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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0483390 | XP_003631001.1 | 98.571 | 140 | 2 | 0 | 1 | 140 | 1 | 140 | 2.48e-95 | 281 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0483390 | sp|P46293|RS16_GOSHI | 92.857 | 140 | 10 | 0 | 1 | 140 | 6 | 145 | 9.14e-92 | 265 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0483390 | G7LBJ0 | 98.571 | 140 | 2 | 0 | 1 | 140 | 1 | 140 | 1.18e-95 | 281 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002750 | Msa0483390 | 0.803175 | 3.952512e-49 | -8.615850e-47 |
| Msa0056470 | Msa0483390 | 0.803761 | 2.986906e-49 | -8.615850e-47 |
| Msa0085790 | Msa0483390 | 0.859539 | 3.856713e-63 | -8.615850e-47 |
| Msa0086750 | Msa0483390 | 0.850064 | 2.161534e-60 | -8.615850e-47 |
| Msa0218830 | Msa0483390 | 0.814452 | 1.529858e-51 | -8.615850e-47 |
| Msa0471960 | Msa0483390 | 0.811554 | 6.607022e-51 | -8.615850e-47 |
| Msa0337670 | Msa0483390 | 0.823063 | 1.694814e-53 | -8.615850e-47 |
| Msa0348830 | Msa0483390 | 0.815536 | 8.791052e-52 | -8.615850e-47 |
| Msa0483390 | Msa0521050 | 0.847120 | 1.413346e-59 | -8.615850e-47 |
| Msa0483390 | Msa0531650 | 0.813551 | 2.416934e-51 | -8.615850e-47 |
| Msa0483390 | Msa0584030 | 0.800818 | 1.205598e-48 | -8.615850e-47 |
| Msa0483390 | Msa0588360 | 0.824521 | 7.716050e-54 | -8.615850e-47 |
| Msa0483390 | Msa0661300 | 0.802122 | 6.516839e-49 | -8.615850e-47 |
| Msa0483390 | Msa0953310 | 0.845772 | 3.296851e-59 | -8.615850e-47 |
| Msa0483390 | Msa1456050 | 0.820076 | 8.300576e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0483390 | MtrunA17_Chr8g0392251 | 98.571 | 140 | 2 | 0 | 1 | 140 | 1 | 140 | 2.28e-99 | 281 |
| Msa0483390 | MtrunA17_Chr8g0392191 | 98.571 | 140 | 2 | 0 | 1 | 140 | 1 | 140 | 2.28e-99 | 281 |
| Msa0483390 | MtrunA17_Chr5g0432551 | 97.857 | 140 | 3 | 0 | 1 | 140 | 1 | 140 | 5.55e-99 | 280 |
| Msa0483390 | MtrunA17_Chr4g0044571 | 93.571 | 140 | 9 | 0 | 1 | 140 | 4 | 143 | 8.90e-95 | 270 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0483390 | AT2G09990.1 | 87.857 | 140 | 17 | 0 | 1 | 140 | 7 | 146 | 1.76e-90 | 259 |
| Msa0483390 | AT5G18380.1 | 87.143 | 140 | 18 | 0 | 1 | 140 | 7 | 146 | 2.45e-90 | 259 |
| Msa0483390 | AT3G04230.1 | 82.734 | 139 | 24 | 0 | 2 | 140 | 8 | 146 | 4.32e-84 | 243 |
| Msa0483390 | AT5G18380.2 | 85.600 | 125 | 18 | 0 | 2 | 126 | 8 | 132 | 1.40e-77 | 226 |
| Msa0483390 | AT5G18380.3 | 85.185 | 108 | 16 | 0 | 2 | 109 | 8 | 115 | 5.49e-66 | 197 |
Find 38 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATCTAACGATAAGATTTC+TGG | 0.210396 | 3_4:+126322 | None:intergenic |
| ACAGAGTAAGAAAGAGATTA+AGG | 0.239341 | 3_4:-126439 | Msa0483390:CDS |
| CCGCAACGGCGTTCTTCTTC+CGG | 0.308388 | 3_4:+126703 | None:intergenic |
| GCCTGAGATTCTTCGTTTCA+AGG | 0.344740 | 3_4:-126616 | Msa0483390:CDS |
| CGCTGTGAGCCTAAGAAGTT+TGG | 0.359075 | 3_4:-126369 | Msa0483390:CDS |
| TCAGAGTATTGCTAAGGCTT+TGG | 0.386737 | 3_4:-126490 | Msa0483390:CDS |
