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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0291900 | XP_027929706.1 | 76.250 | 80 | 17 | 1 | 1 | 78 | 1 | 80 | 1.50e-36 | 127 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0291900 | sp|Q9SKX9|CSTM6_ARATH | 57.895 | 57 | 20 | 2 | 22 | 78 | 19 | 71 | 2.09e-15 | 67.0 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0291900 | A0A4D6NCS9 | 76.250 | 80 | 17 | 1 | 1 | 78 | 1 | 80 | 7.16e-37 | 127 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0029010 | Msa0291900 | 0.803279 | 3.760359e-49 | -8.615850e-47 |
| Msa0207260 | Msa0291900 | 0.843181 | 1.641312e-58 | -8.615850e-47 |
| Msa0253120 | Msa0291900 | 0.945174 | 4.998894e-104 | -8.615850e-47 |
| Msa0291900 | Msa0291920 | 0.896237 | 4.471176e-76 | -8.615850e-47 |
| Msa0291900 | Msa0329880 | 0.861968 | 7.063186e-64 | -8.615850e-47 |
| Msa0291900 | Msa0481740 | 0.866045 | 3.799590e-65 | -8.615850e-47 |
| Msa0291900 | Msa0481770 | 0.838608 | 2.598745e-57 | -8.615850e-47 |
| Msa0291900 | Msa0935830 | 0.821114 | 4.796121e-53 | -8.615850e-47 |
| Msa0291900 | Msa0973000 | 0.824299 | 8.704292e-54 | -8.615850e-47 |
| Msa0291900 | Msa1080650 | 0.860582 | 1.867788e-63 | -8.615850e-47 |
| Msa0291900 | Msa1126440 | 0.863654 | 2.133297e-64 | -8.615850e-47 |
| Msa0291900 | Msa1453600 | 0.826243 | 3.018967e-54 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0291900 | MtrunA17_Chr2g0312051 | 87.179 | 78 | 8 | 1 | 1 | 78 | 1 | 76 | 1.82e-36 | 117 |
| Msa0291900 | MtrunA17_Chr1g0166081 | 78.481 | 79 | 16 | 1 | 1 | 78 | 1 | 79 | 8.75e-35 | 113 |
| Msa0291900 | MtrunA17_Chr5g0417951 | 77.215 | 79 | 17 | 1 | 1 | 78 | 1 | 79 | 3.23e-34 | 111 |
| Msa0291900 | MtrunA17_Chr4g0048281 | 83.750 | 80 | 11 | 2 | 1 | 78 | 1 | 80 | 6.44e-32 | 105 |
| Msa0291900 | MtrunA17_Chr2g0312011 | 55.556 | 63 | 20 | 3 | 1 | 62 | 1 | 56 | 7.78e-14 | 60.1 |
| Msa0291900 | MtrunA17_Chr2g0312031 | 86.842 | 38 | 5 | 0 | 41 | 78 | 17 | 54 | 3.47e-11 | 52.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0291900 | AT2G32210.1 | 57.895 | 57 | 20 | 2 | 22 | 78 | 19 | 71 | 2.12e-16 | 67.0 |
| Msa0291900 | AT2G32190.1 | 57.895 | 57 | 20 | 2 | 22 | 78 | 19 | 71 | 2.20e-16 | 67.0 |
| Msa0291900 | AT2G32200.2 | 48.333 | 60 | 24 | 3 | 22 | 78 | 53 | 108 | 6.61e-12 | 56.6 |
| Msa0291900 | AT2G32200.1 | 48.333 | 60 | 24 | 3 | 22 | 78 | 19 | 74 | 9.82e-12 | 55.1 |
| Msa0291900 | AT1G56060.2 | 53.571 | 56 | 20 | 3 | 26 | 78 | 19 | 71 | 6.43e-11 | 53.1 |
Find 32 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTTGTGGTGGATATGATAC+TGG | 0.314872 | 2_3:-40637233 | None:intergenic |
| CAAGGTGCGGCTTATTCTTC+AGG | 0.360974 | 2_3:+40637251 | Msa0291900:CDS |
| TGTAACTGCCCCACCACCTA+TGG | 0.386713 | 2_3:+40637280 | Msa0291900:CDS |
| CCCCTGGATGTAGTCTGGTC+TGG | 0.437327 | 2_3:-40637350 | None:intergenic |
