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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0743640 | XP_003617709.1 | 94.928 | 138 | 7 | 0 | 1 | 138 | 1 | 138 | 6.76e-75 | 229 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000490 | Msa0743640 | -0.808112 | 3.634480e-50 | -8.615850e-47 |
| Msa0001460 | Msa0743640 | 0.800240 | 1.581098e-48 | -8.615850e-47 |
| Msa0003470 | Msa0743640 | 0.857342 | 1.742665e-62 | -8.615850e-47 |
| Msa0004350 | Msa0743640 | 0.839054 | 1.993126e-57 | -8.615850e-47 |
| Msa0005160 | Msa0743640 | 0.811114 | 8.229351e-51 | -8.615850e-47 |
| Msa0006700 | Msa0743640 | 0.881370 | 2.538728e-70 | -8.615850e-47 |
| Msa0006820 | Msa0743640 | 0.860275 | 2.313814e-63 | -8.615850e-47 |
| Msa0007450 | Msa0743640 | 0.813499 | 2.482252e-51 | -8.615850e-47 |
| Msa0008850 | Msa0743640 | 0.910687 | 1.416547e-82 | -8.615850e-47 |
| Msa0011720 | Msa0743640 | 0.842183 | 3.021861e-58 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0743640 | MtrunA17_Chr5g0445481 | 94.928 | 138 | 7 | 0 | 1 | 138 | 1 | 138 | 6.22e-79 | 229 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0743640 | AT5G55570.1 | 53.957 | 139 | 62 | 1 | 1 | 137 | 4 | 142 | 1.33e-43 | 140 |
| Msa0743640 | AT5G55570.2 | 50.781 | 128 | 61 | 1 | 1 | 126 | 4 | 131 | 3.07e-33 | 114 |
Find 30 sgRNAs with CRISPR-Local
Find 138 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATGATAATATTAATGTG+TGG | 0.726976 | 5_1:-64123884 | Msa0743640:five_prime_UTR |
| AATATTAATGTGTGGCTGCG+TGG | 0.593450 | 5_1:-64123876 | Msa0743640:five_prime_UTR |
| ACAGATTCTATCTTCAATTA+AGG | 0.221668 | 5_1:+64122679 | None:intergenic |
| ACAGGTTCTTCTCACAGCTA+AGG | 0.604310 | 5_1:+64123648 | None:intergenic |
| ACATTATACATCTTTGTTTG+TGG | 0.390056 | 5_1:-64122764 | Msa0743640:three_prime_UTR |
| AGGAGCTGGATCAAGTACTG+TGG | 0.733109 | 5_1:+64123549 | None:intergenic |
| AGTACTTGATCCAGCTCCTG+TGG | 0.583148 | 5_1:-64123545 | Msa0743640:CDS |
| ATATTAATGTGTGGCTGCGT+GGG | 0.509460 | 5_1:-64123875 | Msa0743640:five_prime_UTR |
| ATCACATGGCAAATTGTGGT+TGG | 0.532719 | 5_1:-64123520 | Msa0743640:CDS |
| ATGTTGTACAATGCATTAAC+TGG | 0.373957 | 5_1:+64122783 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTTTAACTATTACCAAAGCT+AGG | - | chr5_1:64122725-64122744 | Msa0743640:three_prime_UTR | 30.0% | |
| CAACAACAAAAAGAAGAACA+AGG | - | chr5_1:64122821-64122840 | Msa0743640:CDS | 30.0% | |
| CTATTTGGAAAGGAAAAAAG+AGG | - | chr5_1:64123082-64123101 | Msa0743640:CDS | 30.0% | |
| CAAAAAAAATGTGAGATGTG+TGG | - | chr5_1:64123326-64123345 | Msa0743640:intron | 30.0% | |
