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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528870 | XP_003599124.1 | 96.311 | 244 | 7 | 2 | 1 | 244 | 1 | 242 | 4.91e-167 | 471 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528870 | sp|P82658|TL19_ARATH | 74.194 | 186 | 46 | 1 | 60 | 243 | 41 | 226 | 1.29e-104 | 305 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa0528870 | 0.853984 | 1.664295e-61 | -8.615850e-47 |
| Msa0000780 | Msa0528870 | 0.822716 | 2.041387e-53 | -8.615850e-47 |
| Msa0001420 | Msa0528870 | 0.859419 | 4.191016e-63 | -8.615850e-47 |
| Msa0001460 | Msa0528870 | 0.812613 | 3.882121e-51 | -8.615850e-47 |
| Msa0001540 | Msa0528870 | 0.886030 | 4.872302e-72 | -8.615850e-47 |
| Msa0002060 | Msa0528870 | 0.804080 | 2.564522e-49 | -8.615850e-47 |
| Msa0003470 | Msa0528870 | 0.821575 | 3.753457e-53 | -8.615850e-47 |
| Msa0005160 | Msa0528870 | 0.833602 | 4.853887e-56 | -8.615850e-47 |
| Msa0006050 | Msa0528870 | 0.801653 | 8.136215e-49 | -8.615850e-47 |
| Msa0006580 | Msa0528870 | 0.820040 | 8.462227e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528870 | MtrunA17_Chr3g0087871 | 96.311 | 244 | 7 | 2 | 1 | 244 | 1 | 242 | 4.52e-171 | 471 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528870 | AT3G63540.1 | 78.261 | 138 | 30 | 0 | 106 | 243 | 3 | 140 | 4.30e-82 | 242 |
Find 48 sgRNAs with CRISPR-Local
Find 55 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACGTTCCTTCCAACCTTC+TGG | 0.272048 | 4_1:+1847884 | None:intergenic |
| AATATCTAACTTTCCTTTCT+GGG | 0.289515 | 4_1:-1847787 | Msa0528870:CDS |
| AATTTGCAAGATATTATTAG+TGG | 0.515902 | 4_1:-1847707 | Msa0528870:CDS |
| AGGAGGTGATGTTGTGAGAA+TGG | 0.523239 | 4_1:+1848030 | None:intergenic |
| AGGTGATGTTGTGAGAATGG+TGG | 0.683595 | 4_1:+1848033 | None:intergenic |
| CGACGTTCCAGAAGGTTGGA+AGG | 0.585452 | 4_1:-1847891 | Msa0528870:CDS |
| CTAACTGACGAAACCCAGAA+AGG | 0.634618 | 4_1:+1847774 | None:intergenic |
| GAAGAAGTGAAAGATGATAA+GGG | 0.493393 | 4_1:-1847665 | Msa0528870:CDS |
| GAATATCTAACTTTCCTTTC+TGG | 0.121727 | 4_1:-1847788 | Msa0528870:CDS |
| GAGGAGGAGAAAATGGGTGG+TGG | 0.570174 | 4_1:+1848181 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTGTGTTTGAATGAGATAAG+AGG | + | chr4_1:1847598-1847617 | None:intergenic | 30.0% | |
| GAATATCTAACTTTCCTTTC+TGG | - | chr4_1:1847910-1847929 | Msa0528870:CDS | 30.0% | |
| TGAAGAAGTGAAAGATGATA+AGG | - | chr4_1:1848032-1848051 | Msa0528870:CDS | 30.0% | |
| GAAGAAGTGAAAGATGATAA+GGG | - | chr4_1:1848033-1848052 | Msa0528870:CDS | 30.0% | |
| TCTTTCTCTGTTCTCTTCTT+TGG | + | chr4_1:1847892-1847911 | None:intergenic | 35.0% | |
| TCCTGAGTGGAATAAAGATA+AGG | - | chr4_1:1848161-1848180 | Msa0528870:CDS | 35.0% | |
| TCCTTATCTTTATTCCACTC+AGG | + | chr4_1:1848165-1848184 | None:intergenic | 35.0% | |
| TCTCCCTACAATCTCTACTA+CGG | - | chr4_1:1847709-1847728 | Msa0528870:CDS | 40.0% | |
| TTCTGCTGAGTCTTTCTTGT+TGG | + | chr4_1:1847779-1847798 | None:intergenic | 40.0% | |
| TCTTTATTCCACTCAGGAGT+AGG | + | chr4_1:1848159-1848178 | None:intergenic | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 1847493 | 1848227 | 1847493 | ID=Msa0528870;Name=Msa0528870 |
| chr4_1 | mRNA | 1847493 | 1848227 | 1847493 | ID=Msa0528870-mRNA-1;Parent=Msa0528870;Name=Msa0528870-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|244 |
| chr4_1 | exon | 1847493 | 1848227 | 1847493 | ID=Msa0528870-mRNA-1:exon:569;Parent=Msa0528870-mRNA-1 |
| chr4_1 | CDS | 1847493 | 1848227 | 1847493 | ID=Msa0528870-mRNA-1:cds;Parent=Msa0528870-mRNA-1 |
| Gene Sequence |
>Msa0528870 ATGGCCACAATTTTCTCATCATCACCACCACCCATTTTCTCCTCCTCCTCCACCAGCACCACCACCACCACAACAACCACCACAACCACCACAATATCAAAACCTCTTATCTCATTCAAACACAAACAACCTCTAATAACCACCACCTTAACAGCAGCAGCAGCAGCTATAGCCACCATTCTCACAACATCACCTCCTTCCATAGCAGCAGAATCATCTCCCTACAATCTCTACTACGGCACAGCAGCAAGTGCAGCAAACTACGGCGGCTACGGCGGAAACTCCAACAAGAAAGACTCAGCAGAATACATCTACGACGTTCCAGAAGGTTGGAAGGAACGTTTAATATCAAAAGTTGAAAAAGGTACAAATGGAACAGACAGTGAATTCTACAATCCAAAGAAGAGAACAGAGAAAGAATATCTAACTTTCCTTTCTGGGTTTCGTCAGTTAGCACCAAAAGATGCTGTTTTGAACAACTTAGCACTTTCTGATGTGAATTTGCAAGATATTATTAGTGGTGCTGATAATGTGAGTTCTGAAGAAGTGAAAGATGATAAGGGTCAAGTTTATTATGTTTATGAGATTGATGGTGTTGCTTATCATAGCTTGATTTCTGTTACTTGTGCTAATAATAAGCTTTATGCTCATTTTGTTAATGCTCCTACTCCTGAGTGGAATAAAGATAAGGATCTTCTCACTCATGTTCATAAGTCTTTTAAGACTATTGTATAA |
| Protein sequence |
>Msa0528870 MATIFSSSPPPIFSSSSTSTTTTTTTTTTTTISKPLISFKHKQPLITTTLTAAAAAIATILTTSPPSIAAESSPYNLYYGTAASAANYGGYGGNSNKKDSAEYIYDVPEGWKERLISKVEKGTNGTDSEFYNPKKRTEKEYLTFLSGFRQLAPKDAVLNNLALSDVNLQDIISGADNVSSEEVKDDKGQVYYVYEIDGVAYHSLISVTCANNKLYAHFVNAPTPEWNKDKDLLTHVHKSFKTIV* |
