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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0070070 | XP_013467834.1 | 92.857 | 84 | 6 | 0 | 1 | 84 | 1 | 84 | 1.68e-32 | 127 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0070070 | sp|Q9M069|E137_ARATH | 45.312 | 64 | 35 | 0 | 21 | 84 | 9 | 72 | 5.11e-13 | 65.9 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0070070 | A0A072VJW6 | 92.857 | 84 | 6 | 0 | 1 | 84 | 1 | 84 | 8.03e-33 | 127 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0070070 | Msa1003340 | 0.809318 | 2.007982e-50 | -8.615850e-47 |
| Msa0070070 | Msa1046440 | 0.807288 | 5.439216e-50 | -8.615850e-47 |
| Msa0070070 | Msa1366550 | 0.802420 | 5.659454e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0070070 | MtrunA17_Chr1g0177171 | 92.857 | 84 | 6 | 0 | 1 | 84 | 1 | 84 | 1.55e-36 | 127 |
| Msa0070070 | MtrunA17_Chr5g0439251 | 64.706 | 51 | 18 | 0 | 33 | 83 | 20 | 70 | 5.97e-17 | 73.6 |
| Msa0070070 | MtrunA17_Chr3g0119541 | 63.462 | 52 | 19 | 0 | 33 | 84 | 21 | 72 | 1.67e-16 | 72.0 |
| Msa0070070 | MtrunA17_Chr1g0189111 | 56.604 | 53 | 23 | 0 | 32 | 84 | 25 | 77 | 8.10e-15 | 67.4 |
| Msa0070070 | MtrunA17_Chr4g0003281 | 41.667 | 84 | 42 | 1 | 8 | 84 | 3 | 86 | 5.27e-13 | 62.4 |
| Msa0070070 | MtrunA17_Chr8g0339191 | 45.455 | 66 | 34 | 1 | 21 | 84 | 10 | 75 | 1.32e-12 | 61.2 |
| Msa0070070 | MtrunA17_Chr4g0064021 | 51.020 | 49 | 24 | 0 | 36 | 84 | 24 | 72 | 1.78e-12 | 60.8 |
| Msa0070070 | MtrunA17_Chr4g0043851 | 40.000 | 70 | 39 | 1 | 18 | 84 | 9 | 78 | 8.09e-12 | 58.9 |
| Msa0070070 | MtrunA17_Chr2g0321511 | 46.377 | 69 | 35 | 1 | 17 | 83 | 6 | 74 | 1.06e-11 | 58.5 |
| Msa0070070 | MtrunA17_Chr4g0034901 | 38.667 | 75 | 42 | 1 | 14 | 84 | 1 | 75 | 2.08e-11 | 57.8 |
| Msa0070070 | MtrunA17_Chr3g0144531 | 41.791 | 67 | 35 | 2 | 22 | 84 | 8 | 74 | 5.53e-11 | 56.6 |
| Msa0070070 | MtrunA17_Chr1g0148391 | 41.791 | 67 | 38 | 1 | 19 | 84 | 6 | 72 | 5.94e-11 | 56.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0070070 | AT5G55180.2 | 75.000 | 52 | 13 | 0 | 33 | 84 | 22 | 73 | 2.68e-21 | 86.3 |
| Msa0070070 | AT5G55180.1 | 75.000 | 52 | 13 | 0 | 33 | 84 | 22 | 73 | 3.20e-21 | 85.9 |
| Msa0070070 | AT4G26830.1 | 60.000 | 70 | 25 | 2 | 17 | 83 | 1 | 70 | 5.56e-20 | 82.4 |
| Msa0070070 | AT4G26830.2 | 65.385 | 52 | 18 | 0 | 32 | 83 | 23 | 74 | 3.24e-19 | 80.5 |
| Msa0070070 | AT2G05790.1 | 62.745 | 51 | 19 | 0 | 34 | 84 | 21 | 71 | 2.62e-16 | 72.0 |
| Msa0070070 | AT4G34480.1 | 45.312 | 64 | 35 | 0 | 21 | 84 | 9 | 72 | 5.20e-14 | 65.9 |
| Msa0070070 | AT4G34480.2 | 45.312 | 64 | 35 | 0 | 21 | 84 | 9 | 72 | 5.44e-14 | 65.5 |
| Msa0070070 | AT5G42100.1 | 50.847 | 59 | 29 | 0 | 26 | 84 | 15 | 73 | 4.36e-13 | 63.2 |
| Msa0070070 | AT5G42100.2 | 50.847 | 59 | 29 | 0 | 26 | 84 | 15 | 73 | 4.53e-13 | 63.2 |
| Msa0070070 | AT1G32860.1 | 52.083 | 48 | 23 | 0 | 37 | 84 | 28 | 75 | 4.90e-13 | 62.8 |
| Msa0070070 | AT2G26600.1 | 57.143 | 49 | 21 | 0 | 36 | 84 | 32 | 80 | 5.37e-13 | 62.8 |
| Msa0070070 | AT5G20330.1 | 44.118 | 68 | 32 | 1 | 19 | 80 | 9 | 76 | 1.15e-12 | 61.6 |
