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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0684850 | XP_013456236.1 | 95.238 | 84 | 2 | 1 | 1 | 84 | 1 | 82 | 2.23e-49 | 160 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0684850 | A0A072UKM6 | 95.238 | 84 | 2 | 1 | 1 | 84 | 1 | 82 | 1.07e-49 | 160 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0032610 | Msa0684850 | 0.802286 | 6.029085e-49 | -8.615850e-47 |
| Msa0044710 | Msa0684850 | 0.810479 | 1.129213e-50 | -8.615850e-47 |
| Msa0119850 | Msa0684850 | 0.816637 | 4.991801e-52 | -8.615850e-47 |
| Msa0632830 | Msa0684850 | 0.844060 | 9.553086e-59 | -8.615850e-47 |
| Msa0647450 | Msa0684850 | -0.809722 | 1.644398e-50 | -8.615850e-47 |
| Msa0684850 | Msa0795920 | 0.833584 | 4.902958e-56 | -8.615850e-47 |
| Msa0684850 | Msa0801360 | 0.801996 | 6.918223e-49 | -8.615850e-47 |
| Msa0684850 | Msa0842210 | 0.816496 | 5.365957e-52 | -8.615850e-47 |
| Msa0684850 | Msa1132890 | 0.812416 | 4.286453e-51 | -8.615850e-47 |
| Msa0684850 | Msa1174870 | 0.824009 | 1.017934e-53 | -8.615850e-47 |
| Msa0684850 | Msa1187520 | 0.810278 | 1.247969e-50 | -8.615850e-47 |
| Msa0684850 | Msa1204980 | -0.819313 | 1.240126e-52 | -8.615850e-47 |
| Msa0684850 | Msa1205010 | -0.817040 | 4.053269e-52 | -8.615850e-47 |
| Msa0684850 | Msa1234690 | 0.825735 | 3.985329e-54 | -8.615850e-47 |
| Msa0684850 | Msa1234730 | 0.820525 | 6.551323e-53 | -8.615850e-47 |
| Msa0684850 | Msa1256540 | -0.805954 | 1.040186e-49 | -8.615850e-47 |
| Msa0684850 | Msa1260130 | 0.800270 | 1.558968e-48 | -8.615850e-47 |
| Msa0684850 | Msa1282920 | 0.824525 | 7.699513e-54 | -8.615850e-47 |
| Msa0684850 | Msa1300050 | 0.811856 | 5.677487e-51 | -8.615850e-47 |
| Msa0684850 | Msa1315110 | 0.820608 | 6.270210e-53 | -8.615850e-47 |
| Msa0684850 | Msa1322190 | 0.804434 | 2.164736e-49 | -8.615850e-47 |
| Msa0684850 | Msa1427830 | 0.801256 | 9.810689e-49 | -8.615850e-47 |
| Msa0684850 | Msa1465960 | 0.806708 | 7.214563e-50 | -8.615850e-47 |
| Msa0173000 | Msa0684850 | 0.802960 | 4.377437e-49 | -8.615850e-47 |
| Msa0182930 | Msa0684850 | 0.802238 | 6.168705e-49 | -8.615850e-47 |
| Msa0185640 | Msa0684850 | -0.810217 | 1.286495e-50 | -8.615850e-47 |
| Msa0467900 | Msa0684850 | -0.800698 | 1.275507e-48 | -8.615850e-47 |
| Msa0267310 | Msa0684850 | 0.814303 | 1.649983e-51 | -8.615850e-47 |
| Msa0549040 | Msa0684850 | 0.805052 | 1.608168e-49 | -8.615850e-47 |
| Msa0553220 | Msa0684850 | -0.805122 | 1.554766e-49 | -8.615850e-47 |
| Msa0580420 | Msa0684850 | 0.827406 | 1.592466e-54 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0684850 | MtrunA17_Chr4g0033121 | 95.238 | 84 | 2 | 1 | 1 | 84 | 1 | 82 | 2.06e-53 | 160 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 16 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAAAGTTAACACTTTGTTCT+TGG | 0.265427 | 4_4:+48469258 | Msa0684850:CDS |
