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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000370 | KAE8705844.1 | 74.324 | 148 | 38 | 0 | 4 | 151 | 16 | 163 | 2.44e-69 | 218 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000370 | sp|Q9SZD6|PETS_ARATH | 69.595 | 148 | 45 | 0 | 4 | 151 | 788 | 935 | 3.59e-60 | 203 |
| Msa1000370 | sp|Q9SZD6|PETS_ARATH | 63.265 | 147 | 54 | 0 | 5 | 151 | 551 | 697 | 8.28e-54 | 185 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000370 | A0A6A3AMK8 | 74.324 | 148 | 38 | 0 | 4 | 151 | 16 | 163 | 1.16e-69 | 218 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0072900 | Msa1000370 | 0.812387 | 4.349351e-51 | -8.615850e-47 |
| Msa0108390 | Msa1000370 | 0.821757 | 3.406458e-53 | -8.615850e-47 |
| Msa0637900 | Msa1000370 | 0.801755 | 7.751280e-49 | -8.615850e-47 |
| Msa0663390 | Msa1000370 | 0.800214 | 1.601047e-48 | -8.615850e-47 |
| Msa0683510 | Msa1000370 | 0.802013 | 6.860357e-49 | -8.615850e-47 |
| Msa0718070 | Msa1000370 | 0.808414 | 3.133984e-50 | -8.615850e-47 |
| Msa0723990 | Msa1000370 | 0.803001 | 4.293980e-49 | -8.615850e-47 |
| Msa0724210 | Msa1000370 | 0.810083 | 1.375180e-50 | -8.615850e-47 |
| Msa0750240 | Msa1000370 | 0.800617 | 1.325236e-48 | -8.615850e-47 |
| Msa0764570 | Msa1000370 | 0.806690 | 7.279369e-50 | -8.615850e-47 |
| Msa0766360 | Msa1000370 | 0.803900 | 2.794970e-49 | -8.615850e-47 |
| Msa0830510 | Msa1000370 | 0.800954 | 1.131159e-48 | -8.615850e-47 |
| Msa0140500 | Msa1000370 | -0.800469 | 1.420079e-48 | -8.615850e-47 |
| Msa0367870 | Msa1000370 | 0.803087 | 4.120651e-49 | -8.615850e-47 |
| Msa0403660 | Msa1000370 | 0.812786 | 3.558642e-51 | -8.615850e-47 |
| Msa1000170 | Msa1000370 | 0.823609 | 1.263352e-53 | -8.615850e-47 |
| Msa1000180 | Msa1000370 | 0.901097 | 3.780861e-78 | -8.615850e-47 |
| Msa1000190 | Msa1000370 | 0.821823 | 3.289201e-53 | -8.615850e-47 |
| Msa1000370 | Msa1031930 | 0.808036 | 3.773324e-50 | -8.615850e-47 |
| Msa1000370 | Msa1126450 | 0.812723 | 3.672907e-51 | -8.615850e-47 |
| Msa1000370 | Msa1307210 | 0.820204 | 7.759865e-53 | -8.615850e-47 |
| Msa1000370 | Msa1340260 | 0.801551 | 8.534530e-49 | -8.615850e-47 |
| Msa1000370 | Msa1341520 | 0.829496 | 4.984246e-55 | -8.615850e-47 |
| Msa1000370 | Msa1348880 | 0.805921 | 1.056670e-49 | -8.615850e-47 |
| Msa1000370 | Msa1413610 | 0.805615 | 1.225362e-49 | -8.615850e-47 |
| Msa1000370 | Msa1445390 | -0.800473 | 1.417472e-48 | -8.615850e-47 |
| Msa1000370 | Msa1449340 | -0.802480 | 5.500052e-49 | -8.615850e-47 |
| Msa0305700 | Msa1000370 | 0.813593 | 2.366628e-51 | -8.615850e-47 |
| Msa0363680 | Msa1000370 | 0.803870 | 2.835912e-49 | -8.615850e-47 |
| Msa0866520 | Msa1000370 | 0.805581 | 1.245537e-49 | -8.615850e-47 |
| Msa0926890 | Msa1000370 | 0.807217 | 5.629208e-50 | -8.615850e-47 |
| Msa0965610 | Msa1000370 | 0.821633 | 3.638854e-53 | -8.615850e-47 |
| Msa0969520 | Msa1000370 | 0.811200 | 7.886860e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000370 | MtrunA17_Chr6g0486531 | 80.405 | 148 | 29 | 0 | 4 | 151 | 881 | 1028 | 7.81e-73 | 236 |
