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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0636210 | KEH21961.1 | 88.889 | 81 | 4 | 2 | 1 | 79 | 1 | 78 | 3.49e-42 | 142 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0636210 | Msa1114670 | 0.811031 | 8.577954e-51 | -8.615850e-47 |
| Msa0636210 | Msa1159170 | 0.836240 | 1.050885e-56 | -8.615850e-47 |
| Msa0636210 | Msa1173030 | 0.800129 | 1.665488e-48 | -8.615850e-47 |
| Msa0636210 | Msa1306830 | 0.817780 | 2.761125e-52 | -8.615850e-47 |
| Msa0490320 | Msa0636210 | 0.811399 | 7.137029e-51 | -8.615850e-47 |
| Msa0577490 | Msa0636210 | 0.821218 | 4.538833e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0636210 | MtrunA17_Chr4g0018931 | 88.889 | 81 | 4 | 2 | 1 | 79 | 1 | 78 | 3.21e-46 | 142 |
| Msa0636210 | MtrunA17_Chr4g0018981 | 58.025 | 81 | 29 | 3 | 1 | 79 | 1 | 78 | 2.61e-25 | 89.4 |
| Msa0636210 | MtrunA17_Chr4g0018961 | 57.500 | 80 | 26 | 3 | 1 | 78 | 1 | 74 | 5.17e-22 | 80.9 |
| Msa0636210 | MtrunA17_Chr8g0368881 | 44.828 | 87 | 37 | 4 | 1 | 79 | 1 | 84 | 5.04e-19 | 73.6 |
| Msa0636210 | MtrunA17_Chr4g0018971 | 47.500 | 80 | 35 | 2 | 1 | 78 | 1 | 75 | 5.45e-18 | 70.9 |
| Msa0636210 | MtrunA17_Chr4g0019351 | 48.454 | 97 | 31 | 5 | 1 | 79 | 1 | 96 | 3.15e-17 | 69.3 |
| Msa0636210 | MtrunA17_Chr4g0019341 | 46.392 | 97 | 33 | 5 | 1 | 79 | 1 | 96 | 8.30e-16 | 65.9 |
| Msa0636210 | MtrunA17_Chr4g0019361 | 48.148 | 81 | 33 | 4 | 1 | 79 | 1 | 74 | 4.31e-14 | 60.8 |
| Msa0636210 | MtrunA17_Chr4g0019021 | 34.862 | 109 | 37 | 4 | 1 | 79 | 1 | 105 | 6.74e-13 | 58.5 |
| Msa0636210 | MtrunA17_Chr4g0019001 | 42.353 | 85 | 29 | 4 | 1 | 79 | 1 | 71 | 5.22e-12 | 55.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAAGAGGTTCTTCCTGATT+TGG | 0.180359 | 4_3:-26068916 | Msa0636210:CDS |
| AAAGAGGTTCTTCCTGATTT+GGG | 0.189247 | 4_3:-26068915 | Msa0636210:CDS |
| TTAGGAATGTTCCTTGCTAA+TGG | 0.339346 | 4_3:+26068854 | None:intergenic |
| ATAAACGACCTCCATGTAAG+AGG | 0.390335 | 4_3:-26068648 | Msa0636210:CDS |
| AATGTTCCTTGCTAATGGTT+TGG | 0.440893 | 4_3:+26068859 | None:intergenic |
| GAGTAGAATTCAGAAACATT+AGG | 0.446823 | 4_3:+26068836 | None:intergenic |
| TTTATAGGTACAGATGAAAT+GGG | 0.471148 | 4_3:-26068700 | Msa0636210:intron |
| CAACGACAGATCATAAATAG+TGG | 0.477636 | 4_3:+26068572 | None:intergenic |
| GGCCTGAATAAAAGATTCCT+TGG | 0.490941 | 4_3:-26068679 | Msa0636210:CDS |
| AAGAGGTTCTTCCTGATTTG+GGG | 0.498672 | 4_3:-26068914 | Msa0636210:CDS |
| GTCACTCTTCCCCTCTTACA+TGG | 0.500156 | 4_3:+26068637 | None:intergenic |
| AATGTTTCTGAATTCTACTC+AGG | 0.526561 | 4_3:-26068833 | Msa0636210:intron |
| TAAACGACCTCCATGTAAGA+GGG | 0.529284 | 4_3:-26068647 | Msa0636210:CDS |
| GGTGGCAACGTGGATCGTCT+TGG | 0.539020 | 4_3:+26068593 | None:intergenic |
| AGAGGTTCTTCCTGATTTGG+GGG | 0.555110 | 4_3:-26068913 | Msa0636210:CDS |
| GAGGTTCTTCCTGATTTGGG+GGG | 0.570585 | 4_3:-26068912 | Msa0636210:CDS |
| CAAGAATAATGTCTTCAAAG+AGG | 0.574431 | 4_3:-26068931 | None:intergenic |
| TCTCTACCAAACCATTAGCA+AGG | 0.604894 | 4_3:-26068865 | Msa0636210:CDS |
| CATAAATAGTGGTGGCAACG+TGG | 0.618181 | 4_3:+26068583 | None:intergenic |
| CGACAGATCATAAATAGTGG+TGG | 0.638273 | 4_3:+26068575 | None:intergenic |
| AAACGACCTCCATGTAAGAG+GGG | 0.659696 | 4_3:-26068646 | Msa0636210:CDS |
| ACTCTTCCCCTCTTACATGG+AGG | 0.718143 | 4_3:+26068640 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATAATTTAATTATTTTAT+AGG | - | chr4_3:26068718-26068737 | Msa0636210:intron | 0.0% |
