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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1385090 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1385090 | 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 | Msa1385090 | 0.995129 | 2.756432e-213 | -8.615850e-47 |
| Msa0099210 | Msa1385090 | 0.817002 | 4.132725e-52 | -8.615850e-47 |
| Msa0858980 | Msa1385090 | 0.809318 | 2.007476e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1385090 | MtrunA17_Chr1g0151181 | 97.479 | 119 | 3 | 0 | 1 | 119 | 1 | 119 | 1.87e-82 | 236 |
| Msa1385090 | MtrunA17_Chr3g0135901 | 66.379 | 116 | 31 | 5 | 1 | 116 | 1 | 108 | 2.05e-30 | 105 |
| Msa1385090 | MtrunA17_Chr4g0071001 | 54.264 | 129 | 38 | 9 | 1 | 116 | 1 | 121 | 4.77e-27 | 96.7 |
| Msa1385090 | MtrunA17_Chr2g0329951 | 47.115 | 104 | 46 | 4 | 17 | 119 | 13 | 108 | 3.25e-22 | 84.0 |
| Msa1385090 | MtrunA17_Chr8g0342841 | 48.315 | 89 | 36 | 4 | 31 | 119 | 26 | 104 | 3.16e-16 | 68.6 |
| Msa1385090 | MtrunA17_Chr8g0342831 | 48.315 | 89 | 36 | 4 | 31 | 119 | 26 | 104 | 3.16e-16 | 68.6 |
| Msa1385090 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1385090 | AT5G11970.1 | 54.622 | 119 | 40 | 7 | 1 | 119 | 1 | 105 | 1.16e-26 | 95.5 |
| Msa1385090 | AT3G13910.1 | 44.554 | 101 | 44 | 4 | 10 | 109 | 8 | 97 | 3.77e-16 | 68.9 |
| Msa1385090 | AT3G13910.2 | 44.554 | 101 | 44 | 4 | 10 | 109 | 8 | 97 | 7.11e-16 | 68.6 |
| Msa1385090 | AT2G19460.1 | 43.333 | 120 | 48 | 5 | 1 | 110 | 1 | 110 | 1.26e-15 | 67.8 |
| Msa1385090 | AT2G19460.2 | 43.333 | 120 | 48 | 5 | 1 | 110 | 53 | 162 | 2.32e-15 | 68.6 |
| Msa1385090 | AT1G72720.1 | 43.158 | 95 | 48 | 2 | 27 | 119 | 37 | 127 | 2.88e-13 | 62.0 |
| Msa1385090 | AT2G47480.1 | 45.161 | 62 | 32 | 1 | 57 | 116 | 47 | 108 | 1.54e-12 | 59.7 |
| Msa1385090 | AT3G05725.1 | 43.478 | 69 | 36 | 2 | 50 | 118 | 59 | 124 | 1.59e-11 | 57.4 |
| Msa1385090 | 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 | tig0020711:+29065 | None:intergenic |
| GAAAAGTGAAAGGTTCATTT+AGG | 0.301962 | tig0020711:-28923 | Msa1385090:CDS |
| TCAAAGGGGTCCTAATAATA+AGG | 0.325607 | tig0020711:-29075 | Msa1385090:CDS |
| TAAGACCTAATATCATAATT+AGG | 0.344095 | tig0020711:+29122 | None:intergenic |
| ATTTCCAAGTCTTGGAGCTT+TGG | 0.345743 | tig0020711:-29008 | Msa1385090:CDS |
| CTAAGCCTAATTATGATATT+AGG | 0.367646 | tig0020711:-29127 | Msa1385090:CDS |
| CTGAATTTCAAAGAAAGAAA+AGG | 0.382930 | tig0020711:-28977 | Msa1385090:CDS |
| GGTCTTCAATTTCCAAGTCT+TGG | 0.385601 | tig0020711:-29016 | Msa1385090:CDS |
| AGGATTACAACAAACAAATT+AGG | 0.424144 | tig0020711:-29199 | Msa1385090:CDS |
| TTCCTATGCACAAACTCAAA+GGG | 0.443805 | tig0020711:-29090 | Msa1385090:CDS |
