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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0086820 | XP_002510790.1 | 89.474 | 76 | 8 | 0 | 1 | 76 | 1 | 76 | 1.07e-34 | 125 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa0086820 | 0.871692 | 5.630218e-67 | -8.615850e-47 |
| Msa0001460 | Msa0086820 | 0.804212 | 2.407411e-49 | -8.615850e-47 |
| Msa0003470 | Msa0086820 | 0.815244 | 1.021175e-51 | -8.615850e-47 |
| Msa0005160 | Msa0086820 | 0.832725 | 8.025083e-56 | -8.615850e-47 |
| Msa0005690 | Msa0086820 | 0.808212 | 3.461123e-50 | -8.615850e-47 |
| Msa0006700 | Msa0086820 | 0.851452 | 8.795607e-61 | -8.615850e-47 |
| Msa0006820 | Msa0086820 | 0.828348 | 9.453090e-55 | -8.615850e-47 |
| Msa0007160 | Msa0086820 | 0.834661 | 2.634865e-56 | -8.615850e-47 |
| Msa0007230 | Msa0086820 | 0.836124 | 1.124297e-56 | -8.615850e-47 |
| Msa0008330 | Msa0086820 | 0.837781 | 4.245725e-57 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0086820 | MtrunA17_Chr1g0203261 | 100.000 | 73 | 0 | 0 | 1 | 73 | 1 | 73 | 6.74e-34 | 112 |
| Msa0086820 | MtrunA17_Chr6g0471211 | 87.671 | 73 | 9 | 0 | 4 | 76 | 3 | 75 | 4.46e-26 | 93.2 |
| Msa0086820 | MtrunA17_Chr8g0387471 | 52.113 | 71 | 33 | 1 | 5 | 75 | 3 | 72 | 8.43e-18 | 72.8 |
| Msa0086820 | MtrunA17_Chr6g0469651 | 50.704 | 71 | 34 | 1 | 3 | 73 | 1 | 70 | 3.09e-17 | 71.2 |
| Msa0086820 | MtrunA17_Chr6g0469541 | 45.333 | 75 | 40 | 1 | 5 | 79 | 3 | 76 | 1.33e-15 | 66.6 |
| Msa0086820 | MtrunA17_Chr6g0469671 | 47.297 | 74 | 38 | 1 | 3 | 76 | 1 | 73 | 6.02e-15 | 65.1 |
| Msa0086820 | MtrunA17_Chr7g0233181 | 44.000 | 75 | 41 | 1 | 5 | 79 | 3 | 76 | 2.86e-14 | 63.2 |
| Msa0086820 | MtrunA17_Chr1g0202561 | 47.945 | 73 | 37 | 1 | 3 | 75 | 1 | 72 | 3.69e-14 | 63.5 |
| Msa0086820 | MtrunA17_Chr6g0469571 | 47.826 | 69 | 35 | 1 | 5 | 73 | 3 | 70 | 4.81e-14 | 63.2 |
| Msa0086820 | MtrunA17_Chr1g0202541 | 47.945 | 73 | 37 | 1 | 3 | 75 | 1 | 72 | 5.21e-14 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0086820 | AT5G23760.1 | 86.301 | 73 | 10 | 0 | 4 | 76 | 3 | 75 | 3.57e-24 | 88.6 |
| Msa0086820 | AT5G23760.2 | 84.375 | 64 | 10 | 0 | 13 | 76 | 1 | 64 | 2.97e-18 | 73.2 |
| Msa0086820 | AT5G52740.1 | 47.887 | 71 | 34 | 2 | 3 | 73 | 1 | 68 | 4.50e-11 | 55.5 |
| Msa0086820 | AT1G01490.1 | 44.118 | 102 | 43 | 3 | 3 | 91 | 1 | 101 | 6.59e-11 | 56.2 |
| Msa0086820 | AT1G01490.2 | 44.118 | 102 | 43 | 3 | 3 | 91 | 1 | 101 | 6.59e-11 | 56.2 |
| Msa0086820 | AT1G01490.4 | 45.000 | 100 | 41 | 3 | 5 | 91 | 30 | 128 | 6.98e-11 | 56.6 |
Find 25 sgRNAs with CRISPR-Local
Find 126 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAAGGAAGATGAGAATGA+AGG | 0.549514 | 1_2:-67583241 | None:intergenic |
| AAGGTAGATATAATATCAGT+TGG | 0.509973 | 1_2:+67583957 | Msa0086820:CDS |
| AATGAAGGCTTGAGAAGTTG+TGG | 0.614445 | 1_2:-67583226 | None:intergenic |
| AATGGAACCAAAGTACATAA+AGG | 0.376879 | 1_2:+67584297 | Msa0086820:three_prime_UTR |
| ACAATATAAGGTAAGGCGTG+CGG | 0.680766 | 1_2:-67583195 | None:intergenic |
