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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0366440 | PNX98523.1 | 69.565 | 161 | 49 | 0 | 1 | 161 | 1 | 161 | 2.61e-69 | 217 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0366440 | sp|Q9FJK3|AGL80_ARATH | 42.857 | 154 | 88 | 0 | 1 | 154 | 1 | 154 | 2.37e-30 | 115 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0366440 | A0A2K3N650 | 69.565 | 161 | 49 | 0 | 1 | 161 | 1 | 161 | 1.25e-69 | 217 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0366440 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0366440 | MtrunA17_Chr2g0296861 | 67.089 | 158 | 52 | 0 | 1 | 158 | 1 | 158 | 6.24e-64 | 193 |
| Msa0366440 | MtrunA17_Chr3g0107461 | 51.553 | 161 | 77 | 1 | 1 | 160 | 1 | 161 | 2.71e-50 | 159 |
| Msa0366440 | MtrunA17_Chr3g0107381 | 46.875 | 160 | 85 | 0 | 1 | 160 | 1 | 160 | 9.29e-47 | 151 |
| Msa0366440 | MtrunA17_Chr2g0283941 | 44.512 | 164 | 88 | 2 | 1 | 161 | 1 | 164 | 2.64e-38 | 130 |
| Msa0366440 | MtrunA17_Chr3g0105791 | 49.254 | 134 | 67 | 1 | 29 | 161 | 1 | 134 | 1.01e-37 | 126 |
| Msa0366440 | MtrunA17_Chr4g0031421 | 47.407 | 135 | 70 | 1 | 29 | 162 | 1 | 135 | 5.76e-37 | 124 |
| Msa0366440 | MtrunA17_Chr5g0432691 | 35.948 | 153 | 98 | 0 | 1 | 153 | 1 | 153 | 3.34e-36 | 123 |
| Msa0366440 | MtrunA17_Chr3g0110131 | 43.791 | 153 | 86 | 0 | 1 | 153 | 1 | 153 | 3.36e-35 | 122 |
| Msa0366440 | MtrunA17_Chr4g0014321 | 36.364 | 154 | 97 | 1 | 1 | 153 | 1 | 154 | 5.72e-32 | 114 |
| Msa0366440 | MtrunA17_Chr4g0014031 | 40.645 | 155 | 91 | 1 | 1 | 154 | 1 | 155 | 1.60e-30 | 110 |
| Msa0366440 | MtrunA17_Chr3g0107331 | 41.447 | 152 | 77 | 3 | 7 | 152 | 6 | 151 | 2.13e-30 | 108 |
| Msa0366440 | MtrunA17_Chr3g0106421 | 45.455 | 132 | 71 | 1 | 29 | 159 | 1 | 132 | 1.78e-28 | 104 |
| Msa0366440 | MtrunA17_Chr8g0351751 | 38.462 | 156 | 93 | 2 | 1 | 153 | 1 | 156 | 1.73e-27 | 103 |
| Msa0366440 | MtrunA17_Chr1g0197261 | 35.948 | 153 | 97 | 1 | 1 | 153 | 1 | 152 | 2.34e-27 | 100 |
| Msa0366440 | MtrunA17_Chr4g0013041 | 34.416 | 154 | 98 | 2 | 1 | 153 | 1 | 152 | 3.34e-27 | 101 |
| Msa0366440 | MtrunA17_Chr5g0420351 | 36.601 | 153 | 96 | 1 | 1 | 153 | 1 | 152 | 3.84e-27 | 99.8 |
| Msa0366440 | MtrunA17_Chr1g0188681 | 35.294 | 153 | 98 | 1 | 1 | 153 | 1 | 152 | 1.65e-25 | 95.5 |
| Msa0366440 | MtrunA17_Chr4g0012761 | 38.562 | 153 | 93 | 1 | 1 | 153 | 1 | 152 | 3.98e-25 | 94.7 |
