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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1430940 | XP_003593258.1 | 90.000 | 100 | 4 | 1 | 1 | 100 | 1 | 94 | 1.37e-35 | 127 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa1430940 | 0.806601 | 7.600787e-50 | -8.615850e-47 |
| Msa0000220 | Msa1430940 | 0.882422 | 1.055856e-70 | -8.615850e-47 |
| Msa0001040 | Msa1430940 | 0.811719 | 6.083164e-51 | -8.615850e-47 |
| Msa0001420 | Msa1430940 | 0.817827 | 2.694372e-52 | -8.615850e-47 |
| Msa0001460 | Msa1430940 | 0.809317 | 2.008761e-50 | -8.615850e-47 |
| Msa0001510 | Msa1430940 | 0.854787 | 9.752520e-62 | -8.615850e-47 |
| Msa0001540 | Msa1430940 | 0.861582 | 9.272267e-64 | -8.615850e-47 |
| Msa0002060 | Msa1430940 | 0.824322 | 8.593519e-54 | -8.615850e-47 |
| Msa0002690 | Msa1430940 | 0.869418 | 3.142451e-66 | -8.615850e-47 |
| Msa0002700 | Msa1430940 | 0.873795 | 1.114748e-67 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1430940 | MtrunA17_Chr2g0279561 | 90.000 | 100 | 4 | 1 | 1 | 100 | 1 | 94 | 1.26e-39 | 127 |
| Msa1430940 | MtrunA17_Chr3g0087151 | 38.393 | 112 | 55 | 5 | 1 | 100 | 1 | 110 | 4.27e-12 | 60.1 |
Find 32 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATGGCTTCCATCAATTTC+TGG | 0.176747 | tig0026773:+49614 | None:intergenic |
| AATGAATGACCAGAAATTGA+TGG | 0.402882 | tig0026773:-49623 | Msa1430940:intergenic |
| ACACCTAAGTTTGGAATTGT+TGG | 0.404545 | tig0026773:-49766 | Msa1430940:intergenic |
| ACTGGCAGATTAGGTAGTGG+TGG | 0.639353 | tig0026773:-49715 | Msa1430930:intergenic |
| ACTTTAGGTGCTTATGGTTT+AGG | 0.331666 | tig0026773:-49907 | Msa1430940:intergenic |
| ATTACTGGAACACCTAAGTT+TGG | 0.371975 | tig0026773:-49775 | Msa1430940:intergenic |
| CCACAAATTCCTCAGATTCC+TGG | 0.389504 | tig0026773:+49871 | Msa1430940:CDS |
| CCAGGAACAGTAGGAATCTG+AGG | 0.611409 | tig0026773:-49844 | Msa1430930:intergenic |
| CCAGGAATCTGAGGAATTTG+TGG | 0.472835 | tig0026773:-49871 | Msa1430930:intergenic |
| CCTCAGATTCCTACTGTTCC+TGG | 0.290936 | tig0026773:+49844 | Msa1430940:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AATGAATGACCAGAAATTGA+TGG | - | tig0026773:49626-49645 | None:intergenic | 30.0% | |
| GAAAATGTTATGAGTAGAAG+TGG | - | tig0026773:49652-49671 | None:intergenic | 30.0% | |
| TTGCCAACAATTCCAAACTT+AGG | + | tig0026773:49763-49782 | Msa1430940:CDS | 35.0% | |
| ATTACTGGAACACCTAAGTT+TGG | - | tig0026773:49778-49797 | Msa1430940:intergenic | 35.0% | |
| GTTGGTACATTAGGGATTAC+TGG | - | tig0026773:49793-49812 | Msa1430940:intergenic | 40.0% | |
| GTAGGAATCTGAGGAATTTG+AGG | - | tig0026773:49838-49857 | Msa1430940:intergenic | 40.0% | |
| TGTGTTAATGGCAATGGCAC+TGG | - | tig0026773:49736-49755 | Msa1430940:intergenic | 45.0% | |
| TGTGGCTGTGTTAATGGCAA+TGG | - | tig0026773:49742-49761 | Msa1430940:intergenic | 45.0% | |
| GGCAATTGTGGCTGTGTTAA+TGG | - | tig0026773:49748-49767 | Msa1430940:intergenic | 45.0% | |
| CCAGGAATCTGAGGAATTTG+TGG | - | tig0026773:49874-49893 | Msa1430940:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0026773 | gene | 49616 | 49918 | 49616 | ID=Msa1430940;Name=Msa1430940 |
| tig0026773 | mRNA | 49616 | 49918 | 49616 | ID=Msa1430940-mRNA-1;Parent=Msa1430940;Name=Msa1430940-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|100 |
| tig0026773 | exon | 49616 | 49918 | 49616 | ID=Msa1430940-mRNA-1:exon:7289;Parent=Msa1430940-mRNA-1 |
| tig0026773 | CDS | 49616 | 49918 | 49616 | ID=Msa1430940-mRNA-1:cds;Parent=Msa1430940-mRNA-1 |
| Gene Sequence |
>Msa1430940 ATGGCTTCCATCAATTTCTGGTCATTCATTTTACCACTTCTACTCATAACATTTTCATCAATGACAAGTATTGAAGGAGCACGTAACCTTGTTGAGTTGCCACCACTACCTAATCTGCCAGTGCCATTGCCATTAACACAGCCACAATTGCCAACAATTCCAAACTTAGGTGTTCCAGTAATCCCTAATGTACCAACTTTGCCTCAAATACCAACTGTGCCTCAAATTCCTCAGATTCCTACTGTTCCTGGTGTGCCACAAATTCCTCAGATTCCTGGTGTGCCTAGTGTGCCTAAACCATAA |
| Protein sequence |
>Msa1430940 MASINFWSFILPLLLITFSSMTSIEGARNLVELPPLPNLPVPLPLTQPQLPTIPNLGVPVIPNVPTLPQIPTVPQIPQIPTVPGVPQIPQIPGVPSVPKP* |
