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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0288240 | XP_013441989.1 | 97.340 | 188 | 5 | 0 | 1 | 188 | 1 | 188 | 4.39e-131 | 375 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0288240 | sp|Q9M098|EBFC1_ARATH | 72.903 | 155 | 37 | 2 | 38 | 188 | 27 | 180 | 4.88e-76 | 228 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0288240 | A0A072TEN7 | 97.340 | 188 | 5 | 0 | 1 | 188 | 1 | 188 | 2.10e-131 | 375 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000490 | Msa0288240 | -0.862282 | 5.658571e-64 | -8.615850e-47 |
| Msa0000780 | Msa0288240 | 0.839230 | 1.793924e-57 | -8.615850e-47 |
| Msa0001950 | Msa0288240 | 0.817996 | 2.467958e-52 | -8.615850e-47 |
| Msa0003470 | Msa0288240 | 0.867044 | 1.828324e-65 | -8.615850e-47 |
| Msa0005350 | Msa0288240 | 0.836002 | 1.207507e-56 | -8.615850e-47 |
| Msa0006700 | Msa0288240 | 0.856746 | 2.611590e-62 | -8.615850e-47 |
| Msa0006820 | Msa0288240 | 0.812478 | 4.154789e-51 | -8.615850e-47 |
| Msa0007450 | Msa0288240 | 0.814295 | 1.656520e-51 | -8.615850e-47 |
| Msa0008850 | Msa0288240 | 0.921022 | 6.091027e-88 | -8.615850e-47 |
| Msa0011720 | Msa0288240 | 0.850717 | 1.417856e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0288240 | MtrunA17_Chr2g0305661 | 97.340 | 188 | 5 | 0 | 1 | 188 | 1 | 188 | 4.04e-135 | 375 |
| Msa0288240 | MtrunA17_Chr4g0073861 | 71.812 | 149 | 39 | 2 | 29 | 176 | 34 | 180 | 5.49e-71 | 213 |
| Msa0288240 | MtrunA17_Chr2g0322661 | 52.564 | 78 | 28 | 4 | 1 | 74 | 1 | 73 | 4.28e-13 | 66.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0288240 | AT4G30620.1 | 72.903 | 155 | 37 | 2 | 38 | 188 | 27 | 180 | 4.96e-77 | 228 |
| Msa0288240 | AT2G24020.1 | 79.710 | 138 | 27 | 1 | 52 | 188 | 45 | 182 | 3.33e-76 | 226 |
| Msa0288240 | AT2G24020.2 | 79.710 | 138 | 27 | 1 | 52 | 188 | 43 | 180 | 4.33e-76 | 226 |
Find 72 sgRNAs with CRISPR-Local
Find 508 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATCTTTGAAAACAAATCA+AGG | 0.541686 | 2_3:-32651597 | Msa0288240:three_prime_UTR |
| AAGTGATGATGCACCTTCTA+AGG | 0.328196 | 2_3:-32656976 | Msa0288240:intron |
| AATCCTTCACCAAGCCCAGG+TGG | 0.668188 | 2_3:+32652059 | None:intergenic |
| AATGATCTTGCACAGAGCTT+AGG | 0.476442 | 2_3:-32652086 | Msa0288240:CDS |
| ACACACCCTTTGCTTTCGCA+AGG | 0.581297 | 2_3:+32657444 | None:intergenic |
| ACTGAGGCAGCTATGGAATT+GGG | 0.474312 | 2_3:-32655043 | Msa0288240:CDS |
| ACTTCCCTTGATGAAGGATT+AGG | 0.294857 | 2_3:-32651747 | Msa0288240:three_prime_UTR |
| AGAAATTACTGAGGCAGCTA+TGG | 0.451947 | 2_3:-32655050 | Msa0288240:CDS |
| AGAAGATTTACGGAGAGAAA+GGG | 0.515481 | 2_3:+32657335 | None:intergenic |
| AGAATGTAAGCCTATCCATC+AGG | 0.535165 | 2_3:+32651970 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CGTGTCAACTATATTTGAAT+TGG | + | chr2_3:32651946-32651965 | None:intergenic | 30.0% | |
| TTTCGATTATATGGCCTATT+CGG | - | chr2_3:32652023-32652042 | Msa0288240:three_prime_UTR | 30.0% | |
| TTAAGTTAGCTAACCTTAGA+AGG | + | chr2_3:32652080-32652099 | None:intergenic | 30.0% | |
| CTAACTTAACGTGTATGTAT+AGG | - | chr2_3:32652091-32652110 | Msa0288240:CDS | 30.0% | |
| TAACGTGTATGTATAGGATT+AGG | - | chr2_3:32652097-32652116 | Msa0288240:CDS | 30.0% | |
