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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0530540 | XP_039689884.1 | 98.198 | 111 | 2 | 0 | 1 | 111 | 1 | 111 | 1.66e-75 | 228 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0530540 | sp|Q1G3V9|EPFL8_ARATH | 31.776 | 107 | 62 | 3 | 5 | 111 | 4 | 99 | 4.68e-11 | 57.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0530540 | G7JGZ2 | 98.198 | 111 | 2 | 0 | 1 | 111 | 1 | 111 | 7.95e-76 | 228 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000190 | Msa0530540 | 0.809652 | 1.701818e-50 | -8.615850e-47 |
| Msa0024550 | Msa0530540 | 0.821664 | 3.580025e-53 | -8.615850e-47 |
| Msa0112570 | Msa0530540 | 0.803940 | 2.742777e-49 | -8.615850e-47 |
| Msa0120400 | Msa0530540 | 0.810491 | 1.122911e-50 | -8.615850e-47 |
| Msa0164330 | Msa0530540 | 0.802439 | 5.606973e-49 | -8.615850e-47 |
| Msa0530540 | Msa0587410 | 0.978310 | 1.472121e-145 | -8.615850e-47 |
| Msa0530540 | Msa0665260 | 0.869604 | 2.734231e-66 | -8.615850e-47 |
| Msa0530540 | Msa0967380 | 0.823110 | 1.652306e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0530540 | MtrunA17_Chr2g0333071 | 53.398 | 103 | 37 | 3 | 19 | 111 | 12 | 113 | 6.20e-32 | 108 |
| Msa0530540 | MtrunA17_Chr4g0063871 | 41.284 | 109 | 57 | 2 | 10 | 111 | 6 | 114 | 2.89e-26 | 94.4 |
| Msa0530540 | MtrunA17_Chr4g0019101 | 34.043 | 94 | 47 | 3 | 23 | 111 | 79 | 162 | 2.14e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0530540 | AT1G80133.1 | 31.776 | 107 | 62 | 3 | 5 | 111 | 4 | 99 | 4.75e-12 | 57.8 |
Find 24 sgRNAs with CRISPR-Local
Find 92 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAAATAAGTGCATGAATTGT+AGG | 0.332110 | 4_1:+4600183 | Msa0530540:CDS |
| GAAATGTAGATGTGGGAATA+AGG | 0.373779 | 4_1:+4600301 | Msa0530540:CDS |
| GAAATGATAGCTTGGAAGAC+AGG | 0.390549 | 4_1:+4600126 | Msa0530540:CDS |
| GAAGACAGGAAAATGGTGAT+AGG | 0.411712 | 4_1:+4600140 | Msa0530540:CDS |
| TAGCTTGGAAGACAGGAAAA+TGG | 0.419909 | 4_1:+4600133 | Msa0530540:CDS |
| TAGGCCTTGTATAGCAACTT+TGG | 0.443073 | 4_1:+4600202 | Msa0530540:CDS |
| ATCTACATTTCCATGCTAGA+AGG | 0.450414 | 4_1:-4600289 | None:intergenic |
| TTTGAGTCCATGTAGATGAT+AGG | 0.456363 | 4_1:-4599215 | None:intergenic |
| ATGCACTTATTTAAACAAGC+AGG | 0.501769 | 4_1:-4600173 | None:intergenic |
| ATACTTATTACCTTCTAGCA+TGG | 0.506026 | 4_1:+4600279 | Msa0530540:CDS |
| TGCTTGAGCAGGTGGATCAT+TGG | 0.518289 | 4_1:+4600094 | Msa0530540:intron |
