Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene46299.t1 | XP_013449813.1 | 91.1 | 158 | 5 | 3 | 1 | 157 | 1 | 150 | 1.20E-68 | 269.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene46299.t1 | C7AU21 | 48.0 | 102 | 53 | 0 | 56 | 157 | 79 | 180 | 8.3e-23 | 108.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene46299.t1 | A0A072U3B7 | 91.1 | 158 | 5 | 3 | 1 | 157 | 1 | 150 | 8.5e-69 | 269.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050397 | MS.gene46299 | 0.803963 | 2.71E-49 | -1.69E-46 |
| MS.gene050404 | MS.gene46299 | 0.832465 | 9.31E-56 | -1.69E-46 |
| MS.gene050406 | MS.gene46299 | 0.838782 | 2.34E-57 | -1.69E-46 |
| MS.gene050529 | MS.gene46299 | 0.821506 | 3.89E-53 | -1.69E-46 |
| MS.gene052310 | MS.gene46299 | 0.815647 | 8.30E-52 | -1.69E-46 |
| MS.gene052340 | MS.gene46299 | 0.810213 | 1.29E-50 | -1.69E-46 |
| MS.gene053330 | MS.gene46299 | 0.801461 | 8.91E-49 | -1.69E-46 |
| MS.gene053971 | MS.gene46299 | 0.821069 | 4.91E-53 | -1.69E-46 |
| MS.gene054349 | MS.gene46299 | 0.81109 | 8.33E-51 | -1.69E-46 |
| MS.gene055370 | MS.gene46299 | 0.813776 | 2.16E-51 | -1.69E-46 |
| MS.gene056451 | MS.gene46299 | 0.835357 | 1.76E-56 | -1.69E-46 |
| MS.gene056659 | MS.gene46299 | 0.814676 | 1.36E-51 | -1.69E-46 |
| MS.gene056664 | MS.gene46299 | 0.830874 | 2.30E-55 | -1.69E-46 |
| MS.gene056899 | MS.gene46299 | -0.80006 | 1.72E-48 | -1.69E-46 |
| MS.gene05702 | MS.gene46299 | 0.812138 | 4.93E-51 | -1.69E-46 |
| MS.gene057749 | MS.gene46299 | 0.812091 | 5.05E-51 | -1.69E-46 |
| MS.gene058233 | MS.gene46299 | 0.840046 | 1.10E-57 | -1.69E-46 |
| MS.gene058746 | MS.gene46299 | 0.817323 | 3.50E-52 | -1.69E-46 |
| MS.gene058928 | MS.gene46299 | 0.807246 | 5.55E-50 | -1.69E-46 |
| MS.gene059285 | MS.gene46299 | 0.804349 | 2.25E-49 | -1.69E-46 |
| MS.gene059894 | MS.gene46299 | 0.802309 | 5.96E-49 | -1.69E-46 |
| MS.gene060407 | MS.gene46299 | 0.812531 | 4.05E-51 | -1.69E-46 |
| MS.gene061049 | MS.gene46299 | 0.81411 | 1.82E-51 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene46299.t1 | MTR_7g095920 | 91.139 | 158 | 5 | 3 | 1 | 157 | 1 | 150 | 1.18e-98 | 284 |
| MS.gene46299.t1 | MTR_1g471050 | 52.866 | 157 | 70 | 3 | 1 | 157 | 1 | 153 | 2.01e-52 | 167 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene46299.t1 | AT1G03055 | 39.831 | 118 | 65 | 2 | 46 | 157 | 50 | 167 | 6.08e-22 | 87.4 |
| MS.gene46299.t1 | AT1G03055 | 39.831 | 118 | 65 | 2 | 46 | 157 | 50 | 167 | 2.46e-21 | 87.4 |
Find 27 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGTTCTTTACTTGGTTACT+TGG | 0.266301 | 7.3:+15333125 | MS.gene46299:CDS |
| CCTTGTTGAGGCAGCTACTA+TGG | 0.314275 | 7.3:+15332863 | MS.gene46299:CDS |
| TCTGTAATGTCATGATTTGA+AGG | 0.353713 | 7.3:-15332631 | None:intergenic |
| CTAATGTCTACAAAGATAAC+TGG | 0.401094 | 7.3:+15332677 | MS.gene46299:CDS |
| CTTGTAAATTTAGGTGGTAG+TGG | 0.406057 | 7.3:-15333077 | None:intergenic |