| GTATGTATAGGATTAGGATT+AGG | - | chr2_3:32652103-32652122 | Msa0288240:CDS | 30.0% | |
| GCATCTAGTAATTTGAAAAG+AGG | - | chr2_3:32652407-32652426 | Msa0288240:intron | 30.0% | |
| GGACAAAAACAAAGTCAAAT+GGG | - | chr2_3:32652441-32652460 | Msa0288240:intron | 30.0% | |
| TCAAATGGGTGCTTAAATAT+AGG | - | chr2_3:32652455-32652474 | Msa0288240:intron | 30.0% | |
| CAAATGGGTGCTTAAATATA+GGG | - | chr2_3:32652456-32652475 | Msa0288240:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 32651581 | 32657481 | 32651581 | ID=Msa0288240;Name=Msa0288240 |
| chr2_3 | mRNA | 32651581 | 32657481 | 32651581 | ID=Msa0288240-mRNA-1;Parent=Msa0288240;Name=Msa0288240-mRNA-1;_AED=0.00;_eAED=0.00;_QI=69|1|1|1|1|1|7|471|188 |
| chr2_3 | exon | 32651581 | 32652126 | 32651581 | ID=Msa0288240-mRNA-1:exon:10874;Parent=Msa0288240-mRNA-1 |
| chr2_3 | exon | 32652301 | 32652357 | 32652301 | ID=Msa0288240-mRNA-1:exon:10873;Parent=Msa0288240-mRNA-1 |
| chr2_3 | exon | 32655036 | 32655107 | 32655036 | ID=Msa0288240-mRNA-1:exon:10872;Parent=Msa0288240-mRNA-1 |
| chr2_3 | exon | 32655485 | 32655524 | 32655485 | ID=Msa0288240-mRNA-1:exon:10871;Parent=Msa0288240-mRNA-1 |
| chr2_3 | exon | 32656408 | 32656508 | 32656408 | ID=Msa0288240-mRNA-1:exon:10870;Parent=Msa0288240-mRNA-1 |
| chr2_3 | exon | 32656977 | 32657131 | 32656977 | ID=Msa0288240-mRNA-1:exon:10869;Parent=Msa0288240-mRNA-1 |
| chr2_3 | exon | 32657346 | 32657481 | 32657346 | ID=Msa0288240-mRNA-1:exon:10868;Parent=Msa0288240-mRNA-1 |
| chr2_3 | five_prime_UTR | 32657413 | 32657481 | 32657413 | ID=Msa0288240-mRNA-1:five_prime_utr;Parent=Msa0288240-mRNA-1 |
| chr2_3 | CDS | 32657346 | 32657412 | 32657346 | ID=Msa0288240-mRNA-1:cds;Parent=Msa0288240-mRNA-1 |
| chr2_3 | CDS | 32656977 | 32657131 | 32656977 | ID=Msa0288240-mRNA-1:cds;Parent=Msa0288240-mRNA-1 |
| chr2_3 | CDS | 32656408 | 32656508 | 32656408 | ID=Msa0288240-mRNA-1:cds;Parent=Msa0288240-mRNA-1 |
| chr2_3 | CDS | 32655485 | 32655524 | 32655485 | ID=Msa0288240-mRNA-1:cds;Parent=Msa0288240-mRNA-1 |
| chr2_3 | CDS | 32655036 | 32655107 | 32655036 | ID=Msa0288240-mRNA-1:cds;Parent=Msa0288240-mRNA-1 |
| chr2_3 | CDS | 32652301 | 32652357 | 32652301 | ID=Msa0288240-mRNA-1:cds;Parent=Msa0288240-mRNA-1 |
| chr2_3 | CDS | 32652052 | 32652126 | 32652052 | ID=Msa0288240-mRNA-1:cds;Parent=Msa0288240-mRNA-1 |
| chr2_3 | three_prime_UTR | 32651581 | 32652051 | 32651581 | ID=Msa0288240-mRNA-1:three_prime_utr;Parent=Msa0288240-mRNA-1 |
| Gene Sequence |
>Msa0288240 ATGGCGTCCATGGTCTCTCTCTCAAACGCAATCGGATTATGTCATACCAAAAATACCCTTTCTCTCCGTAAACTGAACTCCAATTCAAATATAGTTGACACGAAGATATTTTCCGGTCGTCGTCACGTTTGTAAAAAAGTTGGAGATGAACGAAGATGTTTTCGATTATATGGCCTATTCGGAGGGAAAAAAGATGAGAAAAGTGATGATGCACCTTCTAAGGCAGGAATTCTTGGAAACATGCAAAACCTGTTTGAGACTGTGAAGAAGGCACAAATGGTTGTCCAAGTTGAAGCAGTGAGGGTCCAGAAAGAACTTGCAGCGGCTGAGTTTGATGGTTATTGTGAGGGTGAGTTAGTAAAGGTAACTCTGTCTGGAAACCAGCAACCTTTACGAACAGAAATTACTGAGGCAGCTATGGAATTGGGATCAGAAAAACTTTCGCTTTTAATCACCGAAGCTTACACGGAAGCACACCAGAGGAGTGTCCAGGGTATGAAGGAAAGGATGAATGATCTTGCACAGAGCTTAGGAATGCCACCTGGGCTTGGTGAAGGATTGAAGTGA |
| Protein sequence |
>Msa0288240 MASMVSLSNAIGLCHTKNTLSLRKLNSNSNIVDTKIFSGRRHVCKKVGDERRCFRLYGLFGGKKDEKSDDAPSKAGILGNMQNLFETVKKAQMVVQVEAVRVQKELAAAEFDGYCEGELVKVTLSGNQQPLRTEITEAAMELGSEKLSLLITEAYTEAHQRSVQGMKERMNDLAQSLGMPPGLGEGLK* |