| Msa0366440 | MtrunA17_Chr1g0197461 | 33.553 | 152 | 100 | 1 | 7 | 158 | 6 | 156 | 9.11e-25 | 93.6 |
| Msa0366440 | MtrunA17_Chr3g0107361 | 37.908 | 153 | 83 | 3 | 7 | 153 | 6 | 152 | 1.26e-24 | 93.2 |
| Msa0366440 | MtrunA17_Chr4g0014121 | 37.419 | 155 | 96 | 1 | 1 | 154 | 29 | 183 | 4.93e-24 | 92.4 |
| Msa0366440 | MtrunA17_Chr3g0107351 | 36.601 | 153 | 85 | 3 | 7 | 153 | 6 | 152 | 5.14e-24 | 91.7 |
| Msa0366440 | MtrunA17_Chr7g0218151 | 36.601 | 153 | 96 | 1 | 1 | 153 | 1 | 152 | 9.42e-24 | 90.9 |
| Msa0366440 | MtrunA17_Chr1g0188661 | 34.641 | 153 | 99 | 1 | 1 | 153 | 1 | 152 | 1.82e-23 | 90.5 |
| Msa0366440 | MtrunA17_Chr2g0296831 | 38.017 | 121 | 75 | 0 | 1 | 121 | 1 | 121 | 2.44e-23 | 89.0 |
| Msa0366440 | MtrunA17_Chr4g0014131 | 37.580 | 157 | 97 | 1 | 7 | 162 | 7 | 163 | 1.09e-22 | 90.1 |
| Msa0366440 | MtrunA17_Chr1g0193311 | 37.908 | 153 | 94 | 1 | 1 | 153 | 1 | 152 | 1.33e-22 | 88.2 |
| Msa0366440 | MtrunA17_Chr1g0197321 | 34.194 | 155 | 98 | 3 | 1 | 153 | 1 | 153 | 8.99e-22 | 85.9 |
| Msa0366440 | MtrunA17_Chr3g0106501 | 39.259 | 135 | 79 | 2 | 29 | 160 | 1 | 135 | 1.53e-21 | 85.1 |
| Msa0366440 | MtrunA17_Chr3g0107341 | 36.242 | 149 | 83 | 3 | 7 | 149 | 6 | 148 | 2.36e-21 | 85.1 |
| Msa0366440 | MtrunA17_Chr1g0188651 | 32.500 | 160 | 105 | 2 | 1 | 160 | 1 | 157 | 1.22e-15 | 70.1 |
| Msa0366440 | MtrunA17_Chr4g0008701 | 28.462 | 130 | 81 | 3 | 4 | 128 | 5 | 127 | 4.83e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0366440 | AT5G48670.1 | 42.857 | 154 | 88 | 0 | 1 | 154 | 1 | 154 | 2.41e-31 | 115 |
| Msa0366440 | AT3G05860.2 | 38.255 | 149 | 92 | 0 | 1 | 149 | 1 | 149 | 7.11e-30 | 108 |
| Msa0366440 | AT3G05860.3 | 38.255 | 149 | 92 | 0 | 1 | 149 | 1 | 149 | 2.78e-29 | 108 |
| Msa0366440 | AT3G05860.1 | 38.255 | 149 | 92 | 0 | 1 | 149 | 1 | 149 | 3.16e-29 | 108 |
| Msa0366440 | AT1G65330.1 | 39.375 | 160 | 87 | 2 | 7 | 161 | 6 | 160 | 5.30e-29 | 108 |
| Msa0366440 | AT1G65300.1 | 36.364 | 154 | 96 | 2 | 4 | 156 | 3 | 155 | 1.27e-24 | 96.7 |
| Msa0366440 | AT5G27810.1 | 43.820 | 89 | 50 | 0 | 29 | 117 | 1 | 89 | 4.24e-22 | 85.9 |
| Msa0366440 | AT1G31640.1 | 37.975 | 158 | 83 | 6 | 6 | 156 | 5 | 154 | 8.05e-22 | 91.3 |
| Msa0366440 | AT1G22590.2 | 29.630 | 162 | 103 | 2 | 1 | 158 | 1 | 155 | 1.35e-19 | 80.9 |
| Msa0366440 | AT1G31630.1 | 33.813 | 139 | 85 | 2 | 7 | 142 | 6 | 140 | 6.38e-19 | 82.0 |
