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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1044450 | XP_013454560.1 | 96.127 | 284 | 10 | 1 | 14 | 297 | 17 | 299 | 0.0 | 535 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1044450 | A0A072UGM0 | 96.127 | 284 | 10 | 1 | 14 | 297 | 17 | 299 | 0.0 | 535 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0005690 | Msa1044450 | 0.833295 | 5.788099e-56 | -8.615850e-47 |
| Msa0007230 | Msa1044450 | 0.820632 | 6.190774e-53 | -8.615850e-47 |
| Msa0008330 | Msa1044450 | 0.861900 | 7.411290e-64 | -8.615850e-47 |
| Msa0008850 | Msa1044450 | 0.807177 | 5.742389e-50 | -8.615850e-47 |
| Msa0012740 | Msa1044450 | 0.822750 | 2.004237e-53 | -8.615850e-47 |
| Msa0014790 | Msa1044450 | 0.819755 | 9.829227e-53 | -8.615850e-47 |
| Msa0014970 | Msa1044450 | 0.808413 | 3.134950e-50 | -8.615850e-47 |
| Msa0017420 | Msa1044450 | 0.818469 | 1.928237e-52 | -8.615850e-47 |
| Msa0018870 | Msa1044450 | 0.811289 | 7.541253e-51 | -8.615850e-47 |
| Msa0021980 | Msa1044450 | 0.887666 | 1.167203e-72 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1044450 | MtrunA17_Chr4g0002121 | 96.127 | 284 | 10 | 1 | 14 | 297 | 17 | 299 | 0.0 | 535 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1044450 | AT1G16080.1 | 72.542 | 295 | 81 | 0 | 3 | 297 | 19 | 313 | 4.02e-155 | 436 |
Find 107 sgRNAs with CRISPR-Local
Find 222 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACCACTCCTCTTTCGAGA+TGG | 0.539592 | 7_2:-2792308 | Msa1044450:CDS |
| AAACCTTTACTCTCAAGCCA+CGG | 0.646640 | 7_2:+2791727 | None:intergenic |
| AAAGATCTTGTTGTGAAACG+TGG | 0.716380 | 7_2:-2792405 | Msa1044450:CDS |
| AAAGCTTACTTACTTCAAGG+TGG | 0.643257 | 7_2:+2790791 | None:intergenic |
| AACAAGTAGTAGTACTACAA+AGG | 0.631659 | 7_2:+2789287 | None:intergenic |
| AAGACTGATACCAATCCTGA+AGG | 0.623096 | 7_2:-2791637 | Msa1044450:CDS |
| AAGAGTAATTAGTTACTTAC+AGG | 0.250201 | 7_2:-2789368 | Msa1044450:three_prime_UTR |
| AAGCGCTGTTGCTGTAAGAG+TGG | 0.643492 | 7_2:+2792554 | None:intergenic |
| AAGGTATAAGGATTAGCCAT+GGG | 0.564526 | 7_2:+2789104 | None:intergenic |
| AAGTCTACACATATAGCTAA+TGG | 0.412739 | 7_2:+2789407 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AATAGGACCTTCAAAATCAA+CGG | + | chr7_2:2789596-2789615 | None:intergenic | 30.0% | |
| CCTAAAGAATGTGAAACTTA+TGG | + | chr7_2:2789708-2789727 | None:intergenic | 30.0% | |
| CCATAAGTTTCACATTCTTT+AGG | - | chr7_2:2789705-2789724 | Msa1044450:intron | 30.0% | |
| CCTAAAGATTGTGATACTTA+TGG | + | chr7_2:2789769-2789788 | None:intergenic | 30.0% | |
| CCATAAGTATCACAATCTTT+AGG | - | chr7_2:2789766-2789785 | Msa1044450:intron | 30.0% | |
| TATGCGTTGAAAGTTCTATA+TGG | - | chr7_2:2789902-2789921 | Msa1044450:intron | 30.0% | |
| AATGAGTTGTTACTATCGTT+TGG | - | chr7_2:2790174-2790193 | Msa1044450:intron | 30.0% | |
| AGAGTAAAGGTTTGAAAGAT+GGG | - | chr7_2:2790247-2790266 | Msa1044450:intron | 30.0% | |
