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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0487480 | XP_003598118.2 | 89.568 | 278 | 15 | 2 | 1 | 264 | 108 | 385 | 1.41e-166 | 476 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001510 | Msa0487480 | 0.849785 | 2.587462e-60 | -8.615850e-47 |
| Msa0002110 | Msa0487480 | 0.855746 | 5.128980e-62 | -8.615850e-47 |
| Msa0002690 | Msa0487480 | 0.857706 | 1.359223e-62 | -8.615850e-47 |
| Msa0002700 | Msa0487480 | 0.845716 | 3.414314e-59 | -8.615850e-47 |
| Msa0003340 | Msa0487480 | 0.844867 | 5.792506e-59 | -8.615850e-47 |
| Msa0004180 | Msa0487480 | 0.888457 | 5.807136e-73 | -8.615850e-47 |
| Msa0005190 | Msa0487480 | 0.801546 | 8.556259e-49 | -8.615850e-47 |
| Msa0007570 | Msa0487480 | 0.864749 | 9.716717e-65 | -8.615850e-47 |
| Msa0007810 | Msa0487480 | 0.847215 | 1.331404e-59 | -8.615850e-47 |
| Msa0011060 | Msa0487480 | 0.830521 | 2.803040e-55 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0487480 | MtrunA17_Chr3g0078481 | 89.568 | 278 | 15 | 2 | 1 | 264 | 106 | 383 | 1.53e-170 | 476 |
| Msa0487480 | MtrunA17_Chr3g0114921 | 67.636 | 275 | 72 | 4 | 1 | 259 | 170 | 443 | 2.35e-127 | 369 |
| Msa0487480 | MtrunA17_Chr3g0114931 | 62.094 | 277 | 83 | 6 | 1 | 261 | 169 | 439 | 2.71e-101 | 302 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0487480 | AT2G41705.3 | 58.519 | 270 | 101 | 3 | 1 | 259 | 187 | 456 | 3.30e-96 | 290 |
| Msa0487480 | AT2G41705.2 | 58.519 | 270 | 101 | 3 | 1 | 259 | 187 | 456 | 3.30e-96 | 290 |
| Msa0487480 | AT2G41705.4 | 58.519 | 270 | 101 | 3 | 1 | 259 | 187 | 456 | 3.30e-96 | 290 |
| Msa0487480 | AT2G41705.1 | 58.519 | 270 | 101 | 3 | 1 | 259 | 187 | 456 | 3.30e-96 | 290 |
Find 79 sgRNAs with CRISPR-Local
Find 196 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACAGCTAAAGGTTTCAAG+TGG | 0.608710 | 3_4:-6384002 | Msa0487480:CDS |
| AAAGTAGAGACCATATTAGA+AGG | 0.455328 | 3_4:+6385290 | None:intergenic |
| AAATTCCAGGTAGCCATAGA+AGG | 0.448639 | 3_4:-6382812 | Msa0487480:three_prime_UTR |
| AACAAATTGCAGCTTCATCT+TGG | 0.384111 | 3_4:-6386606 | Msa0487480:five_prime_UTR |
| AACTCAGTGTTACTGGGAAT+TGG | 0.357866 | 3_4:-6384746 | Msa0487480:CDS |
| AACTTTGGCAATTCTTTACT+AGG | 0.383927 | 3_4:+6386229 | None:intergenic |
| AAGTTATTTGGCCCTAGTGT+CGG | 0.566597 | 3_4:-6385353 | Msa0487480:five_prime_UTR |
| AATTCATCCATTCTCCAAAT+AGG | 0.275234 | 3_4:+6382837 | None:intergenic |
| AATTGGCTCTTTGTTCTGCT+TGG | 0.375385 | 3_4:-6384729 | Msa0487480:CDS |
| AGATTCTGAAGACATACAAC+AGG | 0.496202 | 3_4:-6386508 | Msa0487480:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAAAATAGAGGAGACAGAAT+TGG | + | chr3_4:6382761-6382780 | None:intergenic | 30.0% | |
| AGATGTTAAGGGAAAAATAG+AGG | + | chr3_4:6382773-6382792 | None:intergenic | 30.0% | |
| GACATTTGTTCAGATGTTAA+GGG | + | chr3_4:6382784-6382803 | None:intergenic | 30.0% | |
| TCTTTCAATGCTTAAAAGAG+GGG | + | chr3_4:6382806-6382825 | None:intergenic | 30.0% | |
| CTCTTTCAATGCTTAAAAGA+GGG | + | chr3_4:6382807-6382826 | None:intergenic | 30.0% | |
| TCTCTTTCAATGCTTAAAAG+AGG | + | chr3_4:6382808-6382827 | None:intergenic | 30.0% | |
| AACTTTGGCAATTCTTTACT+AGG | + | chr3_4:6383110-6383129 | None:intergenic | 30.0% | |