| TCAATAAACATACCACATTC+TGG | + | chr5_1:64123395-64123414 | None:intergenic | 30.0% | |
| CATATGCTATATATTTCAGG+TGG | - | chr5_1:64123580-64123599 | Msa0743640:CDS | 30.0% | |
| ATGTTGTACAATGCATTAAC+TGG | + | chr5_1:64123641-64123660 | None:intergenic | 30.0% | |
| CTTTAACTATTACCAAAGCT+AGG | - | chr5_1:64122725-64122744 | Msa0743640:three_prime_UTR | 30.0% | |
| CAACAACAAAAAGAAGAACA+AGG | - | chr5_1:64122821-64122840 | Msa0743640:CDS | 30.0% | |
| CTATTTGGAAAGGAAAAAAG+AGG | - | chr5_1:64123082-64123101 | Msa0743640:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 64122535 | 64123908 | 64122535 | ID=Msa0743640;Name=Msa0743640 |
| chr5_1 | mRNA | 64122535 | 64123908 | 64122535 | ID=Msa0743640-mRNA-1;Parent=Msa0743640;Name=Msa0743640-mRNA-1;_AED=0.07;_eAED=0.07;_QI=159|1|1|1|1|1|4|263|138 |
| chr5_1 | exon | 64122535 | 64122844 | 64122535 | ID=Msa0743640-mRNA-1:exon:18974;Parent=Msa0743640-mRNA-1 |
| chr5_1 | exon | 64123042 | 64123123 | 64123042 | ID=Msa0743640-mRNA-1:exon:18973;Parent=Msa0743640-mRNA-1 |
| chr5_1 | exon | 64123219 | 64123268 | 64123219 | ID=Msa0743640-mRNA-1:exon:18972;Parent=Msa0743640-mRNA-1 |
| chr5_1 | exon | 64123512 | 64123908 | 64123512 | ID=Msa0743640-mRNA-1:exon:18971;Parent=Msa0743640-mRNA-1 |
| chr5_1 | five_prime_UTR | 64123750 | 64123908 | 64123750 | ID=Msa0743640-mRNA-1:five_prime_utr;Parent=Msa0743640-mRNA-1 |
| chr5_1 | CDS | 64123512 | 64123749 | 64123512 | ID=Msa0743640-mRNA-1:cds;Parent=Msa0743640-mRNA-1 |
| chr5_1 | CDS | 64123219 | 64123268 | 64123219 | ID=Msa0743640-mRNA-1:cds;Parent=Msa0743640-mRNA-1 |
| chr5_1 | CDS | 64123042 | 64123123 | 64123042 | ID=Msa0743640-mRNA-1:cds;Parent=Msa0743640-mRNA-1 |
| chr5_1 | CDS | 64122798 | 64122844 | 64122798 | ID=Msa0743640-mRNA-1:cds;Parent=Msa0743640-mRNA-1 |
| chr5_1 | three_prime_UTR | 64122535 | 64122797 | 64122535 | ID=Msa0743640-mRNA-1:three_prime_utr;Parent=Msa0743640-mRNA-1 |
| Gene Sequence |
>Msa0743640 ATGGAAGCTTTAGTTTGCTGTTCTCTGCCTTCTTTAACTATTACCAAAGCTAGGAACATAGTTACACATAATTGTTGTTCCTTAGCTGTGAGAAGAACCTGTGATTTTGGGGTTAAGAATGCAAGAACAACAACAAAAAGAAGAACAAGGGTAGGTGTTGTGTCTGTGAGTGATGTAACCACAGTACTTGATCCAGCTCCTGTGGAAATCACATGGCAAATTGTGGTTGGAACTATAGCTGGGATTACACCTTTTGTGGTGGCAGGGATTGAATTTAGCAAGAGAATTATTGCTCAAAAAAAATGTGAGATGTGTGGAGGATCAGGACTTGTTTTTAGGGATAAGAACTATTTTCGGTGTCCAGAATGTGGTGGATTTCTTCCTTGGCAATCCTGGAAAAGATTCTTCTCCAGTTAA |
| Protein sequence |
>Msa0743640 MEALVCCSLPSLTITKARNIVTHNCCSLAVRRTCDFGVKNARTTTKRRTRVGVVSVSDVTTVLDPAPVEITWQIVVGTIAGITPFVVAGIEFSKRIIAQKKCEMCGGSGLVFRDKNYFRCPECGGFLPWQSWKRFFSS* |