| TCACCACTATGTTCTTTACT+TGG | 0.413302 | 7.3:+15333117 | MS.gene46299:CDS |
| CACTACCACCTAAATTTACA+AGG | 0.429034 | 7.3:+15333078 | MS.gene46299:CDS |
| GTTACCATTCAAGCTCTTGA+AGG | 0.469565 | 7.3:+15332921 | MS.gene46299:CDS |
| GAGTCCTTCAAGAGCTTGAA+TGG | 0.470597 | 7.3:-15332925 | None:intergenic |
| CCCACAGTTTGTATTTGCAT+TGG | 0.474798 | 7.3:+15332950 | MS.gene46299:CDS |
| TGTTCTTTACTTGGTTACTT+GGG | 0.479606 | 7.3:+15333126 | MS.gene46299:CDS |
| ACTATAGAAGTTGGATGTTG+AGG | 0.505938 | 7.3:-15332592 | None:intergenic |
| AGCACGGCAACTATAGAAGT+TGG | 0.508359 | 7.3:-15332601 | None:intergenic |
| GTTGAGGTTTATGTTTGATG+AGG | 0.512812 | 7.3:-15332576 | None:intergenic |
| TAATGCTATTCAACAGCAAG+AGG | 0.529114 | 7.3:+15332899 | MS.gene46299:CDS |
| ACCAATGCAAATACAAACTG+TGG | 0.535997 | 7.3:-15332951 | None:intergenic |
| ATTTGAAGGCTTTCTAAGCA+CGG | 0.562335 | 7.3:-15332617 | None:intergenic |
| AATTCCCTTGTAAATTTAGG+TGG | 0.568975 | 7.3:-15333083 | None:intergenic |
| TGAACCTGTGGCAGCTTGAA+CGG | 0.569981 | 7.3:-15332734 | None:intergenic |
| AAAACCGTTCAAGCTGCCAC+AGG | 0.594953 | 7.3:+15332730 | MS.gene46299:CDS |
| CCATAGTAGCTGCCTCAACA+AGG | 0.595349 | 7.3:-15332863 | None:intergenic |
| TTGGTTACTTGGGCCATCCG+AGG | 0.598797 | 7.3:+15333136 | MS.gene46299:CDS |
| TAACCAAGTAAAGAACATAG+TGG | 0.616885 | 7.3:-15333120 | None:intergenic |
| TGGCTATGAGAGCCTTGTTG+AGG | 0.620691 | 7.3:+15332851 | MS.gene46299:CDS |
| CCAATGCAAATACAAACTGT+GGG | 0.624542 | 7.3:-15332950 | None:intergenic |
| GGACTCAGAAACAATAAGAG+TGG | 0.655708 | 7.3:+15332831 | MS.gene46299:intron |
| ACTACCACCTAAATTTACAA+GGG | 0.671104 | 7.3:+15333079 | MS.gene46299:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAATTCCCTTGTAAATTT+AGG | - | chr7.3:15333089-15333108 | None:intergenic | 20.0% |
| !! | AACAATTGAATTACAACAAA+AGG | - | chr7.3:15332767-15332786 | None:intergenic | 20.0% |
| !! | ACAATTGAATTACAACAAAA+GGG | - | chr7.3:15332766-15332785 | None:intergenic | 20.0% |
| !! | GAAATTACAATGCTTAAAAA+TGG | - | chr7.3:15333009-15333028 | None:intergenic | 20.0% |
| ! | GCATAAAAACAATTTCATTG+TGG | - | chr7.3:15333031-15333050 | None:intergenic | 25.0% |
| ! | GTAATTCAATTGTTATCTCA+AGG | + | chr7.3:15332773-15332792 | MS.gene46299:intron | 25.0% |
| !! | TTGTAGTTTTTATTCTTTGC+AGG | + | chr7.3:15332810-15332829 | MS.gene46299:intron | 25.0% |
| !!! | GTTGTTTCTTTATCTGTAAT+TGG | - | chr7.3:15333058-15333077 | None:intergenic | 25.0% |
| AATTCCCTTGTAAATTTAGG+TGG | - | chr7.3:15333086-15333105 | None:intergenic | 30.0% | |
| ACTACCACCTAAATTTACAA+GGG | + | chr7.3:15333079-15333098 | MS.gene46299:CDS | 30.0% | |
| ATGTTCTTTACTTGGTTACT+TGG | + | chr7.3:15333125-15333144 | MS.gene46299:CDS | 30.0% | |
| CTAATGTCTACAAAGATAAC+TGG | + | chr7.3:15332677-15332696 | MS.gene46299:CDS | 30.0% | |
| TAACCAAGTAAAGAACATAG+TGG | - | chr7.3:15333123-15333142 | None:intergenic | 30.0% | |
| TCTGTAATGTCATGATTTGA+AGG | - | chr7.3:15332634-15332653 | None:intergenic | 30.0% | |