| AGCAGGTGGATCATTGGTGT+TGG | 0.551304 | 4_1:+4600100 | Msa0530540:intron |
| GTTGGAGAGAAATGATAGCT+TGG | 0.558825 | 4_1:+4600118 | Msa0530540:CDS |
| TGTAGATGATAGGATCTAGC+AGG | 0.568991 | 4_1:-4599205 | None:intergenic |
| GTTACAAAGTGTTATCTCGT+GGG | 0.569596 | 4_1:+4600246 | Msa0530540:CDS |
| AAGACAGGAAAATGGTGATA+GGG | 0.574619 | 4_1:+4600141 | Msa0530540:CDS |
| GCTAGATCCTATCATCTACA+TGG | 0.581934 | 4_1:+4599208 | Msa0530540:CDS |
| AGTTACAAAGTGTTATCTCG+TGG | 0.590051 | 4_1:+4600245 | Msa0530540:CDS |
| CTAGCATGGAAATGTAGATG+TGG | 0.600363 | 4_1:+4600293 | Msa0530540:CDS |
| CACTTATTTAAACAAGCAGG+AGG | 0.601716 | 4_1:-4600170 | None:intergenic |
| TAGCATGGAAATGTAGATGT+GGG | 0.603897 | 4_1:+4600294 | Msa0530540:CDS |
| ACAACCAAAGTTGCTATACA+AGG | 0.612351 | 4_1:-4600206 | None:intergenic |
| TTACAAAGTGTTATCTCGTG+GGG | 0.657713 | 4_1:+4600247 | Msa0530540:CDS |
| AGATGATAGGATCTAGCAGG+TGG | 0.672567 | 4_1:-4599202 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATGAATGAAAATAACTATT+TGG | - | chr4_1:4599388-4599407 | None:intergenic | 15.0% |
| !!! | AAGTTTAGATTTTAAAACAA+AGG | - | chr4_1:4599450-4599469 | None:intergenic | 15.0% |
| !! | CTTATTATTCTTCTATTATT+AGG | + | chr4_1:4599476-4599495 | Msa0530540:intron | 15.0% |
| !!! | AAAAACTCTAAAATAAATGA+TGG | + | chr4_1:4599902-4599921 | Msa0530540:intron | 15.0% |
| !! | TATGAATGAAAATAACTATT+TGG | - | chr4_1:4599388-4599407 | None:intergenic | 15.0% |
| !!! | AAGTTTAGATTTTAAAACAA+AGG | - | chr4_1:4599450-4599469 | None:intergenic | 15.0% |
| !! | CTTATTATTCTTCTATTATT+AGG | + | chr4_1:4599476-4599495 | Msa0530540:intron | 15.0% |
| !!! | AAAAACTCTAAAATAAATGA+TGG | + | chr4_1:4599902-4599921 | Msa0530540:intron | 15.0% |
| !! | TAGTATATACAAACCAAAAT+AGG | - | chr4_1:4599544-4599563 | None:intergenic | 20.0% |
| !! | ATAAAATTTGTCTTTAAGTC+TGG | + | chr4_1:4599593-4599612 | Msa0530540:intron | 20.0% |
| !! | AAAAGTTTATTTATCTGCAT+AGG | - | chr4_1:4599654-4599673 | None:intergenic | 20.0% |
| !! | TAGTATATACAAACCAAAAT+AGG | - | chr4_1:4599544-4599563 | None:intergenic | 20.0% |
| !! | ATAAAATTTGTCTTTAAGTC+TGG | + | chr4_1:4599593-4599612 | Msa0530540:intron | 20.0% |
| !! | AAAAGTTTATTTATCTGCAT+AGG | - | chr4_1:4599654-4599673 | None:intergenic | 20.0% |
| !!! | AGCTTTTTAATTACCTGATT+TGG | - | chr4_1:4599293-4599312 | None:intergenic | 25.0% |
| !! | CATCATTCATTTCTTTTGTT+TGG | + | chr4_1:4599415-4599434 | Msa0530540:intron | 25.0% |
