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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0275820 | XP_013462789.1 | 94.495 | 109 | 6 | 0 | 1 | 109 | 1 | 109 | 3.68e-72 | 220 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0275820 | A0A072V492 | 94.495 | 109 | 6 | 0 | 1 | 109 | 1 | 109 | 1.76e-72 | 220 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0054690 | Msa0275820 | 0.840381 | 8.999603e-58 | -8.615850e-47 |
| Msa0158860 | Msa0275820 | 0.804800 | 1.815104e-49 | -8.615850e-47 |
| Msa0174450 | Msa0275820 | 0.810264 | 1.256899e-50 | -8.615850e-47 |
| Msa0275770 | Msa0275820 | 0.956469 | 2.740121e-114 | -8.615850e-47 |
| Msa0275820 | Msa0287740 | 0.805127 | 1.550646e-49 | -8.615850e-47 |
| Msa0275820 | Msa0369790 | 0.813450 | 2.544580e-51 | -8.615850e-47 |
| Msa0275820 | Msa0380620 | 0.803737 | 3.022060e-49 | -8.615850e-47 |
| Msa0275820 | Msa0405680 | 0.809526 | 1.811340e-50 | -8.615850e-47 |
| Msa0275820 | Msa0424140 | 0.811322 | 7.417920e-51 | -8.615850e-47 |
| Msa0275820 | Msa0430260 | 0.808846 | 2.533462e-50 | -8.615850e-47 |
| Msa0275820 | Msa0453040 | 0.840107 | 1.060932e-57 | -8.615850e-47 |
| Msa0275820 | Msa0464000 | 0.810120 | 1.349532e-50 | -8.615850e-47 |
| Msa0275820 | Msa0472950 | 0.828254 | 9.957640e-55 | -8.615850e-47 |
| Msa0275820 | Msa0509550 | 0.813115 | 3.013145e-51 | -8.615850e-47 |
| Msa0275820 | Msa0528570 | 0.805786 | 1.128291e-49 | -8.615850e-47 |
| Msa0275820 | Msa0550050 | 0.823462 | 1.367144e-53 | -8.615850e-47 |
| Msa0275820 | Msa0557460 | 0.835008 | 2.154835e-56 | -8.615850e-47 |
| Msa0275820 | Msa0580370 | 0.815516 | 8.884145e-52 | -8.615850e-47 |
| Msa0275820 | Msa0587620 | 0.802251 | 6.130273e-49 | -8.615850e-47 |
| Msa0275820 | Msa0605560 | 0.819951 | 8.869830e-53 | -8.615850e-47 |
| Msa0275820 | Msa0626450 | 0.819819 | 9.504715e-53 | -8.615850e-47 |
| Msa0275820 | Msa0626490 | 0.814326 | 1.631363e-51 | -8.615850e-47 |
| Msa0275820 | Msa0661150 | 0.834052 | 3.745334e-56 | -8.615850e-47 |
| Msa0275820 | Msa0664600 | 0.811517 | 6.730514e-51 | -8.615850e-47 |
| Msa0275820 | Msa0738700 | 0.824112 | 9.629633e-54 | -8.615850e-47 |
| Msa0275820 | Msa0768990 | 0.826285 | 2.950457e-54 | -8.615850e-47 |
| Msa0275820 | Msa0775060 | 0.805819 | 1.110453e-49 | -8.615850e-47 |
| Msa0275820 | Msa0783530 | 0.807835 | 4.161950e-50 | -8.615850e-47 |
| Msa0275820 | Msa0795870 | 0.804083 | 2.560884e-49 | -8.615850e-47 |
| Msa0275820 | Msa0819170 | 0.827431 | 1.570287e-54 | -8.615850e-47 |
| Msa0275820 | Msa0833650 | 0.807127 | 5.882697e-50 | -8.615850e-47 |
| Msa0275820 | Msa0859290 | 0.804259 | 2.353603e-49 | -8.615850e-47 |