| AACAAACAAATTAGGCCCTA+TGG | 0.456268 | tig0020711:-29191 | Msa1385090:CDS |
| AGTGGCTAAAGAATAGGTAT+TGG | 0.458659 | tig0020711:-28890 | Msa1385090:CDS |
| TGAATTTCAAAGAAAGAAAA+GGG | 0.462597 | tig0020711:-28976 | Msa1385090:CDS |
| GCTTTAAGTGGCTAAAGAAT+AGG | 0.471892 | tig0020711:-28896 | Msa1385090:CDS |
| CATCATTTGACTATTTCCAT+AGG | 0.472718 | tig0020711:+29175 | None:intergenic |
| ATCACCAAAGCTCCAAGACT+TGG | 0.492773 | tig0020711:+29004 | None:intergenic |
| AGGACTTGAAGTTGAAGAAA+GGG | 0.493735 | tig0020711:-29055 | Msa1385090:CDS |
| CATTTAGGAAAAGCTTTAAG+TGG | 0.499586 | tig0020711:-28908 | Msa1385090:CDS |
| AAGGACTTGAAGTTGAAGAA+AGG | 0.504271 | tig0020711:-29056 | Msa1385090:CDS |
| TACAAAATGTATTCTGTGGA+AGG | 0.507359 | tig0020711:-28945 | Msa1385090:CDS |
| ATCATTTGACTATTTCCATA+GGG | 0.507995 | tig0020711:+29176 | None:intergenic |
| TTGTTTGTTGTAATCCTCCA+TGG | 0.515361 | tig0020711:+29205 | None:intergenic |
| TTTCCTATGCACAAACTCAA+AGG | 0.521927 | tig0020711:-29091 | Msa1385090:CDS |
| ATGCAGATGGAGGGCTACAA+TGG | 0.544528 | tig0020711:-29155 | Msa1385090:CDS |
| GGCATGTGGTTTATAACTTG+TGG | 0.581423 | tig0020711:-28869 | Msa1385090:CDS |
| AAATAGTCAAATGATGCAGA+TGG | 0.594245 | tig0020711:-29168 | Msa1385090:CDS |
| AAGGGAAAAGCATTTCATCA+AGG | 0.598189 | tig0020711:-29037 | Msa1385090:CDS |
| TAGTCAAATGATGCAGATGG+AGG | 0.613440 | tig0020711:-29165 | Msa1385090:CDS |
| AGTCAAATGATGCAGATGGA+GGG | 0.615864 | tig0020711:-29164 | Msa1385090:CDS |
| TCTGTGGAAGGAAAAGTGAA+AGG | 0.617851 | tig0020711:-28933 | Msa1385090:CDS |
| AAAGAATAGGTATTGGCATG+TGG | 0.618847 | tig0020711:-28883 | Msa1385090:CDS |
| TAGCTACAAAATGTATTCTG+TGG | 0.631804 | tig0020711:-28949 | Msa1385090:CDS |
| ACCCCTTTGAGTTTGTGCAT+AGG | 0.638318 | tig0020711:+29088 | None:intergenic |
| TCCTATGCACAAACTCAAAG+GGG | 0.640633 | tig0020711:-29089 | Msa1385090:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAAGACCTAATATCATAATT+AGG | + | tig0020711:28950-28969 | None:intergenic | 20.0% |
| !! | TGAATTTCAAAGAAAGAAAA+GGG | - | tig0020711:29093-29112 | Msa1385090:CDS | 20.0% |
| ! | AGGATTACAACAAACAAATT+AGG | - | tig0020711:28870-28889 | Msa1385090:CDS | 25.0% |
| ! | ATCATTTGACTATTTCCATA+GGG | + | tig0020711:28896-28915 | None:intergenic | 25.0% |
| ! | CTAAGCCTAATTATGATATT+AGG | - | tig0020711:28942-28961 | Msa1385090:CDS | 25.0% |
| ! | AACTTCAAGTCCTTATTATT+AGG | + | tig0020711:29007-29026 | None:intergenic | 25.0% |
| !!! | CTTTTCTTTCTTTGAAATTC+AGG | + | tig0020711:29094-29113 | None:intergenic | 25.0% |
| ! | CTGAATTTCAAAGAAAGAAA+AGG | - | tig0020711:29092-29111 | Msa1385090:CDS | 25.0% |
| CATCATTTGACTATTTCCAT+AGG | + | tig0020711:28897-28916 | None:intergenic | 30.0% | |