| !! | ATAATTGTCAACTCCTATTT+TGG | + | chr4_1:4599528-4599547 | Msa0530540:intron | 25.0% |
| ! | AAAAATAAGTCAATCCAAAC+AGG | + | chr4_1:4599847-4599866 | Msa0530540:intron | 25.0% |
| !!! | TGTTTTTAATGTGTGTGAAA+TGG | + | chr4_1:4599980-4599999 | Msa0530540:intron | 25.0% |
| ! | TAAATAAGTGCATGAATTGT+AGG | + | chr4_1:4600183-4600202 | Msa0530540:CDS | 25.0% |
| !!! | AGCTTTTTAATTACCTGATT+TGG | - | chr4_1:4599293-4599312 | None:intergenic | 25.0% |
| !! | CATCATTCATTTCTTTTGTT+TGG | + | chr4_1:4599415-4599434 | Msa0530540:intron | 25.0% |
| !! | ATAATTGTCAACTCCTATTT+TGG | + | chr4_1:4599528-4599547 | Msa0530540:intron | 25.0% |
| ! | AAAAATAAGTCAATCCAAAC+AGG | + | chr4_1:4599847-4599866 | Msa0530540:intron | 25.0% |
| !!! | TGTTTTTAATGTGTGTGAAA+TGG | + | chr4_1:4599980-4599999 | Msa0530540:intron | 25.0% |
| ! | TAAATAAGTGCATGAATTGT+AGG | + | chr4_1:4600183-4600202 | Msa0530540:CDS | 25.0% |
| !!! | CAGTTTTGTTTAGCTTGAAT+AGG | - | chr4_1:4599331-4599350 | None:intergenic | 30.0% |
| ATGCACTTATTTAAACAAGC+AGG | - | chr4_1:4600176-4600195 | None:intergenic | 30.0% | |
| ATACTTATTACCTTCTAGCA+TGG | + | chr4_1:4600279-4600298 | Msa0530540:CDS | 30.0% | |
| !!! | CAGTTTTGTTTAGCTTGAAT+AGG | - | chr4_1:4599331-4599350 | None:intergenic | 30.0% |
| ATGCACTTATTTAAACAAGC+AGG | - | chr4_1:4600176-4600195 | None:intergenic | 30.0% | |
| ATACTTATTACCTTCTAGCA+TGG | + | chr4_1:4600279-4600298 | Msa0530540:CDS | 30.0% | |
| TTTGAGTCCATGTAGATGAT+AGG | - | chr4_1:4599218-4599237 | None:intergenic | 35.0% | |
| !! | GTTTAGCTTGAATAGGTATG+AGG | - | chr4_1:4599324-4599343 | None:intergenic | 35.0% |
| AAGACAGGAAAATGGTGATA+GGG | + | chr4_1:4600141-4600160 | Msa0530540:CDS | 35.0% | |
| CACTTATTTAAACAAGCAGG+AGG | - | chr4_1:4600173-4600192 | None:intergenic | 35.0% | |
| ACAACCAAAGTTGCTATACA+AGG | - | chr4_1:4600209-4600228 | None:intergenic | 35.0% | |
| ! | AGTTACAAAGTGTTATCTCG+TGG | + | chr4_1:4600245-4600264 | Msa0530540:CDS | 35.0% |
| ! | GTTACAAAGTGTTATCTCGT+GGG | + | chr4_1:4600246-4600265 | Msa0530540:CDS | 35.0% |
| ! | TTACAAAGTGTTATCTCGTG+GGG | + | chr4_1:4600247-4600266 | Msa0530540:CDS | 35.0% |
| ATCTACATTTCCATGCTAGA+AGG | - | chr4_1:4600292-4600311 | None:intergenic | 35.0% | |
| TAGCATGGAAATGTAGATGT+GGG | + | chr4_1:4600294-4600313 | Msa0530540:CDS | 35.0% | |
| GAAATGTAGATGTGGGAATA+AGG | + | chr4_1:4600301-4600320 | Msa0530540:CDS | 35.0% | |
| TTTGAGTCCATGTAGATGAT+AGG | - | chr4_1:4599218-4599237 | None:intergenic | 35.0% | |