| ACTGGATCCATAGCAAAAGG+TGG | 0.684112 | 1_2:+67583645 | Msa0086820:intron |
| AGTGATAATATCTATGACTT+CGG | 0.540904 | 1_2:+67584193 | Msa0086820:three_prime_UTR |
| ATACCTGAGCCATTGTCACA+GGG | 0.655527 | 1_2:-67583278 | None:intergenic |
| ATAGAAAATGAATCTTAGTA+GGG | 0.499112 | 1_2:-67584269 | None:intergenic |
| ATAGCAAAAGGTGGTGTTAA+AGG | 0.319190 | 1_2:+67583654 | Msa0086820:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAAATGAATATATGCGCACA+TGG | - | chr1_2:67583363-67583382 | None:intergenic | 30.0% | |
| ATCTATCTCTTGAGGTTATA+AGG | + | chr1_2:67583499-67583518 | Msa0086820:intron | 30.0% | |
| ACATAAGAGGATAGAAAAAG+TGG | - | chr1_2:67583603-67583622 | None:intergenic | 30.0% | |
| CATATTGAGACAAACATAAG+AGG | - | chr1_2:67583616-67583635 | None:intergenic | 30.0% | |
| ATTCCATTAATGTGTTTCCA+GGG | - | chr1_2:67583801-67583820 | None:intergenic | 30.0% | |
| TATTCCATTAATGTGTTTCC+AGG | - | chr1_2:67583802-67583821 | None:intergenic | 30.0% | |
| AAATTCATCTGTGTAACTGT+TGG | + | chr1_2:67583822-67583841 | Msa0086820:intron | 30.0% | |
| GAACAGAAGTTAACAGTTAT+TGG | + | chr1_2:67583888-67583907 | Msa0086820:CDS | 30.0% | |
| AAAGAAGGAAGAGAAAAAAG+AGG | + | chr1_2:67584031-67584050 | Msa0086820:CDS | 30.0% | |
| ATGTCACAAAAATGGGTAAA+AGG | + | chr1_2:67584230-67584249 | Msa0086820:three_prime_UTR | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 67583150 | 67584320 | 67583150 | ID=Msa0086820;Name=Msa0086820 |
| chr1_2 | mRNA | 67583150 | 67584320 | 67583150 | ID=Msa0086820-mRNA-1;Parent=Msa0086820;Name=Msa0086820-mRNA-1;_AED=0.18;_eAED=0.18;_QI=138|1|1|1|1|1|3|244|102 |
| chr1_2 | exon | 67583150 | 67583296 | 67583150 | ID=Msa0086820-mRNA-1:exon:22943;Parent=Msa0086820-mRNA-1 |
| chr1_2 | exon | 67583658 | 67583739 | 67583658 | ID=Msa0086820-mRNA-1:exon:22944;Parent=Msa0086820-mRNA-1 |
| chr1_2 | exon | 67583859 | 67584320 | 67583859 | ID=Msa0086820-mRNA-1:exon:22945;Parent=Msa0086820-mRNA-1 |
| chr1_2 | five_prime_UTR | 67583150 | 67583287 | 67583150 | ID=Msa0086820-mRNA-1:five_prime_utr;Parent=Msa0086820-mRNA-1 |
| chr1_2 | CDS | 67583288 | 67583296 | 67583288 | ID=Msa0086820-mRNA-1:cds;Parent=Msa0086820-mRNA-1 |
| chr1_2 | CDS | 67583658 | 67583739 | 67583658 | ID=Msa0086820-mRNA-1:cds;Parent=Msa0086820-mRNA-1 |
| chr1_2 | CDS | 67583859 | 67584076 | 67583859 | ID=Msa0086820-mRNA-1:cds;Parent=Msa0086820-mRNA-1 |
| chr1_2 | three_prime_UTR | 67584077 | 67584320 | 67584077 | ID=Msa0086820-mRNA-1:three_prime_utr;Parent=Msa0086820-mRNA-1 |
| Gene Sequence |
>Msa0086820 ATGGCTCAGCAAAAGGTGGTGTTAAAGGTTCTCACTATGACAGATGACAAAACAAAGAAGAAAGCAATAGAAGCAGTTGCTGATATCTATGGAGTTGATTCAATCGCTACAGATGTGAACGAACAGAAGTTAACAGTTATTGGCGAAATGGATACAGTTGCAGTAGTGAAGAAGCTGAAGAAAGTAGGGAAGGTAGATATAATATCAGTTGGACCTGCCAAAGAAGAGAAAAAAGAAGAAAAGAAAGACGAAAGTAAAGACGAAAAGAAGGAAGAGAAAAAAGAGGAGAAACAAGAGGAGAAAAAATAA |
| Protein sequence |
>Msa0086820 MAQQKVVLKVLTMTDDKTKKKAIEAVADIYGVDSIATDVNEQKLTVIGEMDTVAVVKKLKKVGKVDIISVGPAKEEKKEEKKDESKDEKKEEKKEEKQEEKK* |