| Msa0275820 | Msa1042160 | 0.828784 | 7.415062e-55 | -8.615850e-47 |
| Msa0275820 | Msa1042190 | 0.827924 | 1.195657e-54 | -8.615850e-47 |
| Msa0275820 | Msa1132840 | 0.812576 | 3.954377e-51 | -8.615850e-47 |
| Msa0275820 | Msa1161680 | 0.801482 | 8.818348e-49 | -8.615850e-47 |
| Msa0275820 | Msa1167470 | 0.809958 | 1.463129e-50 | -8.615850e-47 |
| Msa0275820 | Msa1226520 | 0.800998 | 1.108056e-48 | -8.615850e-47 |
| Msa0275820 | Msa1343180 | 0.807719 | 4.405296e-50 | -8.615850e-47 |
| Msa0275820 | Msa1359690 | 0.826573 | 2.519221e-54 | -8.615850e-47 |
| Msa0275820 | Msa1440960 | 0.817779 | 2.763188e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0275820 | MtrunA17_Chr2g0288131 | 94.495 | 109 | 6 | 0 | 1 | 109 | 1 | 109 | 3.39e-76 | 220 |
| Msa0275820 | MtrunA17_Chr4g0074631 | 63.208 | 106 | 28 | 6 | 3 | 105 | 7 | 104 | 4.15e-32 | 108 |
| Msa0275820 | MtrunA17_Chr5g0443671 | 30.556 | 108 | 72 | 3 | 4 | 109 | 69 | 175 | 2.43e-11 | 57.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0275820 | AT4G21780.1 | 44.643 | 112 | 49 | 5 | 1 | 103 | 1 | 108 | 9.69e-24 | 88.2 |
| Msa0275820 | AT4G21780.3 | 44.643 | 112 | 49 | 5 | 1 | 103 | 1 | 108 | 9.69e-24 | 88.2 |
| Msa0275820 | AT4G21780.2 | 44.643 | 112 | 49 | 5 | 1 | 103 | 1 | 108 | 9.69e-24 | 88.2 |
Find 19 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGCAAAGAAGCCTAGTTTC+TGG | 0.300098 | 2_3:-7943302 | Msa0275820:CDS |
| AATCAATTCAACAGAATTCC+TGG | 0.354806 | 2_3:-7943183 | Msa0275820:CDS |
| ATAGGCACAAGGGGCACTAT+TGG | 0.371860 | 2_3:-7943423 | Msa0275820:CDS |
| TGCCAACAACTTGGAAGAAA+AGG | 0.387622 | 2_3:-7943275 | Msa0275820:CDS |
| CCCCTTGTGCCTATAGCAAC+AGG | 0.417302 | 2_3:+7943432 | None:intergenic |
| TTGCTTTCTCCATGTCTACA+AGG | 0.428108 | 2_3:+7943319 | None:intergenic |
| AGTTTGAGTTAGATAGAAGA+GGG | 0.441913 | 2_3:-7943365 | Msa0275820:CDS |
| AGCAAAGAAGCACAGCAAAC+AGG | 0.456615 | 2_3:-7943251 | Msa0275820:CDS |
| ATGGCTGCACCTGTTGCTAT+AGG | 0.463713 | 2_3:-7943441 | Msa0275820:CDS |
| TATTGGATCACTAGTGAGAA+AGG | 0.511881 | 2_3:-7943406 | Msa0275820:CDS |
| CACCTGTTGCTATAGGCACA+AGG | 0.517230 | 2_3:-7943434 | Msa0275820:CDS |
| AGGATCTTGTAGCTGTAACC+AGG | 0.558959 | 2_3:+7943165 | None:intergenic |
| AAGTTTGAGTTAGATAGAAG+AGG | 0.566161 | 2_3:-7943366 | Msa0275820:CDS |
| ATGTCTACAAGGTGTTGCTG+AGG | 0.586253 | 2_3:+7943330 | None:intergenic |
| CCTGTTGCTATAGGCACAAG+GGG | 0.608011 | 2_3:-7943432 | Msa0275820:CDS |
| AGTTGTTGATATCATCCTTG+AGG | 0.616088 | 2_3:+7943145 | None:intergenic |
| TCAGCAACACCTTGTAGACA+TGG | 0.626160 | 2_3:-7943328 | Msa0275820:CDS |
| ACCTGTTGCTATAGGCACAA+GGG | 0.631732 | 2_3:-7943433 | Msa0275820:CDS |
