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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0050370 | XP_024637015.1 | 80.488 | 123 | 13 | 4 | 1 | 123 | 1 | 112 | 1.17e-45 | 154 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0050370 | A0A072UNM1 | 80.488 | 123 | 13 | 4 | 1 | 123 | 1 | 112 | 5.57e-46 | 154 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0050370 | Msa0075880 | 0.804212 | 2.407546e-49 | -8.615850e-47 |
| Msa0050370 | Msa0105070 | 0.801491 | 8.779587e-49 | -8.615850e-47 |
| Msa0050370 | Msa0117710 | 0.812298 | 4.549084e-51 | -8.615850e-47 |
| Msa0050370 | Msa0201070 | 0.822642 | 2.123295e-53 | -8.615850e-47 |
| Msa0050370 | Msa0305190 | 0.819177 | 1.331633e-52 | -8.615850e-47 |
| Msa0050370 | Msa0350320 | -0.802167 | 6.377791e-49 | -8.615850e-47 |
| Msa0050370 | Msa0371730 | 0.804125 | 2.510213e-49 | -8.615850e-47 |
| Msa0050370 | Msa0394260 | 0.801856 | 7.389794e-49 | -8.615850e-47 |
| Msa0050370 | Msa0411390 | 0.805933 | 1.050911e-49 | -8.615850e-47 |
| Msa0050370 | Msa0585230 | 0.804309 | 2.298555e-49 | -8.615850e-47 |
| Msa0050370 | Msa0607540 | 0.800886 | 1.167472e-48 | -8.615850e-47 |
| Msa0050370 | Msa0618360 | 0.811245 | 7.711093e-51 | -8.615850e-47 |
| Msa0050370 | Msa0663240 | 0.810236 | 1.274258e-50 | -8.615850e-47 |
| Msa0050370 | Msa0672690 | 0.802810 | 4.701530e-49 | -8.615850e-47 |
| Msa0050370 | Msa0715470 | 0.805546 | 1.266766e-49 | -8.615850e-47 |
| Msa0050370 | Msa0731940 | 0.812053 | 5.144784e-51 | -8.615850e-47 |
| Msa0050370 | Msa0766630 | 0.803376 | 3.591180e-49 | -8.615850e-47 |
| Msa0050370 | Msa0768370 | 0.807050 | 6.106729e-50 | -8.615850e-47 |
| Msa0050370 | Msa0843260 | 0.817493 | 3.204181e-52 | -8.615850e-47 |
| Msa0050370 | Msa0899450 | 0.803879 | 2.823132e-49 | -8.615850e-47 |
| Msa0050370 | Msa0927380 | 0.801478 | 8.835755e-49 | -8.615850e-47 |
| Msa0050370 | Msa0931520 | 0.800485 | 1.409810e-48 | -8.615850e-47 |
| Msa0050370 | Msa0960720 | 0.802347 | 5.857449e-49 | -8.615850e-47 |
| Msa0050370 | Msa0964900 | 0.805394 | 1.363690e-49 | -8.615850e-47 |
| Msa0050370 | Msa0976670 | 0.800519 | 1.387688e-48 | -8.615850e-47 |
| Msa0050370 | Msa0994030 | 0.805344 | 1.396926e-49 | -8.615850e-47 |
| Msa0050370 | Msa1121450 | -0.809706 | 1.656979e-50 | -8.615850e-47 |
| Msa0050370 | Msa1197290 | 0.808950 | 2.407420e-50 | -8.615850e-47 |
| Msa0050370 | Msa1282580 | -0.829330 | 5.467189e-55 | -8.615850e-47 |
| Msa0050370 | Msa1451620 | -0.811848 | 5.701366e-51 | -8.615850e-47 |
| Msa0050370 | Msa1453560 | 0.813337 | 2.694330e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0050370 | MtrunA17_Chr4g0052371 | 80.488 | 123 | 13 | 4 | 1 | 123 | 1 | 112 | 1.07e-49 | 154 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 27 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACCAGCAGACGATTATTT+TGG | 0.182988 | 1_2:-4259482 | Msa0050370:intron |
| TCCATTGTCCGGAACTCTTT+TGG | 0.285431 | 1_2:-4259793 | Msa0050370:CDS |
| AGCCCTTCCCATTGGGTAAC+CGG | 0.373031 | 1_2:+4259821 | None:intergenic |
| TCAGAATTTAATTGAAATCA+AGG | 0.374856 | 1_2:-4259594 | Msa0050370:intron |