| Msa1000370 | MtrunA17_Chr6g0486531 | 59.864 | 147 | 59 | 0 | 5 | 151 | 641 | 787 | 3.20e-53 | 181 |
| Msa1000370 | MtrunA17_Chr2g0299581 | 63.576 | 151 | 37 | 3 | 2 | 151 | 32 | 165 | 5.28e-52 | 164 |
| Msa1000370 | MtrunA17_Chr6g0484381 | 59.333 | 150 | 32 | 1 | 2 | 151 | 34 | 154 | 7.86e-48 | 153 |
| Msa1000370 | MtrunA17_Chr6g0486321 | 57.931 | 145 | 31 | 1 | 5 | 149 | 72 | 186 | 1.90e-44 | 145 |
| Msa1000370 | MtrunA17_Chr6g0486461 | 76.250 | 80 | 19 | 0 | 72 | 151 | 10 | 89 | 2.04e-35 | 119 |
| Msa1000370 | MtrunA17_Chr6g0486491 | 63.830 | 94 | 20 | 1 | 4 | 97 | 15 | 94 | 4.29e-32 | 110 |
| Msa1000370 | MtrunA17_Chr6g0460441 | 43.220 | 118 | 46 | 1 | 5 | 122 | 45 | 141 | 2.18e-22 | 87.4 |
| Msa1000370 | MtrunA17_Chr6g0486241 | 41.497 | 147 | 31 | 3 | 5 | 151 | 76 | 167 | 1.62e-20 | 83.6 |
| Msa1000370 | MtrunA17_Chr6g0486281 | 80.851 | 47 | 9 | 0 | 68 | 114 | 1 | 47 | 2.22e-19 | 76.6 |
| Msa1000370 | MtrunA17_Chr6g0477831 | 50.000 | 80 | 40 | 0 | 16 | 95 | 11 | 90 | 3.31e-19 | 77.4 |
| Msa1000370 | MtrunA17_Chr6g0486301 | 47.619 | 84 | 34 | 1 | 31 | 114 | 1031 | 1104 | 1.82e-16 | 75.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000370 | AT4G29060.1 | 69.595 | 148 | 45 | 0 | 4 | 151 | 788 | 935 | 3.64e-61 | 203 |
| Msa1000370 | AT4G29060.1 | 63.265 | 147 | 54 | 0 | 5 | 151 | 551 | 697 | 8.42e-55 | 185 |
| Msa1000370 | AT4G29060.2 | 63.946 | 147 | 47 | 1 | 5 | 151 | 551 | 691 | 2.34e-53 | 179 |
Find 24 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCCTTCATCTGCTAATCTTC+TGG | 0.187100 | 6_4:+83183953 | None:intergenic |
| GGAAGAATCTCAAAGAAGTT+AGG | 0.377662 | 6_4:-83183672 | Msa1000370:CDS |
| TTAGCAGATGAAGGAAGAAA+AGG | 0.433566 | 6_4:-83183945 | Msa1000370:CDS |
| GGATTTCTTATCAGCGGATG+AGG | 0.463133 | 6_4:+83183974 | None:intergenic |
| ATAAGAAAGAAAATTGTTGA+GGG | 0.490179 | 6_4:-83183693 | Msa1000370:CDS |
| AAAGCCCTTGCTGAAACATA+AGG | 0.491814 | 6_4:-83184024 | None:intergenic |
| TGGCAAAAGTGACAAATTCA+AGG | 0.494412 | 6_4:-83183859 | Msa1000370:CDS |
| CTCACCTTATGTTTCAGCAA+GGG | 0.504959 | 6_4:+83184020 | None:intergenic |
| TCCAGAAGATTAGCAGATGA+AGG | 0.507836 | 6_4:-83183954 | Msa1000370:CDS |
| AAGTGACAAATTCAAGGAGT+TGG | 0.507877 | 6_4:-83183853 | Msa1000370:CDS |
| GCAAGTTGCTGCATGTCCAC+AGG | 0.512986 | 6_4:-83183814 | Msa1000370:CDS |
| GATAAGAAAGAAAATTGTTG+AGG | 0.513606 | 6_4:-83183694 | Msa1000370:CDS |
| TTGAACTATTTCTCCAAGAG+TGG | 0.526704 | 6_4:+83183543 | None:intergenic |
| AACTGTGAAACCGACTTTGT+TGG | 0.539216 | 6_4:-83183879 | Msa1000370:CDS |
| GAACAAAACGCTACACTCAA+CGG | 0.556981 | 6_4:+83183569 | None:intergenic |
| TCTCGTAACCATTGTGACAA+AGG | 0.559968 | 6_4:-83183766 | Msa1000370:CDS |
| TCTTCTGGATTTCTTATCAG+CGG | 0.572880 | 6_4:+83183968 | None:intergenic |
| GATTTCTTATCAGCGGATGA+GGG | 0.595961 | 6_4:+83183975 | None:intergenic |
| ACAGACACAAACTGAACCTG+TGG | 0.624395 | 6_4:+83183798 | None:intergenic |
| CAGTGTTTCAGTGAAAGACT+CGG | 0.628061 | 6_4:-83183610 | Msa1000370:CDS |
| GCTCACCTTATGTTTCAGCA+AGG | 0.653488 | 6_4:+83184019 | None:intergenic |
| AGTTCACTTCAATTAGAACA+CGG | 0.682971 | 6_4:+83183898 | None:intergenic |
| TTTCAGTGAAAGACTCGGTG+AGG | 0.683646 | 6_4:-83183605 | Msa1000370:CDS |
