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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1341000 | AES62696.1 | 50.495 | 101 | 50 | 0 | 3 | 103 | 2 | 102 | 1.03e-24 | 102 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1341000 | sp|Q9SRH9|SNL1_ARATH | 36.782 | 87 | 55 | 0 | 13 | 99 | 53 | 139 | 6.75e-12 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1341000 | G7IE26 | 50.495 | 101 | 50 | 0 | 3 | 103 | 2 | 102 | 4.91e-25 | 102 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1341000 | TR | Others |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1341000 | MtrunA17_Chr1g0205861 | 50.495 | 101 | 50 | 0 | 3 | 103 | 2 | 102 | 9.46e-29 | 102 |
| Msa1341000 | MtrunA17_Chr7g0256011 | 52.809 | 89 | 41 | 1 | 1 | 89 | 1 | 88 | 6.41e-22 | 85.1 |
| Msa1341000 | MtrunA17_Chr1g0206771 | 48.611 | 72 | 37 | 0 | 11 | 82 | 10 | 81 | 3.59e-16 | 72.0 |
| Msa1341000 | MtrunA17_Chr1g0206771 | 46.269 | 67 | 36 | 0 | 15 | 81 | 93 | 159 | 1.10e-12 | 62.8 |
| Msa1341000 | MtrunA17_Chr3g0077891 | 44.578 | 83 | 45 | 1 | 11 | 92 | 93 | 175 | 1.44e-15 | 70.1 |
| Msa1341000 | MtrunA17_Chr5g0415031 | 41.558 | 77 | 45 | 0 | 9 | 85 | 35 | 111 | 1.56e-14 | 70.1 |
| Msa1341000 | MtrunA17_Chr3g0077941 | 45.122 | 82 | 44 | 1 | 12 | 92 | 93 | 174 | 3.17e-14 | 66.6 |
| Msa1341000 | MtrunA17_Chr8g0364231 | 42.308 | 78 | 44 | 1 | 8 | 85 | 34 | 110 | 1.10e-13 | 67.8 |
| Msa1341000 | MtrunA17_Chr1g0206781 | 39.080 | 87 | 52 | 1 | 8 | 93 | 2 | 88 | 2.10e-13 | 63.2 |
| Msa1341000 | MtrunA17_Chr4g0075971 | 40.187 | 107 | 60 | 2 | 16 | 121 | 88 | 191 | 4.44e-13 | 65.9 |
| Msa1341000 | MtrunA17_Chr4g0075971 | 32.743 | 113 | 72 | 2 | 20 | 128 | 175 | 287 | 2.53e-11 | 60.8 |
| Msa1341000 | MtrunA17_Chr3g0077881 | 42.169 | 83 | 47 | 1 | 11 | 92 | 93 | 175 | 1.44e-12 | 62.4 |
| Msa1341000 | MtrunA17_Chr4g0075861 | 38.318 | 107 | 62 | 2 | 16 | 121 | 88 | 191 | 1.63e-12 | 63.9 |
| Msa1341000 | MtrunA17_Chr4g0075861 | 33.628 | 113 | 71 | 2 | 20 | 128 | 175 | 287 | 7.66e-12 | 62.0 |
| Msa1341000 | MtrunA17_Chr1g0205811 | 50.000 | 62 | 31 | 0 | 17 | 78 | 14 | 75 | 4.14e-12 | 59.7 |
| Msa1341000 | MtrunA17_Chr1g0205801 | 46.875 | 64 | 34 | 0 | 15 | 78 | 10 | 73 | 5.38e-12 | 59.3 |
| Msa1341000 | MtrunA17_Chr6g0452001 | 35.227 | 88 | 56 | 1 | 13 | 99 | 59 | 146 | 1.73e-11 | 61.2 |
| Msa1341000 | MtrunA17_Chr1g0205821 | 45.902 | 61 | 33 | 0 | 18 | 78 | 100 | 160 | 2.32e-11 | 58.9 |
| Msa1341000 | MtrunA17_Chr1g0205821 | 46.774 | 62 | 33 | 0 | 17 | 78 | 13 | 74 | 3.81e-11 | 58.5 |
| Msa1341000 | MtrunA17_Chr1g0205831 | 48.276 | 58 | 30 | 0 | 21 | 78 | 6 | 63 | 7.44e-11 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1341000 | AT3G01320.2 | 36.782 | 87 | 55 | 0 | 13 | 99 | 53 | 139 | 6.41e-13 | 65.9 |
| Msa1341000 | AT3G01320.1 | 36.782 | 87 | 55 | 0 | 13 | 99 | 53 | 139 | 6.86e-13 | 65.9 |
| Msa1341000 | AT1G70060.2 | 38.889 | 90 | 54 | 1 | 5 | 94 | 3 | 91 | 2.17e-12 | 64.3 |
| Msa1341000 | AT1G70060.1 | 38.889 | 90 | 54 | 1 | 5 | 94 | 3 | 91 | 2.17e-12 | 64.3 |
| Msa1341000 | AT1G24190.3 | 39.474 | 76 | 45 | 1 | 5 | 80 | 3 | 77 | 7.33e-12 | 62.8 |
| Msa1341000 | AT1G24190.2 | 39.474 | 76 | 45 | 1 | 5 | 80 | 3 | 77 | 7.84e-12 | 62.8 |
| Msa1341000 | AT1G24190.1 | 39.474 | 76 | 45 | 1 | 5 | 80 | 3 | 77 | 7.92e-12 | 62.8 |
| Msa1341000 | AT5G15040.1 | 42.188 | 64 | 37 | 0 | 15 | 78 | 1 | 64 | 2.00e-11 | 57.4 |
| Msa1341000 | AT5G15040.3 | 42.188 | 64 | 37 | 0 | 15 | 78 | 1 | 64 | 2.00e-11 | 57.4 |