| !! | GTTTAGCTTGAATAGGTATG+AGG | - | chr4_1:4599324-4599343 | None:intergenic | 35.0% |
| AAGACAGGAAAATGGTGATA+GGG | + | chr4_1:4600141-4600160 | Msa0530540:CDS | 35.0% | |
| CACTTATTTAAACAAGCAGG+AGG | - | chr4_1:4600173-4600192 | None:intergenic | 35.0% | |
| ACAACCAAAGTTGCTATACA+AGG | - | chr4_1:4600209-4600228 | None:intergenic | 35.0% | |
| ! | AGTTACAAAGTGTTATCTCG+TGG | + | chr4_1:4600245-4600264 | Msa0530540:CDS | 35.0% |
| ! | GTTACAAAGTGTTATCTCGT+GGG | + | chr4_1:4600246-4600265 | Msa0530540:CDS | 35.0% |
| ! | TTACAAAGTGTTATCTCGTG+GGG | + | chr4_1:4600247-4600266 | Msa0530540:CDS | 35.0% |
| ATCTACATTTCCATGCTAGA+AGG | - | chr4_1:4600292-4600311 | None:intergenic | 35.0% | |
| TAGCATGGAAATGTAGATGT+GGG | + | chr4_1:4600294-4600313 | Msa0530540:CDS | 35.0% | |
| GAAATGTAGATGTGGGAATA+AGG | + | chr4_1:4600301-4600320 | Msa0530540:CDS | 35.0% | |
| TGTAGATGATAGGATCTAGC+AGG | - | chr4_1:4599208-4599227 | None:intergenic | 40.0% | |
| GCTAGATCCTATCATCTACA+TGG | + | chr4_1:4599208-4599227 | Msa0530540:CDS | 40.0% | |
| !! | TGCACGCTATTTTCCAAATC+AGG | + | chr4_1:4599277-4599296 | Msa0530540:CDS | 40.0% |
| TTGAATAGGTATGAGGTTGG+TGG | - | chr4_1:4599317-4599336 | None:intergenic | 40.0% | |
| AGCTTGAATAGGTATGAGGT+TGG | - | chr4_1:4599320-4599339 | None:intergenic | 40.0% | |
| TTATTGACCTAGGACCTGTT+TGG | - | chr4_1:4599864-4599883 | None:intergenic | 40.0% | |
| !! | CATGTGTCACTTATTGACCT+AGG | - | chr4_1:4599874-4599893 | None:intergenic | 40.0% |
| GAATGTGTATATGCTTGAGC+AGG | + | chr4_1:4600083-4600102 | Msa0530540:intron | 40.0% | |
| GTTGGAGAGAAATGATAGCT+TGG | + | chr4_1:4600118-4600137 | Msa0530540:CDS | 40.0% | |
| GAAATGATAGCTTGGAAGAC+AGG | + | chr4_1:4600126-4600145 | Msa0530540:CDS | 40.0% | |
| TAGCTTGGAAGACAGGAAAA+TGG | + | chr4_1:4600133-4600152 | Msa0530540:CDS | 40.0% | |
| GAAGACAGGAAAATGGTGAT+AGG | + | chr4_1:4600140-4600159 | Msa0530540:CDS | 40.0% | |
| ! | TAGGCCTTGTATAGCAACTT+TGG | + | chr4_1:4600202-4600221 | Msa0530540:CDS | 40.0% |
| CTAGCATGGAAATGTAGATG+TGG | + | chr4_1:4600293-4600312 | Msa0530540:CDS | 40.0% | |
| TGTAGATGATAGGATCTAGC+AGG | - | chr4_1:4599208-4599227 | None:intergenic | 40.0% | |
| GCTAGATCCTATCATCTACA+TGG | + | chr4_1:4599208-4599227 | Msa0530540:CDS | 40.0% | |
| !! | TGCACGCTATTTTCCAAATC+AGG | + | chr4_1:4599277-4599296 | Msa0530540:CDS | 40.0% |
| TTGAATAGGTATGAGGTTGG+TGG | - | chr4_1:4599317-4599336 | None:intergenic | 40.0% | |