| ACACTGTGATCGTTATTGAA+AGG | 0.689287 | 6_4:+83183627 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATTTTCTTTCTTATCTTCT+CGG | + | chr6_4:83183867-83183886 | None:intergenic | 20.0% |
| !! | ATAAGAAAGAAAATTGTTGA+GGG | - | chr6_4:83183872-83183891 | Msa1000370:CDS | 20.0% |
| !! | ATTTTCTTTCTTATCTTCTC+GGG | + | chr6_4:83183866-83183885 | None:intergenic | 25.0% |
| ! | GATAAGAAAGAAAATTGTTG+AGG | - | chr6_4:83183871-83183890 | Msa1000370:CDS | 25.0% |
| AGTTCACTTCAATTAGAACA+CGG | + | chr6_4:83183670-83183689 | None:intergenic | 30.0% | |
| ! | TTCTTTTTCCTTTGTCACAA+TGG | + | chr6_4:83183810-83183829 | None:intergenic | 30.0% |
| AGCGCATACATCAGAAAAAA+GGG | - | chr6_4:83183566-83183585 | Msa1000370:CDS | 35.0% | |
| TCTTCTGGATTTCTTATCAG+CGG | + | chr6_4:83183600-83183619 | None:intergenic | 35.0% | |
| TTAGCAGATGAAGGAAGAAA+AGG | - | chr6_4:83183620-83183639 | Msa1000370:CDS | 35.0% | |
| TGGCAAAAGTGACAAATTCA+AGG | - | chr6_4:83183706-83183725 | Msa1000370:CDS | 35.0% | |
| AAGTGACAAATTCAAGGAGT+TGG | - | chr6_4:83183712-83183731 | Msa1000370:CDS | 35.0% | |
| GGAAGAATCTCAAAGAAGTT+AGG | - | chr6_4:83183893-83183912 | Msa1000370:CDS | 35.0% | |
| ACACTGTGATCGTTATTGAA+AGG | + | chr6_4:83183941-83183960 | None:intergenic | 35.0% | |
| GAGCGCATACATCAGAAAAA+AGG | - | chr6_4:83183565-83183584 | Msa1000370:CDS | 40.0% | |
| GATTTCTTATCAGCGGATGA+GGG | + | chr6_4:83183593-83183612 | None:intergenic | 40.0% | |
| TCCAGAAGATTAGCAGATGA+AGG | - | chr6_4:83183611-83183630 | Msa1000370:CDS | 40.0% | |
| TCCTTCATCTGCTAATCTTC+TGG | + | chr6_4:83183615-83183634 | None:intergenic | 40.0% | |
| ! | AACTGTGAAACCGACTTTGT+TGG | - | chr6_4:83183686-83183705 | Msa1000370:CDS | 40.0% |
| !!! | GTCACTTTTGCCAACAAAGT+CGG | + | chr6_4:83183699-83183718 | None:intergenic | 40.0% |
| TCTCGTAACCATTGTGACAA+AGG | - | chr6_4:83183799-83183818 | Msa1000370:CDS | 40.0% | |
| CAGTGTTTCAGTGAAAGACT+CGG | - | chr6_4:83183955-83183974 | Msa1000370:CDS | 40.0% | |
| GAACAAAACGCTACACTCAA+CGG | + | chr6_4:83183999-83184018 | None:intergenic | 40.0% | |
| !! | GTTGAGTGTAGCGTTTTGTT+CGG | - | chr6_4:83183998-83184017 | Msa1000370:CDS | 40.0% |
| GGATTTCTTATCAGCGGATG+AGG | + | chr6_4:83183594-83183613 | None:intergenic | 45.0% | |
| ACAGACACAAACTGAACCTG+TGG | + | chr6_4:83183770-83183789 | None:intergenic | 45.0% | |
| !! | TTTCAGTGAAAGACTCGGTG+AGG | - | chr6_4:83183960-83183979 | Msa1000370:CDS | 45.0% |
| !! | CGTTTTGTTCGGTCCACTCT+TGG | - | chr6_4:83184009-83184028 | Msa1000370:CDS | 50.0% |
| GCAAGTTGCTGCATGTCCAC+AGG | - | chr6_4:83183751-83183770 | Msa1000370:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 83183548 | 83184039 | 83183548 | ID=Msa1000370;Name=Msa1000370 |
| chr6_4 | mRNA | 83183548 | 83184039 | 83183548 | ID=Msa1000370-mRNA-1;Parent=Msa1000370;Name=Msa1000370-mRNA-1;_AED=0.44;_eAED=0.46;_QI=0|-1|0|1|-1|1|1|0|163 |
| chr6_4 | exon | 83183548 | 83184039 | 83183548 | ID=Msa1000370-mRNA-1:exon:16112;Parent=Msa1000370-mRNA-1 |
| chr6_4 | CDS | 83183548 | 83184039 | 83183548 | ID=Msa1000370-mRNA-1:cds;Parent=Msa1000370-mRNA-1 |
| Gene Sequence |
| Protein sequence |