| TATCAGTCTTACCATCAATA+GGG | + | chr7_2:2790317-2790336 | None:intergenic | 30.0% | |
| GTAACCAAAACAAGAAAACT+TGG | + | chr7_2:2790464-2790483 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 2789117 | 2792869 | 2789117 | ID=Msa1044450;Name=Msa1044450 |
| chr7_2 | mRNA | 2789117 | 2792869 | 2789117 | ID=Msa1044450-mRNA-1;Parent=Msa1044450;Name=Msa1044450-mRNA-1;_AED=0.02;_eAED=0.02;_QI=265|1|1|1|1|1|5|355|297 |
| chr7_2 | exon | 2789117 | 2789585 | 2789117 | ID=Msa1044450-mRNA-1:exon:756;Parent=Msa1044450-mRNA-1 |
| chr7_2 | exon | 2789983 | 2790114 | 2789983 | ID=Msa1044450-mRNA-1:exon:755;Parent=Msa1044450-mRNA-1 |
| chr7_2 | exon | 2790804 | 2790932 | 2790804 | ID=Msa1044450-mRNA-1:exon:754;Parent=Msa1044450-mRNA-1 |
| chr7_2 | exon | 2791564 | 2791781 | 2791564 | ID=Msa1044450-mRNA-1:exon:753;Parent=Msa1044450-mRNA-1 |
| chr7_2 | exon | 2792304 | 2792869 | 2792304 | ID=Msa1044450-mRNA-1:exon:752;Parent=Msa1044450-mRNA-1 |
| chr7_2 | five_prime_UTR | 2792605 | 2792869 | 2792605 | ID=Msa1044450-mRNA-1:five_prime_utr;Parent=Msa1044450-mRNA-1 |
| chr7_2 | CDS | 2792304 | 2792604 | 2792304 | ID=Msa1044450-mRNA-1:cds;Parent=Msa1044450-mRNA-1 |
| chr7_2 | CDS | 2791564 | 2791781 | 2791564 | ID=Msa1044450-mRNA-1:cds;Parent=Msa1044450-mRNA-1 |
| chr7_2 | CDS | 2790804 | 2790932 | 2790804 | ID=Msa1044450-mRNA-1:cds;Parent=Msa1044450-mRNA-1 |
| chr7_2 | CDS | 2789983 | 2790114 | 2789983 | ID=Msa1044450-mRNA-1:cds;Parent=Msa1044450-mRNA-1 |
| chr7_2 | CDS | 2789472 | 2789585 | 2789472 | ID=Msa1044450-mRNA-1:cds;Parent=Msa1044450-mRNA-1 |
| chr7_2 | three_prime_UTR | 2789117 | 2789471 | 2789117 | ID=Msa1044450-mRNA-1:three_prime_utr;Parent=Msa1044450-mRNA-1 |
| Gene Sequence |
>Msa1044450 ATGTCTTTCTCTCTCTGTAGCTTTTCCTCCACTCTTACAGCAACAGCGCTTCCCAAGAATTTCAGATTCAGAGTCTCTTCCGCCATGGCTTCTACCGTCACCACCACTAAAGTTGCTCCGGCCGTCATTGTCGGCGGTGGAAGAGTTGGAAAAGCTTTAGAAGGTATGGGAGATGGTAAAGATCTTGTTGTGAAACGTGGTGATTCAATTCCCGTTGATTTTGAAGGTCCTATTTTGGTTTGTACTAGAAATGATGATCTTGATTCTGTTCTTCAAACCACTCCTCTTTCGAGATGGAAAGATTTGGTGTTTTTCCAGAATGGAATGTTGGAACCGTGGCTTGAGAGTAAAGGTTTGAAAGATGGGAACCAAGTGTTGGCATATTTCGCAGTGTCAAAACTTGGAGAGTCCCCTATTGATGGTAAGACTGATACCAATCCTGAAGGATTGACAGCTGCTTATGGCAAGTGGTCTTTGGCTGTTTCTGAAAGATTGAAAGCTGGAGGCCTCTCTTGCAAGGTTTTGGATAAGGAAGCATTTCAAAAGCAGATGTTAGAGAAGCTCATATGGATTTGTTCTGTCATGCTTGTTGGAGCGCGTCATGGAGGGGTTTCTGTTGGTGTTGTGGAAAAGGAATTCCACCTTGAATTATGTAGCCTGATAGCAGAACTAGCATCAGCAGCAGCTAGTGAAAAGGGGTTAAAGTTTGAAGAAGCCATGGAAGACCGTTTGTGTGCGTACTCCCGAGCTGTTGCTCACTTTCCCACGGCAGTTAAGGAGTTCAAATGGAGGAATGGTTGGTTTTATGCTCTTTCTGAGAAGGCTATTGCCCAAGGCAAGCAGGATCCATGTCCTATGCATACCAAATGGCTTAAAGAGTTGAAAATTGTATAA |
| Protein sequence |
>Msa1044450 MSFSLCSFSSTLTATALPKNFRFRVSSAMASTVTTTKVAPAVIVGGGRVGKALEGMGDGKDLVVKRGDSIPVDFEGPILVCTRNDDLDSVLQTTPLSRWKDLVFFQNGMLEPWLESKGLKDGNQVLAYFAVSKLGESPIDGKTDTNPEGLTAAYGKWSLAVSERLKAGGLSCKVLDKEAFQKQMLEKLIWICSVMLVGARHGGVSVGVVEKEFHLELCSLIAELASAAASEKGLKFEEAMEDRLCAYSRAVAHFPTAVKEFKWRNGWFYALSEKAIAQGKQDPCPMHTKWLKELKIV* |