| !!! | TATTTTCATTTAGACAATTA+TGG | - | chr4_3:26068662-26068681 | Msa0636210:CDS | 15.0% |
| !! | TTTTATAGGTACAGATGAAA+TGG | - | chr4_3:26068732-26068751 | Msa0636210:intron | 25.0% |
| ! | TTTATAGGTACAGATGAAAT+GGG | - | chr4_3:26068733-26068752 | Msa0636210:intron | 25.0% |
| GAGTAGAATTCAGAAACATT+AGG | + | chr4_3:26068600-26068619 | None:intergenic | 30.0% | |
| ! | AATGTTTCTGAATTCTACTC+AGG | - | chr4_3:26068600-26068619 | Msa0636210:CDS | 30.0% |
| TGATCTGTCGTTGAAAAATA+TGG | - | chr4_3:26068871-26068890 | Msa0636210:CDS | 30.0% | |
| AAAGAGGTTCTTCCTGATTT+GGG | - | chr4_3:26068518-26068537 | Msa0636210:three_prime_UTR | 35.0% | |
| AATGTTCCTTGCTAATGGTT+TGG | + | chr4_3:26068577-26068596 | None:intergenic | 35.0% | |
| TTAGGAATGTTCCTTGCTAA+TGG | + | chr4_3:26068582-26068601 | None:intergenic | 35.0% | |
| ! | GACCAAGGAATCTTTTATTC+AGG | + | chr4_3:26068759-26068778 | None:intergenic | 35.0% |
| !! | GTCGTTTATTTTCTTGACCA+AGG | + | chr4_3:26068774-26068793 | None:intergenic | 35.0% |
| CAACGACAGATCATAAATAG+TGG | + | chr4_3:26068864-26068883 | None:intergenic | 35.0% | |
| CAAAGAGGTTCTTCCTGATT+TGG | - | chr4_3:26068517-26068536 | Msa0636210:three_prime_UTR | 40.0% | |
| ! | AAGAGGTTCTTCCTGATTTG+GGG | - | chr4_3:26068519-26068538 | Msa0636210:three_prime_UTR | 40.0% |
| TCTCTACCAAACCATTAGCA+AGG | - | chr4_3:26068568-26068587 | Msa0636210:exon | 40.0% | |
| GGCCTGAATAAAAGATTCCT+TGG | - | chr4_3:26068754-26068773 | Msa0636210:intron | 40.0% | |
| ATAAACGACCTCCATGTAAG+AGG | - | chr4_3:26068785-26068804 | Msa0636210:intron | 40.0% | |
| TAAACGACCTCCATGTAAGA+GGG | - | chr4_3:26068786-26068805 | Msa0636210:intron | 40.0% | |
| CGACAGATCATAAATAGTGG+TGG | + | chr4_3:26068861-26068880 | None:intergenic | 40.0% | |
| !! | AGAGGTTCTTCCTGATTTGG+GGG | - | chr4_3:26068520-26068539 | Msa0636210:three_prime_UTR | 45.0% |
| AAACGACCTCCATGTAAGAG+GGG | - | chr4_3:26068787-26068806 | Msa0636210:intron | 45.0% | |
| CATAAATAGTGGTGGCAACG+TGG | + | chr4_3:26068853-26068872 | None:intergenic | 45.0% | |
| !! | TAATTAAATTATAAAATACA+AGG | + | chr4_3:26068712-26068731 | None:intergenic | 5.0% |
| !! | GAGGTTCTTCCTGATTTGGG+GGG | - | chr4_3:26068521-26068540 | Msa0636210:three_prime_UTR | 50.0% |
| GAAAGAGAACCCCCCAAATC+AGG | + | chr4_3:26068533-26068552 | None:intergenic | 50.0% | |
| ACTCTTCCCCTCTTACATGG+AGG | + | chr4_3:26068796-26068815 | None:intergenic | 50.0% | |
| GTCACTCTTCCCCTCTTACA+TGG | + | chr4_3:26068799-26068818 | None:intergenic | 50.0% | |
| GGTGGCAACGTGGATCGTCT+TGG | + | chr4_3:26068843-26068862 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 26068510 | 26068945 | 26068510 | ID=Msa0636210;Name=Msa0636210 |
| chr4_3 | mRNA | 26068510 | 26068945 | 26068510 | ID=Msa0636210-mRNA-1;Parent=Msa0636210;Name=Msa0636210-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|1|0.5|1|0|0.5|2|72|79 |
| chr4_3 | exon | 26068510 | 26068709 | 26068510 | ID=Msa0636210-mRNA-1:exon:6590;Parent=Msa0636210-mRNA-1 |
| chr4_3 | exon | 26068834 | 26068945 | 26068834 | ID=Msa0636210-mRNA-1:exon:6589;Parent=Msa0636210-mRNA-1 |
| chr4_3 | CDS | 26068834 | 26068945 | 26068834 | ID=Msa0636210-mRNA-1:cds;Parent=Msa0636210-mRNA-1 |
| chr4_3 | CDS | 26068582 | 26068709 | 26068582 | ID=Msa0636210-mRNA-1:cds;Parent=Msa0636210-mRNA-1 |
| chr4_3 | three_prime_UTR | 26068510 | 26068581 | 26068510 | ID=Msa0636210-mRNA-1:three_prime_utr;Parent=Msa0636210-mRNA-1 |
| Gene Sequence |
| Protein sequence |