| TGCTGCAAAGCAGGCAGCCA+AGG | 0.380640 | 1_2:-4259416 | Msa0050370:CDS |
| TGAATTTGCCAAAAGAGTTC+CGG | 0.381401 | 1_2:+4259785 | None:intergenic |
| CTTCCGAACTTTAGTTGCCT+TGG | 0.396128 | 1_2:+4259399 | None:intergenic |
| GAGTAAAGCTGCTGCAAAGC+AGG | 0.435629 | 1_2:-4259425 | Msa0050370:CDS |
| AAATTCTGAGGAATGTTGTT+GGG | 0.453520 | 1_2:+4259608 | None:intergenic |
| GATTTCCAGCCCTTCCCATT+GGG | 0.460955 | 1_2:+4259814 | None:intergenic |
| TAAATTCTGAGGAATGTTGT+TGG | 0.462551 | 1_2:+4259607 | None:intergenic |
| CAAGCTTATGATTTCCTCAC+TGG | 0.467518 | 1_2:-4259648 | Msa0050370:CDS |
| TATTTCACCGGTTACCCAAT+GGG | 0.485770 | 1_2:-4259828 | Msa0050370:CDS |
| GGATTTCCAGCCCTTCCCAT+TGG | 0.493930 | 1_2:+4259813 | None:intergenic |
| CAGCCAAGGCAACTAAAGTT+CGG | 0.506043 | 1_2:-4259402 | Msa0050370:CDS |
| GCAGAAGGGGAAGAAAGTGT+TGG | 0.512031 | 1_2:-4259326 | Msa0050370:CDS |
| AGGGCTGGAAATCCATTGTC+CGG | 0.518611 | 1_2:-4259804 | Msa0050370:CDS |
| GGTTACCCAATGGGAAGGGC+TGG | 0.519884 | 1_2:-4259819 | Msa0050370:CDS |
| TTGATTTCAATTAAATTCTG+AGG | 0.525028 | 1_2:+4259596 | None:intergenic |
| GCCAAAAGAGTTCCGGACAA+TGG | 0.540316 | 1_2:+4259792 | None:intergenic |
| AGTAAAATTCATAAGCAGAA+GGG | 0.542068 | 1_2:-4259340 | Msa0050370:CDS |
| GTAAAATTCATAAGCAGAAG+GGG | 0.557860 | 1_2:-4259339 | Msa0050370:CDS |
| AAGTAAAATTCATAAGCAGA+AGG | 0.561096 | 1_2:-4259341 | Msa0050370:CDS |
| TCACCGGTTACCCAATGGGA+AGG | 0.566488 | 1_2:-4259824 | Msa0050370:CDS |
| ATATTTCACCGGTTACCCAA+TGG | 0.575674 | 1_2:-4259829 | Msa0050370:CDS |
| CACCGGTTACCCAATGGGAA+GGG | 0.575718 | 1_2:-4259823 | Msa0050370:CDS |
| TACTCTGTCGATATTCAGCA+AGG | 0.588341 | 1_2:+4259443 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATATTTTTGATTTCCACTA+TGG | + | chr1_2:4259329-4259348 | None:intergenic | 20.0% |
| !! | TTGATTTCAATTAAATTCTG+AGG | + | chr1_2:4259580-4259599 | None:intergenic | 20.0% |
| !! | TCAGAATTTAATTGAAATCA+AGG | - | chr1_2:4259579-4259598 | Msa0050370:intron | 20.0% |
| ! | GGAAATCAAAAATATTTCAC+CGG | - | chr1_2:4259333-4259352 | Msa0050370:CDS | 25.0% |
| ! | AAGTAAAATTCATAAGCAGA+AGG | - | chr1_2:4259832-4259851 | Msa0050370:CDS | 25.0% |
| ! | AGTAAAATTCATAAGCAGAA+GGG | - | chr1_2:4259833-4259852 | Msa0050370:CDS | 25.0% |
| ! | AACTCTTTTGGCAAATTCAA+AGG | - | chr1_2:4259392-4259411 | Msa0050370:CDS | 30.0% |
| ! | ATTCAAAGGCAAGTTTTTCT+TGG | - | chr1_2:4259406-4259425 | Msa0050370:CDS | 30.0% |
| ! | TTCAAAGGCAAGTTTTTCTT+GGG | - | chr1_2:4259407-4259426 | Msa0050370:CDS | 30.0% |
| ATATCACTCTTTATACCAAC+AGG | - | chr1_2:4259483-4259502 | Msa0050370:intron | 30.0% | |
| ! | AAATTCTGAGGAATGTTGTT+GGG | + | chr1_2:4259568-4259587 | None:intergenic | 30.0% |
| ! | TAAATTCTGAGGAATGTTGT+TGG | + | chr1_2:4259569-4259588 | None:intergenic | 30.0% |
| GTAAAATTCATAAGCAGAAG+GGG | - | chr1_2:4259834-4259853 | Msa0050370:CDS | 30.0% | |
| TGAATTTGCCAAAAGAGTTC+CGG | + | chr1_2:4259391-4259410 | None:intergenic | 35.0% | |
| ! | AAACCAGCAGACGATTATTT+TGG | - | chr1_2:4259691-4259710 | Msa0050370:intron | 35.0% |
