATG+TGG | - | chr1_2:8035501-8035520 | Msa0053590:CDS | 35.0% |
| TAGTCAAATGATGCAGATGG+AGG | - | chr1_2:8035219-8035238 | Msa0053590:CDS | 40.0% | |
| AGTCAAATGATGCAGATGGA+GGG | - | chr1_2:8035220-8035239 | Msa0053590:CDS | 40.0% | |
| TCCTATGCACAAACTCAAAG+GGG | - | chr1_2:8035295-8035314 | Msa0053590:CDS | 40.0% | |
| GGTCTTCAATTTCCAAGTCT+TGG | - | chr1_2:8035368-8035387 | Msa0053590:CDS | 40.0% | |
| ATTTCCAAGTCTTGGAGCTT+TGG | - | chr1_2:8035376-8035395 | Msa0053590:CDS | 40.0% | |
| TCTGTGGAAGGAAAAGTGAA+AGG | - | chr1_2:8035451-8035470 | Msa0053590:CDS | 40.0% | |
| GGCATGTGGTTTATAACTTG+TGG | - | chr1_2:8035515-8035534 | Msa0053590:CDS | 40.0% | |
| ! | ACCCCTTTGAGTTTGTGCAT+AGG | + | chr1_2:8035299-8035318 | None:intergenic | 45.0% |
| ATCACCAAAGCTCCAAGACT+TGG | + | chr1_2:8035383-8035402 | None:intergenic | 45.0% | |
| ATGCAGATGGAGGGCTACAA+TGG | - | chr1_2:8035229-8035248 | Msa0053590:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 8035181 | 8035540 | 8035181 | ID=Msa0053590;Name=Msa0053590 |
| chr1_2 | mRNA | 8035181 | 8035540 | 8035181 | ID=Msa0053590-mRNA-1;Parent=Msa0053590;Name=Msa0053590-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|119 |
| chr1_2 | exon | 8035181 | 8035540 | 8035181 | ID=Msa0053590-mRNA-1:exon:2818;Parent=Msa0053590-mRNA-1 |
| chr1_2 | CDS | 8035181 | 8035540 | 8035181 | ID=Msa0053590-mRNA-1:cds;Parent=Msa0053590-mRNA-1 |
| Gene Sequence |
| Protein sequence |
