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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0645820 | XP_003606838.2 | 92.754 | 138 | 9 | 1 | 1 | 137 | 1 | 138 | 5.92e-84 | 255 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa0645820 | 0.840358 | 9.126605e-58 | -8.615850e-47 |
| Msa0000780 | Msa0645820 | 0.835820 | 1.343118e-56 | -8.615850e-47 |
| Msa0001460 | Msa0645820 | 0.835356 | 1.759494e-56 | -8.615850e-47 |
| Msa0001540 | Msa0645820 | 0.839220 | 1.805144e-57 | -8.615850e-47 |
| Msa0003470 | Msa0645820 | 0.816502 | 5.350634e-52 | -8.615850e-47 |
| Msa0005690 | Msa0645820 | 0.801210 | 1.002399e-48 | -8.615850e-47 |
| Msa0006700 | Msa0645820 | 0.807346 | 5.287325e-50 | -8.615850e-47 |
| Msa0007450 | Msa0645820 | 0.802123 | 6.512624e-49 | -8.615850e-47 |
| Msa0008250 | Msa0645820 | 0.818832 | 1.595150e-52 | -8.615850e-47 |
| Msa0008850 | Msa0645820 | 0.818893 | 1.545068e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0645820 | MtrunA17_Chr4g0033921 | 92.754 | 138 | 9 | 1 | 1 | 137 | 1 | 138 | 5.44e-88 | 255 |
Find 128 sgRNAs with CRISPR-Local
Find 217 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGAGAAAGAAAGGGATA+AGG | 0.524180 | 4_3:+51255418 | Msa0645820:five_prime_UTR |
| AAACACAGAAGGTATTTGAC+CGG | 0.527893 | 4_3:+51256544 | Msa0645820:CDS |
| AAATACAGGAAGTGATAAAA+TGG | 0.232913 | 4_3:-51257450 | None:intergenic |
| AAATCACCGTTTAATTTAAA+AGG | 0.181426 | 4_3:-51258725 | None:intergenic |
| AACAGAGAAATCCCACAAGG+TGG | 0.675602 | 4_3:-51257488 | None:intergenic |
| AACTCCAATTCCATTACACT+AGG | 0.641122 | 4_3:+51255496 | Msa0645820:CDS |
| AACTCTCACTCCTAGTGTAA+TGG | 0.494044 | 4_3:-51255506 | None:intergenic |
| AAGTAATTAAGTTAAAATTC+AGG | 0.302060 | 4_3:-51257777 | None:intergenic |
| AAGTGCAAAAGAGAAAGAAA+GGG | 0.589842 | 4_3:+51255412 | Msa0645820:five_prime_UTR |
| AAGTGTTTCCTTGATATTCA+TGG | 0.319966 | 4_3:+51257375 | Msa0645820:three_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAAGTGCAAAAGAGAAAGAA+AGG | + | chr4_3:51255411-51255430 | Msa0645820:five_prime_UTR | 30.0% | |
| AAGTGCAAAAGAGAAAGAAA+GGG | + | chr4_3:51255412-51255431 | Msa0645820:five_prime_UTR | 30.0% | |
| AAAAGAGAAAGAAAGGGATA+AGG | + | chr4_3:51255418-51255437 | Msa0645820:five_prime_UTR | 30.0% | |
| ATGAGTATCAATTGAAACAC+AGG | + | chr4_3:51255442-51255461 | Msa0645820:five_prime_UTR | 30.0% | |
| TGTATCTTATTATCATCTCC+TGG | - | chr4_3:51255921-51255940 | None:intergenic | 30.0% | |
| ATCAATCAACTTGATGAACT+AGG | + | chr4_3:51255995-51256014 | Msa0645820:intron | 30.0% | |
| GAAACAAATTAAATCCCACA+GGG | - | chr4_3:51256066-51256085 | None:intergenic | 30.0% | |
| AGAAACAAATTAAATCCCAC+AGG | - | chr4_3:51256067-51256086 | None:intergenic | 30.0% | |