| GTAATGGTCAAATGGAAATA+AGG | + | chr3_4:6383249-6383268 | None:intergenic | 30.0% | |
| ATATGAGTACTATAGTGAAC+TGG | + | chr3_4:6383359-6383378 | None:intergenic | 30.0% | |
| GTTTATAATATCGGTCGTAT+AGG | - | chr3_4:6383583-6383602 | Msa0487480:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 6382656 | 6386702 | 6382656 | ID=Msa0487480;Name=Msa0487480 |
| chr3_4 | mRNA | 6382656 | 6386702 | 6382656 | ID=Msa0487480-mRNA-1;Parent=Msa0487480;Name=Msa0487480-mRNA-1;_AED=0.03;_eAED=0.03;_QI=374|1|1|1|0.2|0.16|6|177|264 |
| chr3_4 | exon | 6382656 | 6383051 | 6382656 | ID=Msa0487480-mRNA-1:exon:2181;Parent=Msa0487480-mRNA-1 |
| chr3_4 | exon | 6383684 | 6384063 | 6383684 | ID=Msa0487480-mRNA-1:exon:2180;Parent=Msa0487480-mRNA-1 |
| chr3_4 | exon | 6384718 | 6384910 | 6384718 | ID=Msa0487480-mRNA-1:exon:2179;Parent=Msa0487480-mRNA-1 |
| chr3_4 | exon | 6385301 | 6385399 | 6385301 | ID=Msa0487480-mRNA-1:exon:2178;Parent=Msa0487480-mRNA-1 |
| chr3_4 | exon | 6386177 | 6386260 | 6386177 | ID=Msa0487480-mRNA-1:exon:2177;Parent=Msa0487480-mRNA-1 |
| chr3_4 | exon | 6386509 | 6386702 | 6386509 | ID=Msa0487480-mRNA-1:exon:2176;Parent=Msa0487480-mRNA-1 |
| chr3_4 | five_prime_UTR | 6386509 | 6386702 | 6386509 | ID=Msa0487480-mRNA-1:five_prime_utr;Parent=Msa0487480-mRNA-1 |
| chr3_4 | five_prime_UTR | 6386177 | 6386260 | 6386177 | ID=Msa0487480-mRNA-1:five_prime_utr;Parent=Msa0487480-mRNA-1 |
| chr3_4 | five_prime_UTR | 6385304 | 6385399 | 6385304 | ID=Msa0487480-mRNA-1:five_prime_utr;Parent=Msa0487480-mRNA-1 |
| chr3_4 | CDS | 6385301 | 6385303 | 6385301 | ID=Msa0487480-mRNA-1:cds;Parent=Msa0487480-mRNA-1 |
| chr3_4 | CDS | 6384718 | 6384910 | 6384718 | ID=Msa0487480-mRNA-1:cds;Parent=Msa0487480-mRNA-1 |
| chr3_4 | CDS | 6383684 | 6384063 | 6383684 | ID=Msa0487480-mRNA-1:cds;Parent=Msa0487480-mRNA-1 |
| chr3_4 | CDS | 6382833 | 6383051 | 6382833 | ID=Msa0487480-mRNA-1:cds;Parent=Msa0487480-mRNA-1 |
| chr3_4 | three_prime_UTR | 6382656 | 6382832 | 6382656 | ID=Msa0487480-mRNA-1:three_prime_utr;Parent=Msa0487480-mRNA-1 |
| Gene Sequence |
>Msa0487480 ATGGTTGGTTCTTTTCTTATGGGATGGTTTGGTGTTGTATTCAAAGAAGACATATCAAATGTGTCCAAGTATCTGGCTGTTGCACTAACAACTGGTTACTTTGGGAGTCTAACAACGTTCAGCGGCTGGAATCAGAAAATGCTTGAACTCAGTGTTACTGGGAATTGGCTCTTTGTTCTGCTTGGCTTTCTAATAGGGTTATTTCTTGTTGCCTTTTCCATCATATTTGGGATAGAAACAGCTAAAGGTTTCAAGTGGCTTCTTATAAGGCTAAACTTGACTTCTTATAAGGCTAAACACTTAGCAGTTATAGTGGTGTTTTTGCTGATTTTAGGCTTGTTATGGGGTATTAGTGGTGTATTAATGATTGCTGAATTCAAGAATGGTGAAAATGCTTATCTGTGGATCGCTTGCATGGTTGGACCTCTTGGTGTGTGGATTAGATGGCTTTTATCCCGATTAAATGGACACGGATTAGGATCAAGAGGTTTGTTGAGTTGGATGCGATTTGGAACTCTAATTGCAAATGTCTCTGCTGCTTGTATCATGGCTGCACTTGCTACAACAAAGATATACGTGAACACCAGAGATTGTGATACTATTGTAAAAGGCATACAGTTTGGCCTGATGGGTTGTTTGAGCACTGTCTCTACCTTTGTTGCCGAGTTCAATGAAATGAGAGAAAGCGAGCATCCTTGGAGAGCATATGTTTATACTATAATCACAATTTGTTCCTCATTCTTTTTAGGGATCTTAATATACTGTGTGCCTATTTGGAGAATGGATGAATTATAA |
| Protein sequence |
>Msa0487480 MVGSFLMGWFGVVFKEDISNVSKYLAVALTTGYFGSLTTFSGWNQKMLELSVTGNWLFVLLGFLIGLFLVAFSIIFGIETAKGFKWLLIRLNLTSYKAKHLAVIVVFLLILGLLWGISGVLMIAEFKNGENAYLWIACMVGPLGVWIRWLLSRLNGHGLGSRGLLSWMRFGTLIANVSAACIMAALATTKIYVNTRDCDTIVKGIQFGLMGCLSTVSTFVAEFNEMRESEHPWRAYVYTIITICSSFFLGILIYCVPIWRMDEL* |