| Msa0366440 | AT2G28700.1 | 34.951 | 103 | 67 | 0 | 1 | 103 | 1 | 103 | 7.11e-18 | 79.3 |
| Msa0366440 | AT5G27960.1 | 30.323 | 155 | 108 | 0 | 7 | 161 | 5 | 159 | 1.13e-17 | 78.6 |
| Msa0366440 | AT5G26650.1 | 30.323 | 155 | 108 | 0 | 7 | 161 | 5 | 159 | 1.73e-17 | 78.6 |
| Msa0366440 | AT5G26630.1 | 29.814 | 161 | 113 | 0 | 1 | 161 | 1 | 161 | 2.10e-16 | 73.6 |
| Msa0366440 | AT5G06500.1 | 29.231 | 130 | 84 | 2 | 1 | 126 | 1 | 126 | 1.19e-14 | 69.3 |
| Msa0366440 | AT2G40210.1 | 26.115 | 157 | 115 | 1 | 1 | 157 | 1 | 156 | 2.18e-13 | 67.0 |
Find 30 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCATTCATTTCATTCTTCT+TGG | 0.187611 | 3_1:+61332104 | None:intergenic |
| CTCCATTTCAATCTTCATCT+TGG | 0.285395 | 3_1:+61331953 | None:intergenic |
| GAAAGGCAACATTTGGAAAA+AGG | 0.291917 | 3_1:-61332581 | Msa0366440:CDS |
| TTTGTTTCTTTAACTTCTCT+AGG | 0.340953 | 3_1:+61332136 | None:intergenic |
| AATGAAATGAATGATCTAAT+TGG | 0.349404 | 3_1:-61332096 | Msa0366440:CDS |
| TTCTTTGTTCGACTTCCTTA+AGG | 0.352157 | 3_1:+61331992 | None:intergenic |
| TCCATTTCAATCTTCATCTT+GGG | 0.367020 | 3_1:+61331954 | None:intergenic |
| TCGAAGAGAAAGGCAACATT+TGG | 0.402575 | 3_1:-61332588 | Msa0366440:CDS |
| ATTCATACGGGTGAATTGAA+TGG | 0.413638 | 3_1:-61332066 | Msa0366440:CDS |
| TGAACTTGTCCAACACCATA+TGG | 0.431567 | 3_1:+61332235 | None:intergenic |
| TTGTTTCTTTAACTTCTCTA+GGG | 0.453550 | 3_1:+61332137 | None:intergenic |
| AATTGGTCAATTCATTCATA+CGG | 0.459890 | 3_1:-61332079 | Msa0366440:CDS |
| AATGAAATCACCACCTTATG+TGG | 0.471722 | 3_1:-61332330 | Msa0366440:CDS |
| GCTTATTGTTGAGAACCTTA+AGG | 0.479647 | 3_1:-61332007 | Msa0366440:CDS |
| ACATACATCAATTCCACATA+AGG | 0.491397 | 3_1:+61332317 | None:intergenic |
| AAGTCGAACAAAGAATCAAA+TGG | 0.491626 | 3_1:-61331984 | Msa0366440:CDS |
| AACTGATGACTCGAAGAGAA+AGG | 0.544142 | 3_1:-61332598 | Msa0366440:CDS |
| TTTCGAATTTCTAGCAGCCA+TGG | 0.551648 | 3_1:+61332632 | None:intergenic |
| AAAATCGATGGTGGATCATG+AGG | 0.552677 | 3_1:-61332187 | Msa0366440:CDS |
| ATTGGTCAATTCATTCATAC+GGG | 0.554460 | 3_1:-61332078 | Msa0366440:CDS |
| GGGTGAATTGAATGGAAATG+TGG | 0.577744 | 3_1:-61332058 | Msa0366440:CDS |
| AAATCGATGGTGGATCATGA+GGG | 0.613825 | 3_1:-61332186 | Msa0366440:CDS |
| ATATGAACAAAGAAAATCGA+TGG | 0.615087 | 3_1:-61332199 | Msa0366440:CDS |
| TGTATGTGGTATAATCTATG+AGG | 0.618109 | 3_1:-61332301 | Msa0366440:CDS |