| TGTTCTTTACTTGGTTACTT+GGG | + | chr7.3:15333126-15333145 | MS.gene46299:CDS | 30.0% | |
| ! | CTTGAACGGTTTTTGATAAA+TGG | - | chr7.3:15332723-15332742 | None:intergenic | 30.0% |
| ACCAATGCAAATACAAACTG+TGG | - | chr7.3:15332954-15332973 | None:intergenic | 35.0% | |
| ACTATAGAAGTTGGATGTTG+AGG | - | chr7.3:15332595-15332614 | None:intergenic | 35.0% | |
| ATTTGAAGGCTTTCTAAGCA+CGG | - | chr7.3:15332620-15332639 | None:intergenic | 35.0% | |
| CACTACCACCTAAATTTACA+AGG | + | chr7.3:15333078-15333097 | MS.gene46299:CDS | 35.0% | |
| CCAATGCAAATACAAACTGT+GGG | - | chr7.3:15332953-15332972 | None:intergenic | 35.0% | |
| CTTGTAAATTTAGGTGGTAG+TGG | - | chr7.3:15333080-15333099 | None:intergenic | 35.0% | |
| GTTGAGGTTTATGTTTGATG+AGG | - | chr7.3:15332579-15332598 | None:intergenic | 35.0% | |
| TAATGCTATTCAACAGCAAG+AGG | + | chr7.3:15332899-15332918 | MS.gene46299:CDS | 35.0% | |
| TCACCACTATGTTCTTTACT+TGG | + | chr7.3:15333117-15333136 | MS.gene46299:CDS | 35.0% | |
| CCCACAGTTTGTATTTGCAT+TGG | + | chr7.3:15332950-15332969 | MS.gene46299:CDS | 40.0% | |
| GGACTCAGAAACAATAAGAG+TGG | + | chr7.3:15332831-15332850 | MS.gene46299:intron | 40.0% | |
| GTTACCATTCAAGCTCTTGA+AGG | + | chr7.3:15332921-15332940 | MS.gene46299:CDS | 40.0% | |
| ! | AAAGGGTATGTATGAACCTG+TGG | - | chr7.3:15332749-15332768 | None:intergenic | 40.0% |
| AGCACGGCAACTATAGAAGT+TGG | - | chr7.3:15332604-15332623 | None:intergenic | 45.0% | |
| GAGTCCTTCAAGAGCTTGAA+TGG | - | chr7.3:15332928-15332947 | None:intergenic | 45.0% | |
| AAAACCGTTCAAGCTGCCAC+AGG | + | chr7.3:15332730-15332749 | MS.gene46299:CDS | 50.0% | |
| CCATAGTAGCTGCCTCAACA+AGG | - | chr7.3:15332866-15332885 | None:intergenic | 50.0% | |
| CCTTGTTGAGGCAGCTACTA+TGG | + | chr7.3:15332863-15332882 | MS.gene46299:CDS | 50.0% | |
| TGAACCTGTGGCAGCTTGAA+CGG | - | chr7.3:15332737-15332756 | None:intergenic | 50.0% | |
| !! | TGGCTATGAGAGCCTTGTTG+AGG | + | chr7.3:15332851-15332870 | MS.gene46299:CDS | 50.0% |
| TTGGTTACTTGGGCCATCCG+AGG | + | chr7.3:15333136-15333155 | MS.gene46299:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.3 | gene | 15332517 | 15333163 | 15332517 | ID=MS.gene46299 |
| chr7.3 | mRNA | 15332517 | 15333163 | 15332517 | ID=MS.gene46299.t1;Parent=MS.gene46299 |
| chr7.3 | exon | 15332517 | 15332751 | 15332517 | ID=MS.gene46299.t1.exon1;Parent=MS.gene46299.t1 |
| chr7.3 | CDS | 15332517 | 15332751 | 15332517 | ID=cds.MS.gene46299.t1;Parent=MS.gene46299.t1 |
| chr7.3 | exon | 15332832 | 15332971 | 15332832 | ID=MS.gene46299.t1.exon2;Parent=MS.gene46299.t1 |
| chr7.3 | CDS | 15332832 | 15332971 | 15332832 | ID=cds.MS.gene46299.t1;Parent=MS.gene46299.t1 |
| chr7.3 | exon | 15333065 | 15333163 | 15333065 | ID=MS.gene46299.t1.exon3;Parent=MS.gene46299.t1 |
| chr7.3 | CDS | 15333065 | 15333163 | 15333065 | ID=cds.MS.gene46299.t1;Parent=MS.gene46299.t1 |
| Gene Sequence |
| Protein sequence |