| CCACGACCACCAAACTTCTT+AGG | 0.436009 | 3_4:+126360 | None:intergenic |
| TACGAACCAATCCTCCTTCT+CGG | 0.444217 | 3_4:-126591 | Msa0483390:CDS |
| GTTTCGCCGGCGTTGATATG+AGG | 0.478501 | 3_4:-126560 | Msa0483390:CDS |
| GCCTTGAAACGAAGAATCTC+AGG | 0.478888 | 3_4:+126615 | None:intergenic |
| CTCGGAAGACACCGTTTCGC+CGG | 0.484088 | 3_4:-126573 | Msa0483390:CDS |
| ATGGAACAAGTGCAATGCTT+TGG | 0.487256 | 3_4:-126726 | Msa0483390:CDS |
| CAACGGCTGTCCAATCGAAC+TGG | 0.488470 | 3_4:-126643 | Msa0483390:CDS |
| GTGGTCGTGGTGCTCGTGCT+AGG | 0.502073 | 3_4:-126347 | Msa0483390:CDS |
| CCTAAGAAGTTTGGTGGTCG+TGG | 0.511400 | 3_4:-126360 | Msa0483390:CDS |
| AGGATCCGTGTGAAGGGAGG+AGG | 0.521481 | 3_4:-126540 | Msa0483390:CDS |
| TCATATCAACGCCGGCGAAA+CGG | 0.524265 | 3_4:+126562 | None:intergenic |
| TCAGGCTCAACCAGTTCGAT+TGG | 0.524396 | 3_4:+126633 | None:intergenic |
| AACAAGTGCAATGCTTTGGC+CGG | 0.546867 | 3_4:-126722 | Msa0483390:CDS |
| AACGGTGTCTTCCGAGAAGG+AGG | 0.549270 | 3_4:+126580 | None:intergenic |
| TGTGAGCCTAAGAAGTTTGG+TGG | 0.558448 | 3_4:-126366 | Msa0483390:CDS |
| GACCGCGACCTCTCTTGCAG+TGG | 0.558828 | 3_4:+126676 | None:intergenic |
| ACCCACTGCAAGAGAGGTCG+CGG | 0.562945 | 3_4:-126678 | Msa0483390:CDS |
| CATTCGTCAGAGTATTGCTA+AGG | 0.576627 | 3_4:-126496 | Msa0483390:CDS |
| TGATATGAGGATCCGTGTGA+AGG | 0.579448 | 3_4:-126547 | Msa0483390:CDS |
| GCGGTAACCCACTGCAAGAG+AGG | 0.580471 | 3_4:-126684 | Msa0483390:CDS |
| TTCTTAGGCTCACAGCGTCT+AGG | 0.590494 | 3_4:+126375 | None:intergenic |
| TGTCTTCCGAGAAGGAGGAT+TGG | 0.592227 | 3_4:+126585 | None:intergenic |
| GATATGAGGATCCGTGTGAA+GGG | 0.594162 | 3_4:-126546 | Msa0483390:CDS |
| CTTGCAGTGGGTTACCGCAA+CGG | 0.599991 | 3_4:+126689 | None:intergenic |
| ACCGCGACCTCTCTTGCAGT+GGG | 0.603590 | 3_4:+126677 | None:intergenic |
| CGCGGTCTGATCAAGATCAA+CGG | 0.609302 | 3_4:-126660 | Msa0483390:CDS |
| CTTAGCAATACTCTGACGAA+TGG | 0.614188 | 3_4:+126497 | None:intergenic |
| ATGAGGATCCGTGTGAAGGG+AGG | 0.615322 | 3_4:-126543 | Msa0483390:CDS |
| CGAAACGGTGTCTTCCGAGA+AGG | 0.622095 | 3_4:+126577 | None:intergenic |
| TGTGACCTCCTCCCTTCACA+CGG | 0.624846 | 3_4:+126535 | None:intergenic |
| CCGGAAGAAGAACGCCGTTG+CGG | 0.651449 | 3_4:-126703 | Msa0483390:CDS |
| ACGGATCCTCATATCAACGC+CGG | 0.685813 | 3_4:+126554 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACAGAGTAAGAAAGAGATTA+AGG | - | chr3_4:126613-126632 | Msa0483390:CDS | 30.0% | |
| ATGGAACAAGTGCAATGCTT+TGG | - | chr3_4:126326-126345 | Msa0483390:CDS | 40.0% | |
| CTTAGCAATACTCTGACGAA+TGG | + | chr3_4:126558-126577 | None:intergenic | 40.0% | |
| !! | CATTCGTCAGAGTATTGCTA+AGG | - | chr3_4:126556-126575 | Msa0483390:CDS | 40.0% |
| !! | TCAGAGTATTGCTAAGGCTT+TGG | - | chr3_4:126562-126581 | Msa0483390:CDS | 40.0% |
| AACAAGTGCAATGCTTTGGC+CGG | - | chr3_4:126330-126349 | Msa0483390:CDS | 45.0% | |
| GCCTGAGATTCTTCGTTTCA+AGG | - | chr3_4:126436-126455 | Msa0483390:CDS | 45.0% | |
| GCCTTGAAACGAAGAATCTC+AGG | + | chr3_4:126440-126459 | None:intergenic | 45.0% | |