| CTTGTGGTGGATATGATACT+GGG | 0.443742 | 2_3:-40637232 | None:intergenic |
| GGTCTGGAATCCTTTGTTGA+GGG | 0.462481 | 2_3:-40637334 | None:intergenic |
| TAACTTAAAAGCAAATATCA+AGG | 0.472631 | 2_3:-40637421 | None:intergenic |
| CATCACCCCTGGATGTAGTC+TGG | 0.478425 | 2_3:-40637355 | None:intergenic |
| GGTGGTGGGGCAGTTACATA+TGG | 0.492370 | 2_3:-40637275 | None:intergenic |
| GAAGGATAACCCATAGGTGG+TGG | 0.499225 | 2_3:-40637290 | None:intergenic |
| CCTTCCAAGGATAGCTCTGA+AGG | 0.509331 | 2_3:+40637308 | Msa0291900:CDS |
| GTACCCTTCAGAGCTATCCT+TGG | 0.526753 | 2_3:-40637312 | None:intergenic |
| TGGTCTGGAATCCTTTGTTG+AGG | 0.548204 | 2_3:-40637335 | None:intergenic |
| TTCCAGACCAGACTACATCC+AGG | 0.550841 | 2_3:+40637348 | Msa0291900:CDS |
| AAGGATAACCCATAGGTGGT+GGG | 0.565440 | 2_3:-40637289 | None:intergenic |
| GTAACTGCCCCACCACCTAT+GGG | 0.572378 | 2_3:+40637281 | Msa0291900:CDS |
| CAGACTACATCCAGGGGTGA+TGG | 0.573015 | 2_3:+40637356 | Msa0291900:CDS |
| ACCTATGGGTTATCCTTCCA+AGG | 0.583023 | 2_3:+40637295 | Msa0291900:CDS |
| GAATAAGCCGCACCTTGTGG+TGG | 0.586223 | 2_3:-40637245 | None:intergenic |
| CCTTCAGAGCTATCCTTGGA+AGG | 0.595376 | 2_3:-40637308 | None:intergenic |
| GAAGAATAAGCCGCACCTTG+TGG | 0.599730 | 2_3:-40637248 | None:intergenic |
| ATCATATCCACCACAAGGTG+CGG | 0.605203 | 2_3:+40637238 | Msa0291900:CDS |
| AGGATAACCCATAGGTGGTG+GGG | 0.605641 | 2_3:-40637288 | None:intergenic |
| TCCAGACCAGACTACATCCA+GGG | 0.615949 | 2_3:+40637349 | Msa0291900:CDS |
| AACTTAAAAGCAAATATCAA+GGG | 0.622606 | 2_3:-40637420 | None:intergenic |
| CTTCCAAGGATAGCTCTGAA+GGG | 0.626012 | 2_3:+40637309 | Msa0291900:CDS |
| CCAGTATCATATCCACCACA+AGG | 0.655076 | 2_3:+40637233 | Msa0291900:CDS |
| CTGAAGGGTACCCTCAACAA+AGG | 0.674821 | 2_3:+40637324 | Msa0291900:CDS |
| TTGGAAGGATAACCCATAGG+TGG | 0.675232 | 2_3:-40637293 | None:intergenic |
| TCCTTGGAAGGATAACCCAT+AGG | 0.680712 | 2_3:-40637296 | None:intergenic |
| TTGTGGTGGATATGATACTG+GGG | 0.688601 | 2_3:-40637231 | None:intergenic |
| CCAGACCAGACTACATCCAG+GGG | 0.729280 | 2_3:+40637350 | Msa0291900:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTGTGGTGGATATGATACTG+GGG | - | chr2_3:40637234-40637253 | None:intergenic | 40.0% |
| !! | CTTGTGGTGGATATGATACT+GGG | - | chr2_3:40637235-40637254 | None:intergenic | 40.0% |
| !! | CCTTGTGGTGGATATGATAC+TGG | - | chr2_3:40637236-40637255 | None:intergenic | 45.0% |
| CCAGTATCATATCCACCACA+AGG | + | chr2_3:40637233-40637252 | Msa0291900:CDS | 45.0% | |
| ATCATATCCACCACAAGGTG+CGG | + | chr2_3:40637238-40637257 | Msa0291900:CDS | 45.0% | |
| AAGGATAACCCATAGGTGGT+GGG | - | chr2_3:40637292-40637311 | None:intergenic | 45.0% | |
| TTGGAAGGATAACCCATAGG+TGG | - | chr2_3:40637296-40637315 | None:intergenic | 45.0% | |
| ! | ACCTATGGGTTATCCTTCCA+AGG | + | chr2_3:40637295-40637314 | Msa0291900:CDS | 45.0% |