| GGAAAACAACGCTCAAGCAA+TGG | 0.621665 | 3_1:-61332280 | Msa0366440:CDS |
| TACATCAATTCCACATAAGG+TGG | 0.624843 | 3_1:+61332320 | None:intergenic |
| TGAACAAAGAAAATCGATGG+TGG | 0.640332 | 3_1:-61332196 | Msa0366440:CDS |
| TTATGTGGAATTGATGTATG+TGG | 0.644295 | 3_1:-61332315 | Msa0366440:CDS |
| GGTGAATTGAATGGAAATGT+GGG | 0.647108 | 3_1:-61332057 | Msa0366440:CDS |
| TGGATCATGAGGGCTTCTTG+AGG | 0.670340 | 3_1:-61332176 | Msa0366440:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GAATTTGCTTCATAAAAATA+AGG | + | chr3_1:61332060-61332079 | None:intergenic | 20.0% |
| !! | ACTTTATACTATAAATGACA+TGG | + | chr3_1:61332177-61332196 | None:intergenic | 20.0% |
| !! | AATGAAATGAATGATCTAAT+TGG | - | chr3_1:61332494-61332513 | Msa0366440:intron | 20.0% |
| ! | CATACTGATGTTCATTATAA+TGG | + | chr3_1:61332099-61332118 | None:intergenic | 25.0% |
| !! | TCAATTTTACATTTCTCTGA+CGG | - | chr3_1:61332198-61332217 | Msa0366440:CDS | 25.0% |
| !! | GATTTTCTTTGTTCATATTC+AGG | + | chr3_1:61332389-61332408 | None:intergenic | 25.0% |
| ! | ATATGAACAAAGAAAATCGA+TGG | - | chr3_1:61332391-61332410 | Msa0366440:intron | 25.0% |
| !! | TTGTTTCTTTAACTTCTCTA+GGG | + | chr3_1:61332456-61332475 | None:intergenic | 25.0% |
| !! | TTTGTTTCTTTAACTTCTCT+AGG | + | chr3_1:61332457-61332476 | None:intergenic | 25.0% |
| ! | ATCATTCATTTCATTCTTCT+TGG | + | chr3_1:61332489-61332508 | None:intergenic | 25.0% |
| ! | AATTGGTCAATTCATTCATA+CGG | - | chr3_1:61332511-61332530 | Msa0366440:intron | 25.0% |
| ACATTTGGAAAAAGGAAACA+AGG | - | chr3_1:61332017-61332036 | Msa0366440:CDS | 30.0% | |
| !! | CTCTTGCTATATTTTCAAAC+AGG | - | chr3_1:61332221-61332240 | Msa0366440:CDS | 30.0% |
| ACATACATCAATTCCACATA+AGG | + | chr3_1:61332276-61332295 | None:intergenic | 30.0% | |
| TTATGTGGAATTGATGTATG+TGG | - | chr3_1:61332275-61332294 | Msa0366440:CDS | 30.0% | |
| TGTATGTGGTATAATCTATG+AGG | - | chr3_1:61332289-61332308 | Msa0366440:CDS | 30.0% | |
| !! | ATATGGACTTTTTCTTTGGA+TGG | + | chr3_1:61332341-61332360 | None:intergenic | 30.0% |
| ATCCAAAGAAAAAGTCCATA+TGG | - | chr3_1:61332340-61332359 | Msa0366440:CDS | 30.0% | |
| ATTGGTCAATTCATTCATAC+GGG | - | chr3_1:61332512-61332531 | Msa0366440:intron | 30.0% | |
| AAGTCGAACAAAGAATCAAA+TGG | - | chr3_1:61332606-61332625 | Msa0366440:CDS | 30.0% | |
| GAAAGGCAACATTTGGAAAA+AGG | - | chr3_1:61332009-61332028 | Msa0366440:CDS | 35.0% | |