| ! | ATATTTCACCGGTTACCCAA+TGG | - | chr1_2:4259344-4259363 | Msa0050370:CDS | 40.0% |
| ! | TATTTCACCGGTTACCCAAT+GGG | - | chr1_2:4259345-4259364 | Msa0050370:CDS | 40.0% |
| GTGACAATTCGTAATCCTGT+TGG | + | chr1_2:4259501-4259520 | None:intergenic | 40.0% | |
| CAAGCTTATGATTTCCTCAC+TGG | - | chr1_2:4259525-4259544 | Msa0050370:intron | 40.0% | |
| ! | CTTCAACTCTTTTTCCAGTG+AGG | + | chr1_2:4259542-4259561 | None:intergenic | 40.0% |
| CTCACTGGAAAAAGAGTTGA+AGG | - | chr1_2:4259540-4259559 | Msa0050370:intron | 40.0% | |
| TACTCTGTCGATATTCAGCA+AGG | + | chr1_2:4259733-4259752 | None:intergenic | 40.0% | |
| ! | TCCATTGTCCGGAACTCTTT+TGG | - | chr1_2:4259380-4259399 | Msa0050370:CDS | 45.0% |
| CCTCCAAAATAATCGTCTGC+TGG | + | chr1_2:4259697-4259716 | None:intergenic | 45.0% | |
| !!! | CCAGCAGACGATTATTTTGG+AGG | - | chr1_2:4259694-4259713 | Msa0050370:intron | 45.0% |
| CAGCCAAGGCAACTAAAGTT+CGG | - | chr1_2:4259771-4259790 | Msa0050370:intron | 45.0% | |
| CTTCCGAACTTTAGTTGCCT+TGG | + | chr1_2:4259777-4259796 | None:intergenic | 45.0% | |
| GATTTCCAGCCCTTCCCATT+GGG | + | chr1_2:4259362-4259381 | None:intergenic | 50.0% | |
| AGGGCTGGAAATCCATTGTC+CGG | - | chr1_2:4259369-4259388 | Msa0050370:CDS | 50.0% | |
| GCCAAAAGAGTTCCGGACAA+TGG | + | chr1_2:4259384-4259403 | None:intergenic | 50.0% | |
| CAGAGAATCAGAAGCGAGCA+TGG | + | chr1_2:4259440-4259459 | None:intergenic | 50.0% | |
| GAGTAAAGCTGCTGCAAAGC+AGG | - | chr1_2:4259748-4259767 | Msa0050370:intron | 50.0% | |
| ! | GCAGAAGGGGAAGAAAGTGT+TGG | - | chr1_2:4259847-4259866 | Msa0050370:CDS | 50.0% |
| ! | TCACCGGTTACCCAATGGGA+AGG | - | chr1_2:4259349-4259368 | Msa0050370:CDS | 55.0% |
| ! | CACCGGTTACCCAATGGGAA+GGG | - | chr1_2:4259350-4259369 | Msa0050370:CDS | 55.0% |
| AGCCCTTCCCATTGGGTAAC+CGG | + | chr1_2:4259355-4259374 | None:intergenic | 55.0% | |
| GGATTTCCAGCCCTTCCCAT+TGG | + | chr1_2:4259363-4259382 | None:intergenic | 55.0% | |
| TCAGAAGCGAGCATGGCTAC+AGG | + | chr1_2:4259433-4259452 | None:intergenic | 55.0% | |
| GGTTACCCAATGGGAAGGGC+TGG | - | chr1_2:4259354-4259373 | Msa0050370:CDS | 60.0% | |
| TGCTGCAAAGCAGGCAGCCA+AGG | - | chr1_2:4259757-4259776 | Msa0050370:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 4259318 | 4259877 | 4259318 | ID=Msa0050370;Name=Msa0050370 |
| chr1_2 | mRNA | 4259318 | 4259877 | 4259318 | ID=Msa0050370-mRNA-1;Parent=Msa0050370;Name=Msa0050370-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|0|0|1|1|1|3|0|123 |
| chr1_2 | exon | 4259782 | 4259877 | 4259782 | ID=Msa0050370-mRNA-1:exon:1051;Parent=Msa0050370-mRNA-1 |
| chr1_2 | exon | 4259595 | 4259690 | 4259595 | ID=Msa0050370-mRNA-1:exon:1050;Parent=Msa0050370-mRNA-1 |
| chr1_2 | exon | 4259318 | 4259497 | 4259318 | ID=Msa0050370-mRNA-1:exon:1049;Parent=Msa0050370-mRNA-1 |
| chr1_2 | CDS | 4259782 | 4259877 | 4259782 | ID=Msa0050370-mRNA-1:cds;Parent=Msa0050370-mRNA-1 |
| chr1_2 | CDS | 4259595 | 4259690 | 4259595 | ID=Msa0050370-mRNA-1:cds;Parent=Msa0050370-mRNA-1 |
| chr1_2 | CDS | 4259318 | 4259497 | 4259318 | ID=Msa0050370-mRNA-1:cds;Parent=Msa0050370-mRNA-1 |
| Gene Sequence |
| Protein sequence |