| AGCTTGAATAGGTATGAGGT+TGG | - | chr4_1:4599320-4599339 | None:intergenic | 40.0% | |
| TTATTGACCTAGGACCTGTT+TGG | - | chr4_1:4599864-4599883 | None:intergenic | 40.0% | |
| !! | CATGTGTCACTTATTGACCT+AGG | - | chr4_1:4599874-4599893 | None:intergenic | 40.0% |
| GAATGTGTATATGCTTGAGC+AGG | + | chr4_1:4600083-4600102 | Msa0530540:intron | 40.0% | |
| GTTGGAGAGAAATGATAGCT+TGG | + | chr4_1:4600118-4600137 | Msa0530540:CDS | 40.0% | |
| GAAATGATAGCTTGGAAGAC+AGG | + | chr4_1:4600126-4600145 | Msa0530540:CDS | 40.0% | |
| TAGCTTGGAAGACAGGAAAA+TGG | + | chr4_1:4600133-4600152 | Msa0530540:CDS | 40.0% | |
| GAAGACAGGAAAATGGTGAT+AGG | + | chr4_1:4600140-4600159 | Msa0530540:CDS | 40.0% | |
| ! | TAGGCCTTGTATAGCAACTT+TGG | + | chr4_1:4600202-4600221 | Msa0530540:CDS | 40.0% |
| CTAGCATGGAAATGTAGATG+TGG | + | chr4_1:4600293-4600312 | Msa0530540:CDS | 40.0% | |
| AGATGATAGGATCTAGCAGG+TGG | - | chr4_1:4599205-4599224 | None:intergenic | 45.0% | |
| AGTCAATCCAAACAGGTCCT+AGG | + | chr4_1:4599854-4599873 | Msa0530540:intron | 45.0% | |
| TGTGTATATGCTTGAGCAGG+TGG | + | chr4_1:4600086-4600105 | Msa0530540:intron | 45.0% | |
| AGATGATAGGATCTAGCAGG+TGG | - | chr4_1:4599205-4599224 | None:intergenic | 45.0% | |
| AGTCAATCCAAACAGGTCCT+AGG | + | chr4_1:4599854-4599873 | Msa0530540:intron | 45.0% | |
| TGTGTATATGCTTGAGCAGG+TGG | + | chr4_1:4600086-4600105 | Msa0530540:intron | 45.0% | |
| TGCTTGAGCAGGTGGATCAT+TGG | + | chr4_1:4600094-4600113 | Msa0530540:intron | 50.0% | |
| AGCAGGTGGATCATTGGTGT+TGG | + | chr4_1:4600100-4600119 | Msa0530540:intron | 50.0% | |
| TGCTTGAGCAGGTGGATCAT+TGG | + | chr4_1:4600094-4600113 | Msa0530540:intron | 50.0% | |
| AGCAGGTGGATCATTGGTGT+TGG | + | chr4_1:4600100-4600119 | Msa0530540:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 4599196 | 4600337 | 4599196 | ID=Msa0530540;Name=Msa0530540 |
| chr4_1 | mRNA | 4599196 | 4600337 | 4599196 | ID=Msa0530540-mRNA-1;Parent=Msa0530540;Name=Msa0530540-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|0|0|1|1|1|2|0|111 |
| chr4_1 | exon | 4599196 | 4599298 | 4599196 | ID=Msa0530540-mRNA-1:exon:1393;Parent=Msa0530540-mRNA-1 |
| chr4_1 | exon | 4600105 | 4600337 | 4600105 | ID=Msa0530540-mRNA-1:exon:1394;Parent=Msa0530540-mRNA-1 |
| chr4_1 | CDS | 4599196 | 4599298 | 4599196 | ID=Msa0530540-mRNA-1:cds;Parent=Msa0530540-mRNA-1 |
| chr4_1 | CDS | 4600105 | 4600337 | 4600105 | ID=Msa0530540-mRNA-1:cds;Parent=Msa0530540-mRNA-1 |
| Gene Sequence |
| Protein sequence |