| AATGAAATCACCACCTTATG+TGG | - | chr3_1:61332260-61332279 | Msa0366440:CDS | 35.0% | |
| TACATCAATTCCACATAAGG+TGG | + | chr3_1:61332273-61332292 | None:intergenic | 35.0% | |
| !! | CACCATATGGACTTTTTCTT+TGG | + | chr3_1:61332345-61332364 | None:intergenic | 35.0% |
| AGAAAAAGTCCATATGGTGT+TGG | - | chr3_1:61332346-61332365 | Msa0366440:CDS | 35.0% | |
| TGAACAAAGAAAATCGATGG+TGG | - | chr3_1:61332394-61332413 | Msa0366440:intron | 35.0% | |
| ATTCATACGGGTGAATTGAA+TGG | - | chr3_1:61332524-61332543 | Msa0366440:intron | 35.0% | |
| GGTGAATTGAATGGAAATGT+GGG | - | chr3_1:61332533-61332552 | Msa0366440:intron | 35.0% | |
| GCTTATTGTTGAGAACCTTA+AGG | - | chr3_1:61332583-61332602 | Msa0366440:CDS | 35.0% | |
| TTCTTTGTTCGACTTCCTTA+AGG | + | chr3_1:61332601-61332620 | None:intergenic | 35.0% | |
| AACTGATGACTCGAAGAGAA+AGG | - | chr3_1:61331992-61332011 | Msa0366440:CDS | 40.0% | |
| TCGAAGAGAAAGGCAACATT+TGG | - | chr3_1:61332002-61332021 | Msa0366440:CDS | 40.0% | |
| TGAACTTGTCCAACACCATA+TGG | + | chr3_1:61332358-61332377 | None:intergenic | 40.0% | |
| !! | AAAATCGATGGTGGATCATG+AGG | - | chr3_1:61332403-61332422 | Msa0366440:intron | 40.0% |
| !! | AAATCGATGGTGGATCATGA+GGG | - | chr3_1:61332404-61332423 | Msa0366440:intron | 40.0% |
| GGGTGAATTGAATGGAAATG+TGG | - | chr3_1:61332532-61332551 | Msa0366440:intron | 40.0% | |
| GGAAAACAACGCTCAAGCAA+TGG | - | chr3_1:61332310-61332329 | Msa0366440:CDS | 45.0% | |
| !!! | CTTCTCTAGGGCTTTTGCTA+TGG | + | chr3_1:61332444-61332463 | None:intergenic | 45.0% |
| TGGATCATGAGGGCTTCTTG+AGG | - | chr3_1:61332414-61332433 | Msa0366440:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 61331960 | 61332652 | 61331960 | ID=Msa0366440;Name=Msa0366440 |
| chr3_1 | mRNA | 61331960 | 61332652 | 61331960 | ID=Msa0366440-mRNA-1;Parent=Msa0366440;Name=Msa0366440-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|0|0|0.5|1|1|2|0|162 |
| chr3_1 | exon | 61332574 | 61332652 | 61332574 | ID=Msa0366440-mRNA-1:exon:11884;Parent=Msa0366440-mRNA-1 |
| chr3_1 | exon | 61331960 | 61332369 | 61331960 | ID=Msa0366440-mRNA-1:exon:11883;Parent=Msa0366440-mRNA-1 |
| chr3_1 | CDS | 61332574 | 61332652 | 61332574 | ID=Msa0366440-mRNA-1:cds;Parent=Msa0366440-mRNA-1 |
| chr3_1 | CDS | 61331960 | 61332369 | 61331960 | ID=Msa0366440-mRNA-1:cds;Parent=Msa0366440-mRNA-1 |
| Gene Sequence |
| Protein sequence |