| AAATAGTCAAATGATGCAGA+TGG | - | tig0020711:28901-28920 | Msa1385090:CDS | 30.0% | |
| TAGCTACAAAATGTATTCTG+TGG | - | tig0020711:29120-29139 | Msa1385090:CDS | 30.0% | |
| TACAAAATGTATTCTGTGGA+AGG | - | tig0020711:29124-29143 | Msa1385090:CDS | 30.0% | |
| GAAAAGTGAAAGGTTCATTT+AGG | - | tig0020711:29146-29165 | Msa1385090:CDS | 30.0% | |
| !! | CATTTAGGAAAAGCTTTAAG+TGG | - | tig0020711:29161-29180 | Msa1385090:CDS | 30.0% |
| AACAAACAAATTAGGCCCTA+TGG | - | tig0020711:28878-28897 | Msa1385090:CDS | 35.0% | |
| TTTCCTATGCACAAACTCAA+AGG | - | tig0020711:28978-28997 | Msa1385090:CDS | 35.0% | |
| TTCCTATGCACAAACTCAAA+GGG | - | tig0020711:28979-28998 | Msa1385090:CDS | 35.0% | |
| TCAAAGGGGTCCTAATAATA+AGG | - | tig0020711:28994-29013 | Msa1385090:CDS | 35.0% | |
| AAGGACTTGAAGTTGAAGAA+AGG | - | tig0020711:29013-29032 | Msa1385090:CDS | 35.0% | |
| AGGACTTGAAGTTGAAGAAA+GGG | - | tig0020711:29014-29033 | Msa1385090:CDS | 35.0% | |
| !! | AAGGGAAAAGCATTTCATCA+AGG | - | tig0020711:29032-29051 | Msa1385090:CDS | 35.0% |
| ! | GCTTTAAGTGGCTAAAGAAT+AGG | - | tig0020711:29173-29192 | Msa1385090:CDS | 35.0% |
| AGTGGCTAAAGAATAGGTAT+TGG | - | tig0020711:29179-29198 | Msa1385090:CDS | 35.0% | |
| !! | AAAGAATAGGTATTGGCATG+TGG | - | tig0020711:29186-29205 | Msa1385090:CDS | 35.0% |
| TAGTCAAATGATGCAGATGG+AGG | - | tig0020711:28904-28923 | Msa1385090:CDS | 40.0% | |
| AGTCAAATGATGCAGATGGA+GGG | - | tig0020711:28905-28924 | Msa1385090:CDS | 40.0% | |
| TCCTATGCACAAACTCAAAG+GGG | - | tig0020711:28980-28999 | Msa1385090:CDS | 40.0% | |
| GGTCTTCAATTTCCAAGTCT+TGG | - | tig0020711:29053-29072 | Msa1385090:CDS | 40.0% | |
| ATTTCCAAGTCTTGGAGCTT+TGG | - | tig0020711:29061-29080 | Msa1385090:CDS | 40.0% | |
| TCTGTGGAAGGAAAAGTGAA+AGG | - | tig0020711:29136-29155 | Msa1385090:CDS | 40.0% | |
| GGCATGTGGTTTATAACTTG+TGG | - | tig0020711:29200-29219 | Msa1385090:CDS | 40.0% | |
| ! | ACCCCTTTGAGTTTGTGCAT+AGG | + | tig0020711:28984-29003 | None:intergenic | 45.0% |
| ATCACCAAAGCTCCAAGACT+TGG | + | tig0020711:29068-29087 | None:intergenic | 45.0% | |
| ATGCAGATGGAGGGCTACAA+TGG | - | tig0020711:28914-28933 | Msa1385090:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020711 | gene | 28866 | 29225 | 28866 | ID=Msa1385090;Name=Msa1385090 |
| tig0020711 | mRNA | 28866 | 29225 | 28866 | ID=Msa1385090-mRNA-1;Parent=Msa1385090;Name=Msa1385090-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|119 |
| tig0020711 | exon | 28866 | 29225 | 28866 | ID=Msa1385090-mRNA-1:exon:9439;Parent=Msa1385090-mRNA-1 |
| tig0020711 | CDS | 28866 | 29225 | 28866 | ID=Msa1385090-mRNA-1:cds;Parent=Msa1385090-mRNA-1 |
| Gene Sequence |
| Protein sequence |