| TCATGAAACCTAACAACTTA+AGG | 0.327541 | 4_4:-48469711 | None:intergenic |
| ATAAGATATATCATCATATA+TGG | 0.365739 | 4_4:-48469846 | None:intergenic |
| CTAACAACTTAAGGTTCAAA+AGG | 0.365834 | 4_4:-48469702 | None:intergenic |
| TTTGCAAGGTTTAAGAATGA+AGG | 0.443415 | 4_4:+48469603 | Msa0684850:CDS |
| TTGTTGTGATGAAGAGGGTC+AGG | 0.472110 | 4_4:-48469675 | None:intergenic |
| GATATTAGGTTGCATTTGCA+AGG | 0.488673 | 4_4:+48469589 | Msa0684850:intron |
| TAACAACTTAAGGTTCAAAA+GGG | 0.507728 | 4_4:-48469701 | None:intergenic |
| TCAGCAAGAGAAGTTCCAAC+TGG | 0.518114 | 4_4:+48469651 | Msa0684850:CDS |
| AAGAATGAAGGAGTAACTGT+TGG | 0.526498 | 4_4:+48469615 | Msa0684850:CDS |
| GGGTTATTGTTGTGATGAAG+AGG | 0.548786 | 4_4:-48469681 | None:intergenic |
| GGTTATTGTTGTGATGAAGA+GGG | 0.581176 | 4_4:-48469680 | None:intergenic |
| TGAAGAGGGTCAGGTCCAGT+TGG | 0.596354 | 4_4:-48469666 | None:intergenic |
| ATTTATCGTTCAAACATGGA+AGG | 0.596798 | 4_4:+48469422 | Msa0684850:CDS |
| TCGTATTTATCGTTCAAACA+TGG | 0.631736 | 4_4:+48469418 | Msa0684850:CDS |
| TATCGTTCAAACATGGAAGG+AGG | 0.633179 | 4_4:+48469425 | Msa0684850:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATATTTTCAATTTTGATTTA+TGG | + | chr4_4:48469767-48469786 | Msa0684850:three_prime_UTR | 10.0% |
| !!! | AAAATGAAAACTTTGTTTTT+TGG | + | chr4_4:48469497-48469516 | Msa0684850:intron | 15.0% |
| !!! | CTTTTTTTTCTTTTGATATT+AGG | + | chr4_4:48469575-48469594 | Msa0684850:intron | 15.0% |
| !! | ATAAGATATATCATCATATA+TGG | - | chr4_4:48469849-48469868 | None:intergenic | 15.0% |
| !!! | CTTTTTTCTTCTTTTCTATT+TGG | + | chr4_4:48469199-48469218 | Msa0684850:five_prime_UTR | 20.0% |
| !!! | ATTAGTTTTTCTTGGTTTTT+GGG | + | chr4_4:48469359-48469378 | Msa0684850:intron | 20.0% |
| !! | CAATAATGATATCAAAAACA+TGG | - | chr4_4:48469394-48469413 | None:intergenic | 20.0% |
| !! | TATTAACATAGACCAAAAAA+GGG | - | chr4_4:48469547-48469566 | None:intergenic | 20.0% |
| !! | TTATTAACATAGACCAAAAA+AGG | - | chr4_4:48469548-48469567 | None:intergenic | 20.0% |
| !! | TTGGTCTATGTTAATAAAAA+TGG | + | chr4_4:48469551-48469570 | Msa0684850:intron | 20.0% |
| !! | TTCTTCATCTTCATTGTTTT+AGG | - | chr4_4:48469241-48469260 | None:intergenic | 25.0% |
| !!! | CATTAGTTTTTCTTGGTTTT+TGG | + | chr4_4:48469358-48469377 | Msa0684850:intron | 25.0% |
| ! | TAACAACTTAAGGTTCAAAA+GGG | - | chr4_4:48469704-48469723 | None:intergenic | 25.0% |
| GAAAGTTAACACTTTGTTCT+TGG | + | chr4_4:48469258-48469277 | Msa0684850:CDS | 30.0% | |
| TAATGAAGAGTGATTGAACA+TGG | - | chr4_4:48469343-48469362 | None:intergenic | 30.0% | |