| ATTCATTGCTAGATTGTGAT+AGG | + | chr4_3:51256737-51256756 | Msa0645820:three_prime_UTR | 30.0% | |
| TTCATTGCTAGATTGTGATA+GGG | + | chr4_3:51256738-51256757 | Msa0645820:three_prime_UTR | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 51255408 | 51258770 | 51255408 | ID=Msa0645820;Name=Msa0645820 |
| chr4_3 | mRNA | 51255408 | 51258770 | 51255408 | ID=Msa0645820-mRNA-1;Parent=Msa0645820;Name=Msa0645820-mRNA-1;_AED=0.09;_eAED=0.09;_QI=67|1|1|1|0.8|0.83|6|1721|141 |
| chr4_3 | exon | 51255408 | 51255602 | 51255408 | ID=Msa0645820-mRNA-1:exon:12362;Parent=Msa0645820-mRNA-1 |
| chr4_3 | exon | 51255689 | 51255762 | 51255689 | ID=Msa0645820-mRNA-1:exon:12363;Parent=Msa0645820-mRNA-1 |
| chr4_3 | exon | 51255847 | 51255941 | 51255847 | ID=Msa0645820-mRNA-1:exon:12364;Parent=Msa0645820-mRNA-1 |
| chr4_3 | exon | 51256519 | 51257846 | 51256519 | ID=Msa0645820-mRNA-1:exon:12365;Parent=Msa0645820-mRNA-1 |
| chr4_3 | exon | 51258166 | 51258267 | 51258166 | ID=Msa0645820-mRNA-1:exon:12366;Parent=Msa0645820-mRNA-1 |
| chr4_3 | exon | 51258351 | 51258770 | 51258351 | ID=Msa0645820-mRNA-1:exon:12367;Parent=Msa0645820-mRNA-1 |
| chr4_3 | five_prime_UTR | 51255408 | 51255474 | 51255408 | ID=Msa0645820-mRNA-1:five_prime_utr;Parent=Msa0645820-mRNA-1 |
| chr4_3 | CDS | 51255475 | 51255602 | 51255475 | ID=Msa0645820-mRNA-1:cds;Parent=Msa0645820-mRNA-1 |
| chr4_3 | CDS | 51255689 | 51255762 | 51255689 | ID=Msa0645820-mRNA-1:cds;Parent=Msa0645820-mRNA-1 |
| chr4_3 | CDS | 51255847 | 51255941 | 51255847 | ID=Msa0645820-mRNA-1:cds;Parent=Msa0645820-mRNA-1 |
| chr4_3 | CDS | 51256519 | 51256647 | 51256519 | ID=Msa0645820-mRNA-1:cds;Parent=Msa0645820-mRNA-1 |
| chr4_3 | three_prime_UTR | 51256648 | 51257846 | 51256648 | ID=Msa0645820-mRNA-1:three_prime_utr;Parent=Msa0645820-mRNA-1 |
| chr4_3 | three_prime_UTR | 51258166 | 51258267 | 51258166 | ID=Msa0645820-mRNA-1:three_prime_utr;Parent=Msa0645820-mRNA-1 |
| chr4_3 | three_prime_UTR | 51258351 | 51258770 | 51258351 | ID=Msa0645820-mRNA-1:three_prime_utr;Parent=Msa0645820-mRNA-1 |
| Gene Sequence |
>Msa0645820 ATGTCGATGATTGCTGTCTCCAACTCCAATTCCATTACACTAGGAGTGAGAGTTGCTTCATTCACAACTCCAAATGCTAAATCAAGAGCACTCACTTTTTCTCTGTCTCTGTCTCCATGGAGAAGAAGCTTAGATAGTCTCTCTACTTCCAATGGAACAACTCTCAGACATCTTAATACTCCAATTTCAGCTGTTAATTCAGGTTTAGAAGCATCAATTACAGATTCCAATGATATTTCAGCATTCTTAACAGATGCCACTGTAGTTGCAGAACCAGGAGATGATAATAAGATACAATTAAGAGTGGACTTGACTGGTGTTCAAACACAGAAGGTATTTGACCGGATTCTTATAAACTTAGGCCGTACGGCCCCACCAGTGCCTGGATTTCGCATGCAAAAAGGAGGTAAAAAGTTTCTTTATTAA |
| Protein sequence |
>Msa0645820 MSMIAVSNSNSITLGVRVASFTTPNAKSRALTFSLSLSPWRRSLDSLSTSNGTTLRHLNTPISAVNSGLEASITDSNDISAFLTDATVVAEPGDDNKIQLRVDLTGVQTQKVFDRILINLGRTAPPVPGFRMQKGGKKFLY* |