| Msa0070070 | AT4G18340.1 | 43.750 | 64 | 33 | 1 | 23 | 83 | 16 | 79 | 6.20e-12 | 59.7 |
| Msa0070070 | AT4G18340.2 | 43.750 | 64 | 33 | 1 | 23 | 83 | 16 | 79 | 6.84e-12 | 59.7 |
| Msa0070070 | AT5G24318.4 | 45.070 | 71 | 35 | 3 | 17 | 84 | 8 | 77 | 1.13e-11 | 58.9 |
| Msa0070070 | AT5G24318.2 | 45.070 | 71 | 35 | 3 | 17 | 84 | 8 | 77 | 1.29e-11 | 58.9 |
| Msa0070070 | AT5G24318.1 | 45.070 | 71 | 35 | 3 | 17 | 84 | 8 | 77 | 1.47e-11 | 58.5 |
| Msa0070070 | AT2G27500.2 | 54.348 | 46 | 21 | 0 | 38 | 83 | 29 | 74 | 1.60e-11 | 58.5 |
| Msa0070070 | AT2G27500.1 | 54.348 | 46 | 21 | 0 | 38 | 83 | 29 | 74 | 1.76e-11 | 58.5 |
| Msa0070070 | AT1G30080.1 | 51.064 | 47 | 23 | 0 | 37 | 83 | 35 | 81 | 2.29e-11 | 58.2 |
| Msa0070070 | AT3G15800.1 | 51.020 | 49 | 24 | 0 | 36 | 84 | 41 | 89 | 2.32e-11 | 58.2 |
| Msa0070070 | AT1G30080.2 | 51.064 | 47 | 23 | 0 | 37 | 83 | 35 | 81 | 2.40e-11 | 58.2 |
| Msa0070070 | AT5G42720.1 | 45.588 | 68 | 34 | 2 | 19 | 84 | 6 | 72 | 2.75e-11 | 57.8 |
| Msa0070070 | AT4G29360.1 | 44.615 | 65 | 34 | 1 | 22 | 84 | 9 | 73 | 7.35e-11 | 56.6 |
| Msa0070070 | AT5G56590.1 | 46.939 | 49 | 26 | 0 | 35 | 83 | 23 | 71 | 7.84e-11 | 56.6 |
Find 18 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGCATAGAGTGAGAGAAAA+AGG | 0.269205 | 1_2:-39569239 | None:intergenic |
| AAAAGCTCTACTACCTTTGA+TGG | 0.322339 | 1_2:-39569482 | None:intergenic |
| CGCCACCGTGTTAACCGCTT+TGG | 0.412897 | 1_2:+39569547 | Msa0070070:CDS |
| TCACTCTATGCTTCATCGTC+AGG | 0.418472 | 1_2:+39569249 | Msa0070070:CDS |
| ATGCAAAAGGAGCCATGTTA+TGG | 0.452264 | 1_2:-39569203 | None:intergenic |
| AAGAAGAATGAGAATGCAAA+AGG | 0.478035 | 1_2:-39569216 | None:intergenic |
| CTTTCAGAAGCAGGATCTAT+CGG | 0.499352 | 1_2:+39569422 | Msa0070070:intron |
| TTTATAGAGAGTGGGTGTAC+TGG | 0.503479 | 1_2:-39569107 | None:intergenic |
| CTACCTTTGATGGTGTTGGT+AGG | 0.530906 | 1_2:-39569472 | None:intergenic |
| TCTACTACCTTTGATGGTGT+TGG | 0.531152 | 1_2:-39569476 | None:intergenic |
| AGCGGTTAACACGGTGGCGT+CGG | 0.540177 | 1_2:-39569543 | None:intergenic |
| TAACCTACCAACACCATCAA+AGG | 0.573834 | 1_2:+39569469 | Msa0070070:CDS |
| TAGAGAGTGGGTGTACTGGT+CGG | 0.584512 | 1_2:-39569103 | None:intergenic |
| GGATCTATCGGAATCAACTA+CGG | 0.594084 | 1_2:+39569434 | Msa0070070:CDS |
| CGGTGTCGTAAAGCTTTACA+CGG | 0.619313 | 1_2:-39569523 | None:intergenic |
| GTTTGCCAAAGCGGTTAACA+CGG | 0.626215 | 1_2:-39569552 | None:intergenic |
| AAGAAAGCATCACCATAACA+TGG | 0.649180 | 1_2:+39569191 | Msa0070070:CDS |
| TGCCAAAGCGGTTAACACGG+TGG | 0.680941 | 1_2:-39569549 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATTTTCTTTTTCTTTGAA+GGG | - | chr1_2:39569144-39569163 | None:intergenic | 15.0% |
| !!! | ATTATTTTCTTTTTCTTTGA+AGG | - | chr1_2:39569145-39569164 | None:intergenic | 15.0% |
| !! | ACAAAATAAAATAGAAAGAG+AGG | - | chr1_2:39569290-39569309 | None:intergenic | 20.0% |
| !!! | AAGTACAATTCAGTTGATAA+CGG | + | chr1_2:39569315-39569334 | Msa0070070:intron | 25.0% |
| !! | ATAGATCTATTTCTCACATT+AGG | + | chr1_2:39569344-39569363 | Msa0070070:intron | 25.0% |