| !!! | CACTCTTCATTAGTTTTTCT+TGG | + | chr4_4:48469351-48469370 | Msa0684850:intron | 30.0% |
| TCGTATTTATCGTTCAAACA+TGG | + | chr4_4:48469418-48469437 | Msa0684850:CDS | 30.0% | |
| ATTTATCGTTCAAACATGGA+AGG | + | chr4_4:48469422-48469441 | Msa0684850:CDS | 30.0% | |
| !! | AAACATAGCAAAAAGCATTG+AGG | + | chr4_4:48469454-48469473 | Msa0684850:CDS | 30.0% |
| !!! | GAACTTTCAAAACCCTTTTT+TGG | + | chr4_4:48469532-48469551 | Msa0684850:intron | 30.0% |
| TTTGCAAGGTTTAAGAATGA+AGG | + | chr4_4:48469603-48469622 | Msa0684850:CDS | 30.0% | |
| CTAACAACTTAAGGTTCAAA+AGG | - | chr4_4:48469705-48469724 | None:intergenic | 30.0% | |
| !! | CTTTTGAACCTTAAGTTGTT+AGG | + | chr4_4:48469703-48469722 | Msa0684850:exon | 30.0% |
| TCATGAAACCTAACAACTTA+AGG | - | chr4_4:48469714-48469733 | None:intergenic | 30.0% | |
| ! | GATATTAGGTTGCATTTGCA+AGG | + | chr4_4:48469589-48469608 | Msa0684850:intron | 35.0% |
| AAGAATGAAGGAGTAACTGT+TGG | + | chr4_4:48469615-48469634 | Msa0684850:CDS | 35.0% | |
| GGTTATTGTTGTGATGAAGA+GGG | - | chr4_4:48469683-48469702 | None:intergenic | 35.0% | |
| TATCGTTCAAACATGGAAGG+AGG | + | chr4_4:48469425-48469444 | Msa0684850:CDS | 40.0% | |
| GGGTTATTGTTGTGATGAAG+AGG | - | chr4_4:48469684-48469703 | None:intergenic | 40.0% | |
| TCAGCAAGAGAAGTTCCAAC+TGG | + | chr4_4:48469651-48469670 | Msa0684850:CDS | 45.0% | |
| TTGTTGTGATGAAGAGGGTC+AGG | - | chr4_4:48469678-48469697 | None:intergenic | 45.0% | |
| TGAAGAGGGTCAGGTCCAGT+TGG | - | chr4_4:48469669-48469688 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 48469199 | 48469905 | 48469199 | ID=Msa0684850;Name=Msa0684850 |
| chr4_4 | mRNA | 48469199 | 48469905 | 48469199 | ID=Msa0684850-mRNA-1;Parent=Msa0684850;Name=Msa0684850-mRNA-1;_AED=0.01;_eAED=0.01;_QI=48|1|1|1|1|1|3|189|84 |
| chr4_4 | exon | 48469199 | 48469322 | 48469199 | ID=Msa0684850-mRNA-1:exon:11977;Parent=Msa0684850-mRNA-1 |
| chr4_4 | exon | 48469417 | 48469475 | 48469417 | ID=Msa0684850-mRNA-1:exon:11978;Parent=Msa0684850-mRNA-1 |
| chr4_4 | exon | 48469597 | 48469905 | 48469597 | ID=Msa0684850-mRNA-1:exon:11979;Parent=Msa0684850-mRNA-1 |
| chr4_4 | five_prime_UTR | 48469199 | 48469246 | 48469199 | ID=Msa0684850-mRNA-1:five_prime_utr;Parent=Msa0684850-mRNA-1 |
| chr4_4 | CDS | 48469247 | 48469322 | 48469247 | ID=Msa0684850-mRNA-1:cds;Parent=Msa0684850-mRNA-1 |
| chr4_4 | CDS | 48469417 | 48469475 | 48469417 | ID=Msa0684850-mRNA-1:cds;Parent=Msa0684850-mRNA-1 |
| chr4_4 | CDS | 48469597 | 48469716 | 48469597 | ID=Msa0684850-mRNA-1:cds;Parent=Msa0684850-mRNA-1 |
| chr4_4 | three_prime_UTR | 48469717 | 48469905 | 48469717 | ID=Msa0684850-mRNA-1:three_prime_utr;Parent=Msa0684850-mRNA-1 |
| Gene Sequence |
| Protein sequence |