| Msa1341000 | AT5G15040.2 | 42.188 | 64 | 37 | 0 | 15 | 78 | 1 | 64 | 2.00e-11 | 57.4 |
| Msa1341000 | AT1G27250.1 | 34.667 | 75 | 49 | 0 | 6 | 80 | 10 | 84 | 9.53e-11 | 57.0 |
Find 15 sgRNAs with CRISPR-Local
Find 18 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTCAAGCATTTGATTAAAT+TGG | 0.233339 | tig0004660:+15663 | None:intergenic |
| TAGAGATCTCTTTAGCATTA+AGG | 0.235668 | tig0004660:+15763 | None:intergenic |
| TGACCCTATTTGATCGAGTT+TGG | 0.318141 | tig0004660:+15610 | None:intergenic |
| ATTGCCAAACTCGATCAAAT+AGG | 0.324623 | tig0004660:-15614 | Msa1341000:CDS |
| AGTTGTGTTTCAAGATAAGA+TGG | 0.435039 | tig0004660:-15912 | Msa1341000:CDS |
| AAGCAAAACAGCACATCAAA+CGG | 0.452640 | tig0004660:-15712 | Msa1341000:CDS |
| TTGCCAAACTCGATCAAATA+GGG | 0.483923 | tig0004660:-15613 | Msa1341000:CDS |
| AGCAAAACAGCACATCAAAC+GGG | 0.507498 | tig0004660:-15711 | Msa1341000:CDS |
| CAAACGGGATCGATTCAAGT+TGG | 0.545140 | tig0004660:-15696 | Msa1341000:CDS |
| AAGGATTACAGTGGTGATGC+TGG | 0.561781 | tig0004660:-15986 | Msa1341000:CDS |
| ACGGGATCGATTCAAGTTGG+AGG | 0.593315 | tig0004660:-15693 | Msa1341000:CDS |
| AAAATGGAGGAGTTGTTCGA+TGG | 0.597043 | tig0004660:-15815 | Msa1341000:CDS |
| TCAGAAACTACTAAGCATGA+AGG | 0.638522 | tig0004660:-15963 | Msa1341000:CDS |
| GCAGAGAACATGAAGAAGCG+AGG | 0.677188 | tig0004660:-15551 | Msa1341000:CDS |
| CGACTGATGAAGGATTACAG+TGG | 0.795711 | tig0004660:-15995 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GAAAGTTTTGTATGATTTCA+AGG | - | tig0004660:15645-15664 | Msa1341000:CDS | 25.0% |
| ! | TGTCAAGCATTTGATTAAAT+TGG | + | tig0004660:15855-15874 | None:intergenic | 25.0% |
| AGTTGTGTTTCAAGATAAGA+TGG | - | tig0004660:15603-15622 | Msa1341000:CDS | 30.0% | |
| TAGAGATCTCTTTAGCATTA+AGG | + | tig0004660:15755-15774 | None:intergenic | 30.0% | |
| TCAGAAACTACTAAGCATGA+AGG | - | tig0004660:15552-15571 | Msa1341000:CDS | 35.0% | |
| AAGCAAAACAGCACATCAAA+CGG | - | tig0004660:15803-15822 | Msa1341000:CDS | 35.0% | |
| ATTGCCAAACTCGATCAAAT+AGG | - | tig0004660:15901-15920 | Msa1341000:CDS | 35.0% | |
| TTGCCAAACTCGATCAAATA+GGG | - | tig0004660:15902-15921 | Msa1341000:CDS | 35.0% | |
| !! | AGAAAGTGCCACAGCAAAAA+TGG | - | tig0004660:15684-15703 | Msa1341000:CDS | 40.0% |
| AAAATGGAGGAGTTGTTCGA+TGG | - | tig0004660:15700-15719 | Msa1341000:CDS | 40.0% | |
| AGCAAAACAGCACATCAAAC+GGG | - | tig0004660:15804-15823 | Msa1341000:CDS | 40.0% | |
| TGACCCTATTTGATCGAGTT+TGG | + | tig0004660:15908-15927 | None:intergenic | 40.0% | |
| ! | AAGGATTACAGTGGTGATGC+TGG | - | tig0004660:15529-15548 | Msa1341000:CDS | 45.0% |
| AAGTGCCACAGCAAAAATGG+AGG | - | tig0004660:15687-15706 | Msa1341000:CDS | 45.0% | |
| !! | CAACTCCTCCATTTTTGCTG+TGG | + | tig0004660:15695-15714 | None:intergenic | 45.0% |
| ! | CAAACGGGATCGATTCAAGT+TGG | - | tig0004660:15819-15838 | Msa1341000:CDS | 45.0% |
| !! | ACGGGATCGATTCAAGTTGG+AGG | - | tig0004660:15822-15841 | Msa1341000:CDS | 50.0% |
| GCAGAGAACATGAAGAAGCG+AGG | - | tig0004660:15964-15983 | Msa1341000:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0004660 | gene | 15526 | 16011 | 15526 | ID=Msa1341000;Name=Msa1341000 |
| tig0004660 | mRNA | 15526 | 16011 | 15526 | ID=Msa1341000-mRNA-1;Parent=Msa1341000;Name=Msa1341000-mRNA-1;_AED=0.13;_eAED=0.13;_QI=0|-1|0|1|-1|1|1|0|161 |
| tig0004660 | exon | 15526 | 16011 | 15526 | ID=Msa1341000-mRNA-1:exon:2948;Parent=Msa1341000-mRNA-1 |
| tig0004660 | CDS | 15526 | 16011 | 15526 | ID=Msa1341000-mRNA-1:cds;Parent=Msa1341000-mRNA-1 |
| Gene Sequence |
| Protein sequence |