| TACGAACCAATCCTCCTTCT+CGG | - | chr3_4:126461-126480 | Msa0483390:CDS | 45.0% | |
| TGATATGAGGATCCGTGTGA+AGG | - | chr3_4:126505-126524 | Msa0483390:CDS | 45.0% | |
| GATATGAGGATCCGTGTGAA+GGG | - | chr3_4:126506-126525 | Msa0483390:CDS | 45.0% | |
| TGTGAGCCTAAGAAGTTTGG+TGG | - | chr3_4:126686-126705 | Msa0483390:CDS | 45.0% | |
| CGCGGTCTGATCAAGATCAA+CGG | - | chr3_4:126392-126411 | Msa0483390:CDS | 50.0% | |
| TCAGGCTCAACCAGTTCGAT+TGG | + | chr3_4:126422-126441 | None:intergenic | 50.0% | |
| TGTCTTCCGAGAAGGAGGAT+TGG | + | chr3_4:126470-126489 | None:intergenic | 50.0% | |
| TCATATCAACGCCGGCGAAA+CGG | + | chr3_4:126493-126512 | None:intergenic | 50.0% | |
| ACGGATCCTCATATCAACGC+CGG | + | chr3_4:126501-126520 | None:intergenic | 50.0% | |
| TTCTTAGGCTCACAGCGTCT+AGG | + | chr3_4:126680-126699 | None:intergenic | 50.0% | |
| CGCTGTGAGCCTAAGAAGTT+TGG | - | chr3_4:126683-126702 | Msa0483390:CDS | 50.0% | |
| CCACGACCACCAAACTTCTT+AGG | + | chr3_4:126695-126714 | None:intergenic | 50.0% | |
| ! | CCTAAGAAGTTTGGTGGTCG+TGG | - | chr3_4:126692-126711 | Msa0483390:CDS | 50.0% |
| !! | CTTGCAGTGGGTTACCGCAA+CGG | + | chr3_4:126366-126385 | None:intergenic | 55.0% |
| CAACGGCTGTCCAATCGAAC+TGG | - | chr3_4:126409-126428 | Msa0483390:CDS | 55.0% | |
| AACGGTGTCTTCCGAGAAGG+AGG | + | chr3_4:126475-126494 | None:intergenic | 55.0% | |
| CGAAACGGTGTCTTCCGAGA+AGG | + | chr3_4:126478-126497 | None:intergenic | 55.0% | |
| !! | GTTTCGCCGGCGTTGATATG+AGG | - | chr3_4:126492-126511 | Msa0483390:CDS | 55.0% |
| ATGAGGATCCGTGTGAAGGG+AGG | - | chr3_4:126509-126528 | Msa0483390:CDS | 55.0% | |
| TGTGACCTCCTCCCTTCACA+CGG | + | chr3_4:126520-126539 | None:intergenic | 55.0% | |
| CCGCAACGGCGTTCTTCTTC+CGG | + | chr3_4:126352-126371 | None:intergenic | 60.0% | |
| CCGGAAGAAGAACGCCGTTG+CGG | - | chr3_4:126349-126368 | Msa0483390:CDS | 60.0% | |
| GCGGTAACCCACTGCAAGAG+AGG | - | chr3_4:126368-126387 | Msa0483390:CDS | 60.0% | |
| ACCCACTGCAAGAGAGGTCG+CGG | - | chr3_4:126374-126393 | Msa0483390:CDS | 60.0% | |
| ACCGCGACCTCTCTTGCAGT+GGG | + | chr3_4:126378-126397 | None:intergenic | 60.0% | |
| CTCGGAAGACACCGTTTCGC+CGG | - | chr3_4:126479-126498 | Msa0483390:CDS | 60.0% | |
| AGGATCCGTGTGAAGGGAGG+AGG | - | chr3_4:126512-126531 | Msa0483390:CDS | 60.0% | |
| GACCGCGACCTCTCTTGCAG+TGG | + | chr3_4:126379-126398 | None:intergenic | 65.0% | |
| GTGGTCGTGGTGCTCGTGCT+AGG | - | chr3_4:126705-126724 | Msa0483390:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 126326 | 126748 | 126326 | ID=Msa0483390;Name=Msa0483390 |
| chr3_4 | mRNA | 126326 | 126748 | 126326 | ID=Msa0483390-mRNA-1;Parent=Msa0483390;Name=Msa0483390-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|140 |
| chr3_4 | exon | 126326 | 126748 | 126326 | ID=Msa0483390-mRNA-1:exon:24;Parent=Msa0483390-mRNA-1 |
| chr3_4 | CDS | 126326 | 126748 | 126326 | ID=Msa0483390-mRNA-1:cds;Parent=Msa0483390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