| TTACAGCTACAAGATCCTCA+AGG | 0.653866 | 2_3:-7943160 | Msa0275820:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAGTTTGAGTTAGATAGAAG+AGG | - | chr2_3:7943209-7943228 | Msa0275820:CDS | 30.0% |
| ! | AGTTTGAGTTAGATAGAAGA+GGG | - | chr2_3:7943210-7943229 | Msa0275820:CDS | 30.0% |
| ! | CTGTAACAGAACAGATTTTT+CGG | + | chr2_3:7943355-7943374 | None:intergenic | 30.0% |
| AATCAATTCAACAGAATTCC+TGG | - | chr2_3:7943392-7943411 | Msa0275820:CDS | 30.0% | |
| TATTGGATCACTAGTGAGAA+AGG | - | chr2_3:7943169-7943188 | Msa0275820:CDS | 35.0% | |
| ! | TTCCTTTTCTTCCAAGTTGT+TGG | + | chr2_3:7943305-7943324 | None:intergenic | 35.0% |
| AGTTGTTGATATCATCCTTG+AGG | + | chr2_3:7943433-7943452 | None:intergenic | 35.0% | |
| TTGCTTTCTCCATGTCTACA+AGG | + | chr2_3:7943259-7943278 | None:intergenic | 40.0% | |
| AAGCAAAGAAGCCTAGTTTC+TGG | - | chr2_3:7943273-7943292 | Msa0275820:CDS | 40.0% | |
| GTTGGCAAAAACCAGAAACT+AGG | + | chr2_3:7943287-7943306 | None:intergenic | 40.0% | |
| !!! | TCTGGTTTTTGCCAACAACT+TGG | - | chr2_3:7943291-7943310 | Msa0275820:CDS | 40.0% |
| TGCCAACAACTTGGAAGAAA+AGG | - | chr2_3:7943300-7943319 | Msa0275820:CDS | 40.0% | |
| TTACAGCTACAAGATCCTCA+AGG | - | chr2_3:7943415-7943434 | Msa0275820:CDS | 40.0% | |
| ACCTGTTGCTATAGGCACAA+GGG | - | chr2_3:7943142-7943161 | Msa0275820:CDS | 45.0% | |
| !! | ATGTCTACAAGGTGTTGCTG+AGG | + | chr2_3:7943248-7943267 | None:intergenic | 45.0% |
| TCAGCAACACCTTGTAGACA+TGG | - | chr2_3:7943247-7943266 | Msa0275820:CDS | 45.0% | |
| ! | AGCAAAGAAGCACAGCAAAC+AGG | - | chr2_3:7943324-7943343 | Msa0275820:CDS | 45.0% |
| AGGATCTTGTAGCTGTAACC+AGG | + | chr2_3:7943413-7943432 | None:intergenic | 45.0% | |
| ATGGCTGCACCTGTTGCTAT+AGG | - | chr2_3:7943134-7943153 | Msa0275820:CDS | 50.0% | |
| CACCTGTTGCTATAGGCACA+AGG | - | chr2_3:7943141-7943160 | Msa0275820:CDS | 50.0% | |
| CCTGTTGCTATAGGCACAAG+GGG | - | chr2_3:7943143-7943162 | Msa0275820:CDS | 50.0% | |
| !! | ATAGGCACAAGGGGCACTAT+TGG | - | chr2_3:7943152-7943171 | Msa0275820:CDS | 50.0% |
| CCCCTTGTGCCTATAGCAAC+AGG | + | chr2_3:7943146-7943165 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 7943134 | 7943463 | 7943134 | ID=Msa0275820;Name=Msa0275820 |
| chr2_3 | mRNA | 7943134 | 7943463 | 7943134 | ID=Msa0275820-mRNA-1;Parent=Msa0275820;Name=Msa0275820-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|109 |
| chr2_3 | exon | 7943134 | 7943463 | 7943134 | ID=Msa0275820-mRNA-1:exon:3637;Parent=Msa0275820-mRNA-1 |
| chr2_3 | CDS | 7943134 | 7943463 | 7943134 | ID=Msa0275820-mRNA-1:cds;Parent=Msa0275820-mRNA-1 |
| Gene Sequence |
| Protein sequence |