| TCCTTGGAAGGATAACCCAT+AGG | - | chr2_3:40637299-40637318 | None:intergenic | 45.0% | |
| !! | CTTCCAAGGATAGCTCTGAA+GGG | + | chr2_3:40637309-40637328 | Msa0291900:CDS | 45.0% |
| ! | GGTCTGGAATCCTTTGTTGA+GGG | - | chr2_3:40637337-40637356 | None:intergenic | 45.0% |
| ! | TGGTCTGGAATCCTTTGTTG+AGG | - | chr2_3:40637338-40637357 | None:intergenic | 45.0% |
| !! | AGGGGTGATGGTTTTTGGAA+GGG | + | chr2_3:40637368-40637387 | Msa0291900:CDS | 45.0% |
| GAAGAATAAGCCGCACCTTG+TGG | - | chr2_3:40637251-40637270 | None:intergenic | 50.0% | |
| CAAGGTGCGGCTTATTCTTC+AGG | + | chr2_3:40637251-40637270 | Msa0291900:CDS | 50.0% | |
| AGGATAACCCATAGGTGGTG+GGG | - | chr2_3:40637291-40637310 | None:intergenic | 50.0% | |
| GAAGGATAACCCATAGGTGG+TGG | - | chr2_3:40637293-40637312 | None:intergenic | 50.0% | |
| CCTTCAGAGCTATCCTTGGA+AGG | - | chr2_3:40637311-40637330 | None:intergenic | 50.0% | |
| !! | CCTTCCAAGGATAGCTCTGA+AGG | + | chr2_3:40637308-40637327 | Msa0291900:CDS | 50.0% |
| GTACCCTTCAGAGCTATCCT+TGG | - | chr2_3:40637315-40637334 | None:intergenic | 50.0% | |
| !! | CTGAAGGGTACCCTCAACAA+AGG | + | chr2_3:40637324-40637343 | Msa0291900:CDS | 50.0% |
| TTCCAGACCAGACTACATCC+AGG | + | chr2_3:40637348-40637367 | Msa0291900:CDS | 50.0% | |
| TCCAGACCAGACTACATCCA+GGG | + | chr2_3:40637349-40637368 | Msa0291900:CDS | 50.0% | |
| !! | CATCCAGGGGTGATGGTTTT+TGG | + | chr2_3:40637363-40637382 | Msa0291900:CDS | 50.0% |
| CTTCCAAAAACCATCACCCC+TGG | - | chr2_3:40637369-40637388 | None:intergenic | 50.0% | |
| !! | CAGGGGTGATGGTTTTTGGA+AGG | + | chr2_3:40637367-40637386 | Msa0291900:CDS | 50.0% |
| GAATAAGCCGCACCTTGTGG+TGG | - | chr2_3:40637248-40637267 | None:intergenic | 55.0% | |
| !! | GGTGGTGGGGCAGTTACATA+TGG | - | chr2_3:40637278-40637297 | None:intergenic | 55.0% |
| TGTAACTGCCCCACCACCTA+TGG | + | chr2_3:40637280-40637299 | Msa0291900:CDS | 55.0% | |
| GTAACTGCCCCACCACCTAT+GGG | + | chr2_3:40637281-40637300 | Msa0291900:CDS | 55.0% | |
| CCAGACCAGACTACATCCAG+GGG | + | chr2_3:40637350-40637369 | Msa0291900:CDS | 55.0% | |
| CATCACCCCTGGATGTAGTC+TGG | - | chr2_3:40637358-40637377 | None:intergenic | 55.0% | |
| CAGACTACATCCAGGGGTGA+TGG | + | chr2_3:40637356-40637375 | Msa0291900:CDS | 55.0% | |
| CCCCTGGATGTAGTCTGGTC+TGG | - | chr2_3:40637353-40637372 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 40637203 | 40637439 | 40637203 | ID=Msa0291900;Name=Msa0291900 |
| chr2_3 | mRNA | 40637203 | 40637439 | 40637203 | ID=Msa0291900-mRNA-1;Parent=Msa0291900;Name=Msa0291900-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|78 |
| chr2_3 | exon | 40637203 | 40637439 | 40637203 | ID=Msa0291900-mRNA-1:exon:13060;Parent=Msa0291900-mRNA-1 |
| chr2_3 | CDS | 40637203 | 40637439 | 40637203 | ID=Msa0291900-mRNA-1:cds;Parent=Msa0291900-mRNA-1 |
| Gene Sequence |
| Protein sequence |