| ! | GGTTATTTGACCTAAAAATA+TGG | + | chr1_2:39569365-39569384 | Msa0070070:intron | 25.0% |
| !! | ATCATGTCAACCATATTTTT+AGG | - | chr1_2:39569378-39569397 | None:intergenic | 25.0% |
| !! | GTGATGTTTTTATAGAGAGT+GGG | - | chr1_2:39569118-39569137 | None:intergenic | 30.0% |
| !! | TTTCTTTTTCTTTGAAGGGA+AGG | - | chr1_2:39569140-39569159 | None:intergenic | 30.0% |
| AAGAAGAATGAGAATGCAAA+AGG | - | chr1_2:39569219-39569238 | None:intergenic | 30.0% | |
| !! | GGTGATGTTTTTATAGAGAG+TGG | - | chr1_2:39569119-39569138 | None:intergenic | 35.0% |
| !! | AAGAAAGCATCACCATAACA+TGG | + | chr1_2:39569191-39569210 | Msa0070070:CDS | 35.0% |
| AAGCATAGAGTGAGAGAAAA+AGG | - | chr1_2:39569242-39569261 | None:intergenic | 35.0% | |
| ! | TTTTTCTCACTTTCAGAAGC+AGG | + | chr1_2:39569413-39569432 | Msa0070070:intron | 35.0% |
| AAAAGCTCTACTACCTTTGA+TGG | - | chr1_2:39569485-39569504 | None:intergenic | 35.0% | |
| TTTATAGAGAGTGGGTGTAC+TGG | - | chr1_2:39569110-39569129 | None:intergenic | 40.0% | |
| ATGCAAAAGGAGCCATGTTA+TGG | - | chr1_2:39569206-39569225 | None:intergenic | 40.0% | |
| CTTTCAGAAGCAGGATCTAT+CGG | + | chr1_2:39569422-39569441 | Msa0070070:intron | 40.0% | |
| GGATCTATCGGAATCAACTA+CGG | + | chr1_2:39569434-39569453 | Msa0070070:CDS | 40.0% | |
| TAACCTACCAACACCATCAA+AGG | + | chr1_2:39569469-39569488 | Msa0070070:CDS | 40.0% | |
| !! | TCTACTACCTTTGATGGTGT+TGG | - | chr1_2:39569479-39569498 | None:intergenic | 40.0% |
| !! | GTAGAGCTTTTGAAAGCACA+AGG | + | chr1_2:39569494-39569513 | Msa0070070:CDS | 40.0% |
| TCACTCTATGCTTCATCGTC+AGG | + | chr1_2:39569249-39569268 | Msa0070070:CDS | 45.0% | |
| !! | CTACCTTTGATGGTGTTGGT+AGG | - | chr1_2:39569475-39569494 | None:intergenic | 45.0% |
| !! | CGGTGTCGTAAAGCTTTACA+CGG | - | chr1_2:39569526-39569545 | None:intergenic | 45.0% |
| GTTTGCCAAAGCGGTTAACA+CGG | - | chr1_2:39569555-39569574 | None:intergenic | 45.0% | |
| TTAACCGCTTTGGCAAACTC+CGG | + | chr1_2:39569557-39569576 | Msa0070070:CDS | 45.0% | |
| TGCCAAAGCGGTTAACACGG+TGG | - | chr1_2:39569552-39569571 | None:intergenic | 55.0% | |
| AGCGGTTAACACGGTGGCGT+CGG | - | chr1_2:39569546-39569565 | None:intergenic | 60.0% | |
| CGCCACCGTGTTAACCGCTT+TGG | + | chr1_2:39569547-39569566 | Msa0070070:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 39569104 | 39569580 | 39569104 | ID=Msa0070070;Name=Msa0070070 |
| chr1_2 | mRNA | 39569104 | 39569580 | 39569104 | ID=Msa0070070-mRNA-1;Parent=Msa0070070;Name=Msa0070070-mRNA-1;_AED=0.00;_eAED=0.00;_QI=67|1|1|1|0|0|2|0|84 |
| chr1_2 | exon | 39569104 | 39569270 | 39569104 | ID=Msa0070070-mRNA-1:exon:12207;Parent=Msa0070070-mRNA-1 |
| chr1_2 | exon | 39569429 | 39569580 | 39569429 | ID=Msa0070070-mRNA-1:exon:12208;Parent=Msa0070070-mRNA-1 |
| chr1_2 | five_prime_UTR | 39569104 | 39569170 | 39569104 | ID=Msa0070070-mRNA-1:five_prime_utr;Parent=Msa0070070-mRNA-1 |
| chr1_2 | CDS | 39569171 | 39569270 | 39569171 | ID=Msa0070070-mRNA-1:cds;Parent=Msa0070070-mRNA-1 |
| chr1_2 | CDS | 39569429 | 39569580 | 39569429 | ID=Msa0070070-mRNA-1:cds;Parent=Msa0070070-mRNA-1 |
| Gene Sequence |
| Protein sequence |
